mRNA_S-dermatodea_contig10838.567.1 (mRNA) Saccorhiza dermatodea SderLu1190fm monoicous

You are viewing an mRNA, more information available on the corresponding polypeptide page

Overview
NamemRNA_S-dermatodea_contig10838.567.1
Unique NamemRNA_S-dermatodea_contig10838.567.1
TypemRNA
OrganismSaccorhiza dermatodea SderLu1190fm monoicous (Saccorhiza dermatodea SderLu1190fm monoicous)
Homology
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BLAST of mRNA_S-dermatodea_contig10838.567.1 vs. uniprot
Match: D7FRP7_ECTSI (General transcription factor IIH subunit n=2 Tax=Ectocarpus TaxID=2879 RepID=D7FRP7_ECTSI)

HSP 1 Score: 174 bits (442), Expect = 3.600e-51
Identity = 84/97 (86.60%), Postives = 92/97 (94.85%), Query Frame = 1 
Query:    1 VVVIYSSLSTCDPGDVHETVAKLKRHKVRSSVVGLGAEMFVLRRLTEETSGDYTVATDEGHYRDSLMAQCTPPPTQPG-QGALFADLVRMGFPAETQ 288
            VVVIYSSLSTCDPGD+HET+AKLK HKVR+SVVGLGAEMFVLRRLTEETSGDY++A DE HYR+SLMAQCTPPPT PG +GA+FADLVRMGFPAETQ
Sbjct:  170 VVVIYSSLSTCDPGDIHETIAKLKTHKVRASVVGLGAEMFVLRRLTEETSGDYSIAGDENHYRESLMAQCTPPPTPPGREGAMFADLVRMGFPAETQ 266
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BLAST of mRNA_S-dermatodea_contig10838.567.1 vs. uniprot
Match: A0A835ZF22_9STRA (General transcription factor IIH subunit n=1 Tax=Tribonema minus TaxID=303371 RepID=A0A835ZF22_9STRA)

HSP 1 Score: 132 bits (333), Expect = 3.460e-35
Identity = 60/91 (65.93%), Postives = 74/91 (81.32%), Query Frame = 1 
Query:    4 VVIYSSLSTCDPGDVHETVAKLKRHKVRSSVVGLGAEMFVLRRLTEETSGDYTVATDEGHYRDSLMAQCTPPPTQPGQGALFADLVRMGFP 276
            VV+Y SL TCDPG++ +T+A LKRHKVR SVVGLGAE+++ RR+ E+T GD+ VA DE HY+DSL+AQCTPPPT   +G  FADLV MGFP
Sbjct:  182 VVLYGSLHTCDPGNILDTIALLKRHKVRCSVVGLGAEVYIARRIAEDTGGDFVVAVDEHHYKDSLLAQCTPPPTLAKRGPHFADLVEMGFP 272
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BLAST of mRNA_S-dermatodea_contig10838.567.1 vs. uniprot
Match: A0A7S2Y0G9_9STRA (Hypothetical protein (Fragment) n=1 Tax=Fibrocapsa japonica TaxID=94617 RepID=A0A7S2Y0G9_9STRA)

HSP 1 Score: 109 bits (272), Expect = 4.690e-26
Identity = 52/102 (50.98%), Postives = 71/102 (69.61%), Query Frame = 1 
Query:    1 VVVIYSSLSTCDPGDVHETVAKLKRHKVRSSVVGLGAEMFVLRRLTEETSGDYTVATDEGHYRDSLMAQCTPPPTQPGQ--------GALFADLVRMGFPAE 282
            VVV+Y SLSTCDPGD+H T+ +L++ +VR SVV L AE+F+ R++ E T G + VA D GH R+ +MA C PPPT+ G         G ++ADLV+MGFP +
Sbjct:  201 VVVVYGSLSTCDPGDIHATLERLQKARVRVSVVHLSAELFICRKVVEGTGGAHGVAKDAGHMRELIMAHCRPPPTRSGGPQGGDGKCGPIYADLVKMGFPRQ 302
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BLAST of mRNA_S-dermatodea_contig10838.567.1 vs. uniprot
Match: A0A3L6Q4Y8_PANMI (GTF2H2 n=2 Tax=Panicum miliaceum TaxID=4540 RepID=A0A3L6Q4Y8_PANMI)

HSP 1 Score: 102 bits (254), Expect = 9.810e-25
Identity = 46/92 (50.00%), Postives = 66/92 (71.74%), Query Frame = 1 
Query:    1 VVVIYSSLSTCDPGDVHETVAKLKRHKVRSSVVGLGAEMFVLRRLTEETSGDYTVATDEGHYRDSLMAQCTPPPTQPGQGALFADLVRMGFP 276
            V+++YS+L+TCDPGD+ ET+ K K+ K+R SV+GL AE+F+ + L EET G YTVA DE H+++ L+    PPP      A  A+L++MGFP
Sbjct:   92 VLILYSALNTCDPGDIMETIEKCKKSKIRCSVIGLAAEIFICKHLCEETGGSYTVALDESHFKELLLEHAPPPPAIAEYAA--ANLIKMGFP 181
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BLAST of mRNA_S-dermatodea_contig10838.567.1 vs. uniprot
Match: UPI001CC5C31B (LOW QUALITY PROTEIN: general transcription factor IIH subunit 2-like n=1 Tax=Telopea speciosissima TaxID=54955 RepID=UPI001CC5C31B)

HSP 1 Score: 102 bits (255), Expect = 1.030e-24
Identity = 46/92 (50.00%), Postives = 68/92 (73.91%), Query Frame = 1 
Query:    1 VVVIYSSLSTCDPGDVHETVAKLKRHKVRSSVVGLGAEMFVLRRLTEETSGDYTVATDEGHYRDSLMAQCTPPPTQPGQGALFADLVRMGFP 276
            V+++YS++STCDPGDV ET+ K K+ K+R SVVGL AE+++ + L +ET G YTVA DE H+++ L+    PPP    + A+ A+L++MGFP
Sbjct:   92 VLILYSAVSTCDPGDVMETIQKCKKSKIRCSVVGLSAEIYLCKHLCQETGGSYTVALDESHFKELLLEHAPPPPAI-AEFAVHANLIKMGFP 182
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BLAST of mRNA_S-dermatodea_contig10838.567.1 vs. uniprot
Match: A0A5P1F293_ASPOF (C2H2-type domain-containing protein n=1 Tax=Asparagus officinalis TaxID=4686 RepID=A0A5P1F293_ASPOF)

HSP 1 Score: 103 bits (257), Expect = 1.170e-24
Identity = 49/92 (53.26%), Postives = 66/92 (71.74%), Query Frame = 1 
Query:    1 VVVIYSSLSTCDPGDVHETVAKLKRHKVRSSVVGLGAEMFVLRRLTEETSGDYTVATDEGHYRDSLMAQCTPPPTQPGQGALFADLVRMGFP 276
            V+V+YS+L+TCDPGD+ ETV K K+ K+R SVVGL AE+F+ + L EET G YTVA DE H+++ L+    PPP      A  A+L++MGFP
Sbjct:   85 VLVLYSALNTCDPGDIMETVKKCKKDKIRCSVVGLAAEIFICKHLCEETGGSYTVALDESHFKELLLEHAPPPPAIAEYAA--ANLIKMGFP 174
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BLAST of mRNA_S-dermatodea_contig10838.567.1 vs. uniprot
Match: A0A097PR43_CINCA (GTF2H2 (Fragment) n=1 Tax=Cinnamomum camphora TaxID=13429 RepID=A0A097PR43_CINCA)

HSP 1 Score: 102 bits (254), Expect = 1.850e-24
Identity = 47/92 (51.09%), Postives = 65/92 (70.65%), Query Frame = 1 
Query:    1 VVVIYSSLSTCDPGDVHETVAKLKRHKVRSSVVGLGAEMFVLRRLTEETSGDYTVATDEGHYRDSLMAQCTPPPTQPGQGALFADLVRMGFP 276
            V+++YS+LSTCDPGD+ ET+ K K+ K+R SV+GL AE+++ + L EET G YTVA DE H++D LM    PPP         A+L++MGFP
Sbjct:   57 VLILYSALSTCDPGDIIETIQKCKQAKIRCSVIGLSAEIYICKHLCEETGGSYTVALDESHFKDLLMEHAPPPPAI--AEFAVANLIKMGFP 146
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BLAST of mRNA_S-dermatodea_contig10838.567.1 vs. uniprot
Match: A0A0A9DDU4_ARUDO (C2H2-type domain-containing protein n=2 Tax=Poaceae TaxID=4479 RepID=A0A0A9DDU4_ARUDO)

HSP 1 Score: 102 bits (255), Expect = 2.540e-24
Identity = 47/92 (51.09%), Postives = 66/92 (71.74%), Query Frame = 1 
Query:    1 VVVIYSSLSTCDPGDVHETVAKLKRHKVRSSVVGLGAEMFVLRRLTEETSGDYTVATDEGHYRDSLMAQCTPPPTQPGQGALFADLVRMGFP 276
            V+++YS+L+TCDPGD+ ET+ K K+ K+R SV+GL AE+F+ + L EET G YTVA DE H+++ L+    PPP      A  A+LV+MGFP
Sbjct:   92 VLILYSALNTCDPGDIMETIEKCKKSKIRCSVIGLAAEIFICKHLCEETGGSYTVALDESHFKELLLEHAPPPPAIAEYAA--ANLVKMGFP 181
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BLAST of mRNA_S-dermatodea_contig10838.567.1 vs. uniprot
Match: A0A097PR17_ASPOF (GTF2H2 (Fragment) n=2 Tax=Asparagaceae TaxID=40552 RepID=A0A097PR17_ASPOF)

HSP 1 Score: 103 bits (257), Expect = 3.400e-24
Identity = 49/92 (53.26%), Postives = 66/92 (71.74%), Query Frame = 1 
Query:    1 VVVIYSSLSTCDPGDVHETVAKLKRHKVRSSVVGLGAEMFVLRRLTEETSGDYTVATDEGHYRDSLMAQCTPPPTQPGQGALFADLVRMGFP 276
            V+V+YS+L+TCDPGD+ ETV K K+ K+R SVVGL AE+F+ + L EET G YTVA DE H+++ L+    PPP      A  A+L++MGFP
Sbjct:  167 VLVLYSALNTCDPGDIMETVKKCKKDKIRCSVVGLAAEIFICKHLCEETGGSYTVALDESHFKELLLEHAPPPPAIAEYAA--ANLIKMGFP 256
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BLAST of mRNA_S-dermatodea_contig10838.567.1 vs. uniprot
Match: A0A8K0IFP8_COCNU (Putative General transcription factor IIH subunit 2 n=1 Tax=Cocos nucifera TaxID=13894 RepID=A0A8K0IFP8_COCNU)

HSP 1 Score: 99.8 bits (247), Expect = 4.390e-24
Identity = 44/92 (47.83%), Postives = 66/92 (71.74%), Query Frame = 1 
Query:    1 VVVIYSSLSTCDPGDVHETVAKLKRHKVRSSVVGLGAEMFVLRRLTEETSGDYTVATDEGHYRDSLMAQCTPPPTQPGQGALFADLVRMGFP 276
            V+++YS+L+TCDPGD+ ET+ K K+ K+R SV+GL AE+++ + L EET G YTVA DE H+++ L+    PPP      +  A+L++MGFP
Sbjct:   85 VLILYSALNTCDPGDIMETIQKCKKAKIRCSVIGLSAEIYICKHLCEETGGSYTVALDESHFKELLLEHAPPPPAIAEYAS--ANLIKMGFP 174
The following BLAST results are available for this feature:
BLAST of mRNA_S-dermatodea_contig10838.567.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 25
Match NameE-valueIdentityDescription
D7FRP7_ECTSI3.600e-5186.60General transcription factor IIH subunit n=2 Tax=E... [more]
A0A835ZF22_9STRA3.460e-3565.93General transcription factor IIH subunit n=1 Tax=T... [more]
A0A7S2Y0G9_9STRA4.690e-2650.98Hypothetical protein (Fragment) n=1 Tax=Fibrocapsa... [more]
A0A3L6Q4Y8_PANMI9.810e-2550.00GTF2H2 n=2 Tax=Panicum miliaceum TaxID=4540 RepID=... [more]
UPI001CC5C31B1.030e-2450.00LOW QUALITY PROTEIN: general transcription factor ... [more]
A0A5P1F293_ASPOF1.170e-2453.26C2H2-type domain-containing protein n=1 Tax=Aspara... [more]
A0A097PR43_CINCA1.850e-2451.09GTF2H2 (Fragment) n=1 Tax=Cinnamomum camphora TaxI... [more]
A0A0A9DDU4_ARUDO2.540e-2451.09C2H2-type domain-containing protein n=2 Tax=Poacea... [more]
A0A097PR17_ASPOF3.400e-2453.26GTF2H2 (Fragment) n=2 Tax=Asparagaceae TaxID=40552... [more]
A0A8K0IFP8_COCNU4.390e-2447.83Putative General transcription factor IIH subunit ... [more]

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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
S-dermatodea_contig10838contigS-dermatodea_contig10838:3337..3928 +
Analyses
This mRNA is derived from or has results from the following analyses
Analysis NameDate Performed
Diamond blastx: OGS1.0 vs UniRef902022-09-19
OGS1.0 of Saccorhiza dermatodea SderLu1190fm monoicous2021-02-24
Properties
Property NameValue
Taxonomic scopeEukaryota
Seed ortholog score174.1
Seed ortholog evalue3.3e-41
Seed eggNOG ortholog2880.D7FRP7
Preferred nameGTF2H2
KEGG rclassRC00002,RC00078
KEGG koko:K00889,ko:K01177,ko:K03142,ko:K14766
KEGG ReactionR02112,R03469,R11262
KEGG Pathwayko00500,ko00562,ko01100,ko03022,ko03420,ko04011,ko04070,ko04072,ko04139,ko04144,ko04666,ko04810,ko05203,ko05231,map00500,map00562,map01100,map03022,map03420,map04011,map04070,map04072,map04139,map04144,map04666,map04810,map05203,map05231
KEGG ModuleM00130,M00290
GOsGO:0000109,GO:0000112,GO:0000428,GO:0000438,GO:0000439,GO:0000988,GO:0000990,GO:0000991,GO:0001109,GO:0001111,GO:0001112,GO:0001113,GO:0001120,GO:0002029,GO:0002031,GO:0003674,GO:0003676,GO:0003700,GO:0003723,GO:0003824,GO:0004842,GO:0005488,GO:0005515,GO:0005575,GO:0005622,GO:0005623,GO:0005634,GO:0005654,GO:0005667,GO:0005669,GO:0005675,GO:0006139,GO:0006259,GO:0006281,GO:0006283,GO:0006289,GO:0006293,GO:0006294,GO:0006296,GO:0006351,GO:0006352,GO:0006353,GO:0006354,GO:0006355,GO:0006357,GO:0006360,GO:0006361,GO:0006363,GO:0006366,GO:0006367,GO:0006368,GO:0006370,GO:0006396,GO:0006397,GO:0006412,GO:0006464,GO:0006468,GO:0006518,GO:0006725,GO:0006793,GO:0006796,GO:0006807,GO:0006810,GO:0006897,GO:0006898,GO:0006950,GO:0006974,GO:0008135,GO:0008150,GO:0008152,GO:0008277,GO:0009058,GO:0009059,GO:0009314,GO:0009411,GO:0009416,GO:0009452,GO:0009628,GO:0009889,GO:0009966,GO:0009968,GO:0009987,GO:0010467,GO:0010468,GO:0010556,GO:0010646,GO:0010648,GO:0016043,GO:0016070,GO:0016071,GO:0016192,GO:0016310,GO:0016567,GO:0016591,GO:0016604,GO:0016607,GO:0016740,GO:0018130,GO:0019219,GO:0019222,GO:0019438,GO:0019538,GO:0019787,GO:0022401,GO:0022607,GO:0023051,GO:0023057,GO:0023058,GO:0030880,GO:0031323,GO:0031326,GO:0031334,GO:0031623,GO:0031974,GO:0031981,GO:0032446,GO:0032774,GO:0032806,GO:0032991,GO:0033554,GO:0033683,GO:0034367,GO:0034622,GO:0034641,GO:0034645,GO:0034654,GO:0036211,GO:0036260,GO:0043043,GO:0043112,GO:0043170,GO:0043226,GO:0043227,GO:0043229,GO:0043231,GO:0043233,GO:0043254,GO:0043412,GO:0043603,GO:0043604,GO:0043933,GO:0044085,GO:0044087,GO:0044089,GO:0044237,GO:0044238,GO:0044249,GO:0044260,GO:0044267,GO:0044271,GO:0044422,GO:0044424,GO:0044428,GO:0044446,GO:0044451,GO:0044464,GO:0044798,GO:0045744,GO:0046483,GO:0047485,GO:0048518,GO:0048519,GO:0048522,GO:0048523,GO:0048583,GO:0048585,GO:0050789,GO:0050794,GO:0050896,GO:0051128,GO:0051130,GO:0051171,GO:0051179,GO:0051234,GO:0051252,GO:0051716,GO:0055029,GO:0060255,GO:0061630,GO:0061659,GO:0061695,GO:0065003,GO:0065004,GO:0065007,GO:0070013,GO:0070647,GO:0070816,GO:0070911,GO:0071704,GO:0071824,GO:0071840,GO:0080090,GO:0090304,GO:0090305,GO:0090575,GO:0097159,GO:0097659,GO:0098657,GO:0140096,GO:0140110,GO:1901360,GO:1901362,GO:1901363,GO:1901564,GO:1901566,GO:1901576,GO:1902494,GO:1902554,GO:1902911,GO:1903506,GO:1990234,GO:1990391,GO:2000112,GO:2001141
EggNOG free text desc.nucleotide-excision repair
EggNOG OGsCOG5151@1,KOG2807@2759
Ec32 ortholog descriptionGeneral transcription factor II H, polypeptide 2
Ec32 orthologEc-00_003360.1
EC2.7.1.68,3.2.1.2
COG Functional cat.KL
CAZyGH14
Best tax levelEukaryota
Best eggNOG OGNA|NA|NA
BRITEko00000,ko00001,ko00002,ko01000,ko03009,ko03021,ko03400,ko04131
Hectar predicted targeting categoryother localisation
Exons2
Model size299
Cds size297
Stop1
Start0
Relationships

The following CDS feature(s) are a part of this mRNA:

Feature NameUnique NameSpeciesTypePosition
1622924176.1546986-CDS-S-dermatodea_contig10838:3336..34531622924176.1546986-CDS-S-dermatodea_contig10838:3336..3453Saccorhiza dermatodea SderLu1190fm monoicousCDSS-dermatodea_contig10838 3337..3453 +
1694079070.0410154-CDS-S-dermatodea_contig10838:3336..34531694079070.0410154-CDS-S-dermatodea_contig10838:3336..3453Saccorhiza dermatodea SderLu1190fm monoicousCDSS-dermatodea_contig10838 3337..3453 +
1622924176.1715596-CDS-S-dermatodea_contig10838:3748..39281622924176.1715596-CDS-S-dermatodea_contig10838:3748..3928Saccorhiza dermatodea SderLu1190fm monoicousCDSS-dermatodea_contig10838 3749..3928 +
1694079070.0613036-CDS-S-dermatodea_contig10838:3748..39281694079070.0613036-CDS-S-dermatodea_contig10838:3748..3928Saccorhiza dermatodea SderLu1190fm monoicousCDSS-dermatodea_contig10838 3749..3928 +


The following polypeptide feature(s) derives from this mRNA:

Feature NameUnique NameSpeciesTypePosition
mRNA_S-dermatodea_contig10838.567.1prot_S-dermatodea_contig10838.567.1Saccorhiza dermatodea SderLu1190fm monoicouspolypeptideS-dermatodea_contig10838 3337..3928 +


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_S-dermatodea_contig10838.567.1

>prot_S-dermatodea_contig10838.567.1 ID=prot_S-dermatodea_contig10838.567.1|Name=mRNA_S-dermatodea_contig10838.567.1|organism=Saccorhiza dermatodea SderLu1190fm monoicous|type=polypeptide|length=99bp
VVVIYSSLSTCDPGDVHETVAKLKRHKVRSSVVGLGAEMFVLRRLTEETS
GDYTVATDEGHYRDSLMAQCTPPPTQPGQGALFADLVRMGFPAETQVD*
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mRNA from alignment at S-dermatodea_contig10838:3337..3928+

Legend: CDSpolypeptide
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_S-dermatodea_contig10838.567.1 ID=mRNA_S-dermatodea_contig10838.567.1|Name=mRNA_S-dermatodea_contig10838.567.1|organism=Saccorhiza dermatodea SderLu1190fm monoicous|type=mRNA|length=592bp|location=Sequence derived from alignment at S-dermatodea_contig10838:3337..3928+ (Saccorhiza dermatodea SderLu1190fm monoicous)
GTTGTGGTGATTTACAGCAGCTTGAGCACGTGCGATCCGGGGGACGTCCA
CGAGACCGTCGCGAAGCTGAAGCGGCACAAAGTGCGCTCCTCAGTGGTCG
GTCTAGGCGCGGAGATGGTGAGAGAGTGGCGGTGTAAAGATGACTTGTAG
TGGCCACGGCGATGGCGGGGTTCGCAGGGGGAAAGGGGGCGCCGGGAGGT
TTGTACGTTTTTCTTGTGACTGTGCTCCAACGGGTTTATCAACAGGCGGT
CGAAAAAATCTCACGAAAGCGCAGCTTAACTCGTGTGCGTACCCACTTTT
GTACTGCTGTGTTGAGCGCCAGGATCTATTTCATCCAGCCAGCACACGGA
TCTTACCCCCCCTCCCGTCTCCCTCCTAATGTGGCTTGCGCGTGTTCACA
TGTTGGAGGCAGTTCGTTCTCAGACGACTGACTGAGGAGACAAGCGGCGA
TTACACCGTGGCAACCGACGAGGGACACTACCGAGACTCGCTGATGGCTC
AATGCACACCGCCGCCGACACAGCCGGGGCAAGGGGCGCTGTTCGCGGAC
CTCGTGCGCATGGGCTTTCCGGCAGAAACCCAGGTAGACTGA
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Coding sequence (CDS) from alignment at S-dermatodea_contig10838:3337..3928+

>mRNA_S-dermatodea_contig10838.567.1 ID=mRNA_S-dermatodea_contig10838.567.1|Name=mRNA_S-dermatodea_contig10838.567.1|organism=Saccorhiza dermatodea SderLu1190fm monoicous|type=CDS|length=594bp|location=Sequence derived from alignment at S-dermatodea_contig10838:3337..3928+ (Saccorhiza dermatodea SderLu1190fm monoicous)
GTTGTGGTGATTTACAGCAGCTTGAGCACGTGCGATCCGGGGGACGTCCA
CGAGACCGTCGCGAAGCTGAAGCGGCACAAAGTGCGCTCCTCAGTGGTCG
GTCTAGGCGCGGAGATGGTTGTGGTGATTTACAGCAGCTTGAGCACGTGC
GATCCGGGGGACGTCCACGAGACCGTCGCGAAGCTGAAGCGGCACAAAGT
GCGCTCCTCAGTGGTCGGTCTAGGCGCGGAGATGTTCGTTCTCAGACGAC
TGACTGAGGAGACAAGCGGCGATTACACCGTGGCAACCGACGAGGGACAC
TACCGAGACTCGCTGATGGCTCAATGCACACCGCCGCCGACACAGCCGGG
GCAAGGGGCGCTGTTCGCGGACCTCGTGCGCATGGGCTTTCCGGCAGAAA
CCCAGGTAGACTGATTCGTTCTCAGACGACTGACTGAGGAGACAAGCGGC
GATTACACCGTGGCAACCGACGAGGGACACTACCGAGACTCGCTGATGGC
TCAATGCACACCGCCGCCGACACAGCCGGGGCAAGGGGCGCTGTTCGCGG
ACCTCGTGCGCATGGGCTTTCCGGCAGAAACCCAGGTAGACTGA
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