mRNA_H-elongata_contig131111.2252.1 (mRNA) Himanthalia elongata Himel1 dioecious

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

Overview
NamemRNA_H-elongata_contig131111.2252.1
Unique NamemRNA_H-elongata_contig131111.2252.1
TypemRNA
OrganismHimanthalia elongata Himel1 dioecious (Himanthalia elongata Himel1 dioecious)
Homology
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BLAST of mRNA_H-elongata_contig131111.2252.1 vs. uniprot
Match: D8LIC3_ECTSI (Ribosomal RNA-processing protein 4 n=1 Tax=Ectocarpus siliculosus TaxID=2880 RepID=D8LIC3_ECTSI)

HSP 1 Score: 90.5 bits (223), Expect = 1.120e-20
Identity = 42/49 (85.71%), Postives = 47/49 (95.92%), Query Frame = 1 
Query:    1 ITSMQGYLRGHGTYLEEGANGEPPRLVACVAGVVERVNKLISVRPIKSR 147
            ITS+QGYLRGHGTY+EEG +G PP+L+ACVAGVVERVNKLISVRPIKSR
Sbjct:   15 ITSVQGYLRGHGTYVEEGTDGGPPKLLACVAGVVERVNKLISVRPIKSR 63
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BLAST of mRNA_H-elongata_contig131111.2252.1 vs. uniprot
Match: A0A6H5KMR3_9PHAE (Ribosomal RNA-processing protein 4 n=1 Tax=Ectocarpus sp. CCAP 1310/34 TaxID=867726 RepID=A0A6H5KMR3_9PHAE)

HSP 1 Score: 90.5 bits (223), Expect = 1.660e-20
Identity = 42/49 (85.71%), Postives = 47/49 (95.92%), Query Frame = 1 
Query:    1 ITSMQGYLRGHGTYLEEGANGEPPRLVACVAGVVERVNKLISVRPIKSR 147
            ITS+QGYLRGHGTY+EEG +G PP+L+ACVAGVVERVNKLISVRPIKSR
Sbjct:   15 ITSVQGYLRGHGTYVEEGTDGGPPKLLACVAGVVERVNKLISVRPIKSR 63
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BLAST of mRNA_H-elongata_contig131111.2252.1 vs. uniprot
Match: A0A836CMW4_9STRA (Ribosomal RNA-processing protein 4 n=1 Tax=Tribonema minus TaxID=303371 RepID=A0A836CMW4_9STRA)

HSP 1 Score: 77.4 bits (189), Expect = 1.370e-15
Identity = 35/49 (71.43%), Postives = 43/49 (87.76%), Query Frame = 1 
Query:    1 ITSMQGYLRGHGTYLEEGANGEPPRLVACVAGVVERVNKLISVRPIKSR 147
            IT+  G+LRGHGTY++E  +G  P+L+ACVAGVVERVNKLISVRP+KSR
Sbjct:   11 ITAEGGFLRGHGTYIQESEDGGEPQLIACVAGVVERVNKLISVRPVKSR 59
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BLAST of mRNA_H-elongata_contig131111.2252.1 vs. uniprot
Match: UPI000B8E21E9 (exosome complex component RRP4 isoform X2 n=1 Tax=Zootermopsis nevadensis TaxID=136037 RepID=UPI000B8E21E9)

HSP 1 Score: 63.5 bits (153), Expect = 1.730e-10
Identity = 33/49 (67.35%), Postives = 38/49 (77.55%), Query Frame = 1 
Query:    1 ITSMQGYLRGHGTYLEEGANGEPPRLVACVAGVVERVNKLISVRPIKSR 147
            IT M G++RGHGTY+EE A      L A VAGVVE+VNKLISVRPIK+R
Sbjct:   34 ITCMSGFMRGHGTYMEEDA------LTASVAGVVEQVNKLISVRPIKNR 76
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BLAST of mRNA_H-elongata_contig131111.2252.1 vs. uniprot
Match: A0A067RDM3_ZOONE (Ribosomal RNA-processing protein 4 n=2 Tax=Zootermopsis nevadensis TaxID=136037 RepID=A0A067RDM3_ZOONE)

HSP 1 Score: 63.5 bits (153), Expect = 1.930e-10
Identity = 33/49 (67.35%), Postives = 38/49 (77.55%), Query Frame = 1 
Query:    1 ITSMQGYLRGHGTYLEEGANGEPPRLVACVAGVVERVNKLISVRPIKSR 147
            IT M G++RGHGTY+EE A      L A VAGVVE+VNKLISVRPIK+R
Sbjct:   34 ITCMSGFMRGHGTYMEEDA------LTASVAGVVEQVNKLISVRPIKNR 76
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BLAST of mRNA_H-elongata_contig131111.2252.1 vs. uniprot
Match: F2U1Z1_SALR5 (Ribosomal RNA-processing protein 4 n=1 Tax=Salpingoeca rosetta (strain ATCC 50818 / BSB-021) TaxID=946362 RepID=F2U1Z1_SALR5)

HSP 1 Score: 62.0 bits (149), Expect = 6.750e-10
Identity = 30/49 (61.22%), Postives = 39/49 (79.59%), Query Frame = 1 
Query:    1 ITSMQGYLRGHGTYLEEGANGEPPRLVACVAGVVERVNKLISVRPIKSR 147
            IT  QGY+RGHGT++ +G      RL+A VAGVVERVNK+ISVRP+++R
Sbjct:   43 ITEDQGYMRGHGTFIHDG------RLLASVAGVVERVNKVISVRPVRTR 85
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BLAST of mRNA_H-elongata_contig131111.2252.1 vs. uniprot
Match: UPI0006B10691 (exosome complex component RRP4-like n=1 Tax=Limulus polyphemus TaxID=6850 RepID=UPI0006B10691)

HSP 1 Score: 61.6 bits (148), Expect = 8.930e-10
Identity = 31/49 (63.27%), Postives = 38/49 (77.55%), Query Frame = 1 
Query:    1 ITSMQGYLRGHGTYLEEGANGEPPRLVACVAGVVERVNKLISVRPIKSR 147
            ITS  G++RGHGTY+EE        LVA VAG+VERVNKL+SVRP+K+R
Sbjct:   31 ITSDTGFMRGHGTYVEE------ENLVASVAGIVERVNKLVSVRPLKTR 73
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BLAST of mRNA_H-elongata_contig131111.2252.1 vs. uniprot
Match: A0A2J7RGE7_9NEOP (Ribosomal RNA-processing protein 4 n=1 Tax=Cryptotermes secundus TaxID=105785 RepID=A0A2J7RGE7_9NEOP)

HSP 1 Score: 61.2 bits (147), Expect = 1.260e-9
Identity = 32/49 (65.31%), Postives = 37/49 (75.51%), Query Frame = 1 
Query:    1 ITSMQGYLRGHGTYLEEGANGEPPRLVACVAGVVERVNKLISVRPIKSR 147
            IT   G++RGHGTY+EE A      L A VAGVVE+VNKLISVRPIK+R
Sbjct:   34 ITCRSGFMRGHGTYMEEDA------LTASVAGVVEQVNKLISVRPIKNR 76
[Close]
BLAST of mRNA_H-elongata_contig131111.2252.1 vs. uniprot
Match: A0A8H7ZZX7_9FUNG (Exosome complex exonuclease RRP4 N-terminal region-domain-containing protein n=1 Tax=Olpidium bornovanus TaxID=278681 RepID=A0A8H7ZZX7_9FUNG)

HSP 1 Score: 57.8 bits (138), Expect = 2.120e-9
Identity = 30/51 (58.82%), Postives = 39/51 (76.47%), Query Frame = 1 
Query:    1 ITSMQGYLRGHGTYLEEGANGEPPRLVACVAGVVERVNKLISVRPIKSRRA 153
            +TS   ++RGHGTY    A+GE  R++A VAG VERVNKL+SVRP++SR A
Sbjct:   30 VTSDTAFMRGHGTY----ADGE--RVIASVAGTVERVNKLLSVRPVRSRHA 74
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BLAST of mRNA_H-elongata_contig131111.2252.1 vs. uniprot
Match: K1QXY9_CRAGI (Ribosomal RNA-processing protein 4 n=3 Tax=Crassostrea TaxID=6564 RepID=K1QXY9_CRAGI)

HSP 1 Score: 60.5 bits (145), Expect = 2.350e-9
Identity = 31/49 (63.27%), Postives = 37/49 (75.51%), Query Frame = 1 
Query:    1 ITSMQGYLRGHGTYLEEGANGEPPRLVACVAGVVERVNKLISVRPIKSR 147
            ITS  G++RGHGTY     N E  RL+A VAGVVERVNKLI V+P+K+R
Sbjct:   31 ITSDSGFMRGHGTY-----NSEDDRLLASVAGVVERVNKLICVKPLKTR 74
The following BLAST results are available for this feature:
BLAST of mRNA_H-elongata_contig131111.2252.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 25
Match NameE-valueIdentityDescription
D8LIC3_ECTSI1.120e-2085.71Ribosomal RNA-processing protein 4 n=1 Tax=Ectocar... [more]
A0A6H5KMR3_9PHAE1.660e-2085.71Ribosomal RNA-processing protein 4 n=1 Tax=Ectocar... [more]
A0A836CMW4_9STRA1.370e-1571.43Ribosomal RNA-processing protein 4 n=1 Tax=Tribone... [more]
UPI000B8E21E91.730e-1067.35exosome complex component RRP4 isoform X2 n=1 Tax=... [more]
A0A067RDM3_ZOONE1.930e-1067.35Ribosomal RNA-processing protein 4 n=2 Tax=Zooterm... [more]
F2U1Z1_SALR56.750e-1061.22Ribosomal RNA-processing protein 4 n=1 Tax=Salping... [more]
UPI0006B106918.930e-1063.27exosome complex component RRP4-like n=1 Tax=Limulu... [more]
A0A2J7RGE7_9NEOP1.260e-965.31Ribosomal RNA-processing protein 4 n=1 Tax=Cryptot... [more]
A0A8H7ZZX7_9FUNG2.120e-958.82Exosome complex exonuclease RRP4 N-terminal region... [more]
K1QXY9_CRAGI2.350e-963.27Ribosomal RNA-processing protein 4 n=3 Tax=Crassos... [more]

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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
H-elongata_contig131111contigH-elongata_contig131111:1491..1661 +
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 Himanthalia elongata Himel1 dioecious2021-02-24
Properties
Property NameValue
Taxonomic scopeEukaryota
Seed ortholog score85.9
Seed ortholog evalue6.4e-15
Seed eggNOG ortholog2880.D8LIC3
Preferred nameEXOSC2
KEGG rclassRC00002,RC00078
KEGG koko:K03679,ko:K10572
KEGG ReactionR05202
KEGG Pathwayko00562,ko01100,ko03018,ko04070,map00562,map01100,map03018,map04070
KEGG ModuleM00132,M00390,M00391
GOsGO:0000175,GO:0000176,GO:0000177,GO:0000178,GO:0000184,GO:0000228,GO:0000288,GO:0000291,GO:0000459,GO:0000460,GO:0000466,GO:0000467,GO:0000469,GO:0000785,GO:0000790,GO:0000956,GO:0001558,GO:0002252,GO:0002376,GO:0003674,GO:0003676,GO:0003723,GO:0003824,GO:0004518,GO:0004527,GO:0004532,GO:0004540,GO:0005488,GO:0005575,GO:0005622,GO:0005623,GO:0005634,GO:0005652,GO:0005654,GO:0005694,GO:0005730,GO:0005737,GO:0005829,GO:0006139,GO:0006364,GO:0006396,GO:0006399,GO:0006401,GO:0006402,GO:0006403,GO:0006725,GO:0006807,GO:0006950,GO:0006952,GO:0008150,GO:0008152,GO:0008298,GO:0008312,GO:0008408,GO:0009056,GO:0009057,GO:0009605,GO:0009607,GO:0009615,GO:0009892,GO:0009893,GO:0009894,GO:0009987,GO:0010467,GO:0010468,GO:0010604,GO:0010605,GO:0010608,GO:0010628,GO:0010629,GO:0016070,GO:0016071,GO:0016072,GO:0016073,GO:0016074,GO:0016075,GO:0016078,GO:0016180,GO:0016787,GO:0016788,GO:0016796,GO:0016896,GO:0019219,GO:0019222,GO:0019439,GO:0022613,GO:0030307,GO:0031123,GO:0031125,GO:0031126,GO:0031323,GO:0031329,GO:0031974,GO:0031981,GO:0032991,GO:0033036,GO:0034399,GO:0034427,GO:0034470,GO:0034472,GO:0034475,GO:0034641,GO:0034655,GO:0034660,GO:0034661,GO:0040008,GO:0042254,GO:0043144,GO:0043170,GO:0043207,GO:0043226,GO:0043227,GO:0043228,GO:0043229,GO:0043231,GO:0043232,GO:0043233,GO:0043487,GO:0043488,GO:0043628,GO:0043632,GO:0043633,GO:0043634,GO:0043928,GO:0044085,GO:0044237,GO:0044238,GO:0044248,GO:0044260,GO:0044265,GO:0044270,GO:0044422,GO:0044424,GO:0044427,GO:0044428,GO:0044444,GO:0044446,GO:0044454,GO:0044464,GO:0045927,GO:0046483,GO:0046700,GO:0048518,GO:0048519,GO:0048522,GO:0048523,GO:0050789,GO:0050794,GO:0050896,GO:0051128,GO:0051171,GO:0051179,GO:0051252,GO:0051607,GO:0051641,GO:0051704,GO:0051707,GO:0060147,GO:0060149,GO:0060255,GO:0060968,GO:0060969,GO:0061013,GO:0065007,GO:0065008,GO:0070013,GO:0070478,GO:0070481,GO:0070651,GO:0070727,GO:0071025,GO:0071027,GO:0071028,GO:0071029,GO:0071031,GO:0071033,GO:0071034,GO:0071035,GO:0071038,GO:0071042,GO:0071043,GO:0071046,GO:0071047,GO:0071049,GO:0071051,GO:0071704,GO:0071840,GO:0080090,GO:0090304,GO:0090305,GO:0090501,GO:0090503,GO:0097159,GO:0098542,GO:0140098,GO:1901360,GO:1901361,GO:1901363,GO:1901575,GO:1902494,GO:1903311,GO:1905354
EggNOG free text desc.nuclear retention of pre-mRNA with aberrant 3'-ends at the site of transcription
EggNOG OGsCOG1097@1,KOG3013@2759
EC2.7.1.158
COG Functional cat.J
Best tax levelEukaryota
Best eggNOG OGNA|NA|NA
BRITEko00000,ko00001,ko00002,ko01000,ko03019
Hectar predicted targeting categoryno signal peptide or anchor
Exons1
Model size171
Cds size162
Stop1
Start1
Relationships

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

Feature NameUnique NameSpeciesTypePosition
1622929779.1579263-UTR-H-elongata_contig131111:1490..14991622929779.1579263-UTR-H-elongata_contig131111:1490..1499Himanthalia elongata Himel1 dioeciousUTRH-elongata_contig131111 1491..1499 +
1691679154.3924901-UTR-H-elongata_contig131111:1490..14991691679154.3924901-UTR-H-elongata_contig131111:1490..1499Himanthalia elongata Himel1 dioeciousUTRH-elongata_contig131111 1491..1499 +


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

Feature NameUnique NameSpeciesTypePosition
1622929779.174478-CDS-H-elongata_contig131111:1499..16611622929779.174478-CDS-H-elongata_contig131111:1499..1661Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig131111 1500..1661 +
1691679154.4058845-CDS-H-elongata_contig131111:1499..16611691679154.4058845-CDS-H-elongata_contig131111:1499..1661Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig131111 1500..1661 +


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

Feature NameUnique NameSpeciesTypePosition
mRNA_H-elongata_contig131111.2252.1prot_H-elongata_contig131111.2252.1Himanthalia elongata Himel1 dioeciouspolypeptideH-elongata_contig131111 1500..1661 +


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_H-elongata_contig131111.2252.1

>prot_H-elongata_contig131111.2252.1 ID=prot_H-elongata_contig131111.2252.1|Name=mRNA_H-elongata_contig131111.2252.1|organism=Himanthalia elongata Himel1 dioecious|type=polypeptide|length=54bp
MQGYLRGHGTYLEEGANGEPPRLVACVAGVVERVNKLISVRPIKSRRAAL
VFL*
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mRNA from alignment at H-elongata_contig131111:1491..1661+

Legend: UTRpolypeptideCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_H-elongata_contig131111.2252.1 ID=mRNA_H-elongata_contig131111.2252.1|Name=mRNA_H-elongata_contig131111.2252.1|organism=Himanthalia elongata Himel1 dioecious|type=mRNA|length=171bp|location=Sequence derived from alignment at H-elongata_contig131111:1491..1661+ (Himanthalia elongata Himel1 dioecious)
ATCACCTCGATGCAAGGCTATCTACGAGGCCACGGGACCTACCTAGAAGA
GGGAGCGAATGGGGAACCTCCCCGGCTGGTGGCCTGCGTGGCCGGGGTGG
TGGAGAGGGTCAACAAGCTCATTTCCGTTCGGCCAATCAAATCAAGGCGA
GCAGCTCTCGTTTTTCTTTAA
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Coding sequence (CDS) from alignment at H-elongata_contig131111:1491..1661+

>mRNA_H-elongata_contig131111.2252.1 ID=mRNA_H-elongata_contig131111.2252.1|Name=mRNA_H-elongata_contig131111.2252.1|organism=Himanthalia elongata Himel1 dioecious|type=CDS|length=324bp|location=Sequence derived from alignment at H-elongata_contig131111:1491..1661+ (Himanthalia elongata Himel1 dioecious)
ATGCAAGGCTATCTACGAGGCCACGGGACCTACCTAGAAGAGGGAGCGAA
TGGGGAACCTCCCCGGCTGGTGGCCTGCGTGGCCGGGGTGGTGGAGAGGG
TCAACAAGCTCATTTCCGTTCGGCCAATCAAATCAAGGCGAGCAGCTCTC
GTTTTTCTTTAAATGCAAGGCTATCTACGAGGCCACGGGACCTACCTAGA
AGAGGGAGCGAATGGGGAACCTCCCCGGCTGGTGGCCTGCGTGGCCGGGG
TGGTGGAGAGGGTCAACAAGCTCATTTCCGTTCGGCCAATCAAATCAAGG
CGAGCAGCTCTCGTTTTTCTTTAA
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