mRNA_H-elongata_contig199240.5600.1 (mRNA) Himanthalia elongata Himel1 dioecious

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

Overview
NamemRNA_H-elongata_contig199240.5600.1
Unique NamemRNA_H-elongata_contig199240.5600.1
TypemRNA
OrganismHimanthalia elongata Himel1 dioecious (Himanthalia elongata Himel1 dioecious)
Homology
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BLAST of mRNA_H-elongata_contig199240.5600.1 vs. uniprot
Match: D7G8J7_ECTSI (U6 snRNA-associated Sm-like protein LSm4 n=2 Tax=Ectocarpus TaxID=2879 RepID=D7G8J7_ECTSI)

HSP 1 Score: 90.5 bits (223), Expect = 1.140e-20
Identity = 44/49 (89.80%), Postives = 47/49 (95.92%), Query Frame = 1 
Query:    7 KDADKFVKMVEVYVRGNSIKYVTIPDEVLDMVQEEDLSKEKRNLAGRGR 153
            +DADKFVKMVEVYVRGNSIKYVTIP+EVLDMVQEEDLSKEKR + GRGR
Sbjct:   48 RDADKFVKMVEVYVRGNSIKYVTIPEEVLDMVQEEDLSKEKRAMGGRGR 96
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BLAST of mRNA_H-elongata_contig199240.5600.1 vs. uniprot
Match: A0A6G0XI18_9STRA (U6 snRNA-associated Sm-like protein LSm4 n=1 Tax=Aphanomyces euteiches TaxID=100861 RepID=A0A6G0XI18_9STRA)

HSP 1 Score: 69.3 bits (168), Expect = 1.300e-12
Identity = 33/50 (66.00%), Postives = 41/50 (82.00%), Query Frame = 1 
Query:    7 KDADKFVKMVEVYVRGNSIKYVTIPDEVLDMVQEEDLSKEKRN-LAGRGR 153
            KD D+F K+ E Y+RGN+IKY+ IPDE+LDMV EEDLSK+ RN + GRGR
Sbjct:   34 KDGDRFWKLPECYIRGNTIKYIRIPDEILDMVVEEDLSKKDRNAMRGRGR 83
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BLAST of mRNA_H-elongata_contig199240.5600.1 vs. uniprot
Match: A0A485KDN7_9STRA (U6 snRNA-associated Sm-like protein LSm4 n=3 Tax=Aphanomyces TaxID=100860 RepID=A0A485KDN7_9STRA)

HSP 1 Score: 68.9 bits (167), Expect = 2.180e-12
Identity = 33/50 (66.00%), Postives = 41/50 (82.00%), Query Frame = 1 
Query:    7 KDADKFVKMVEVYVRGNSIKYVTIPDEVLDMVQEEDLSKEKRN-LAGRGR 153
            KD D+F K+ E Y+RGN+IKY+ IPDE+LDMV EEDL+K+ RN L GRGR
Sbjct:   34 KDGDRFWKLPECYIRGNTIKYIRIPDEILDMVVEEDLTKKDRNSLRGRGR 83
[Close]
BLAST of mRNA_H-elongata_contig199240.5600.1 vs. uniprot
Match: T0PSL4_SAPDV (U6 snRNA-associated Sm-like protein LSm4 n=2 Tax=Saprolegniaceae TaxID=4764 RepID=T0PSL4_SAPDV)

HSP 1 Score: 67.8 bits (164), Expect = 5.840e-12
Identity = 33/50 (66.00%), Postives = 39/50 (78.00%), Query Frame = 1 
Query:    7 KDADKFVKMVEVYVRGNSIKYVTIPDEVLDMVQEEDLSKEKRN-LAGRGR 153
            KD D+F K+ E Y+RGN+IKY+ IPD+VLD V EEDLSK  RN L GRGR
Sbjct:   48 KDGDRFWKLTECYIRGNTIKYIGIPDKVLDQVNEEDLSKRDRNALRGRGR 97
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BLAST of mRNA_H-elongata_contig199240.5600.1 vs. uniprot
Match: A0A1W0A614_9STRA (U6 snRNA-associated Sm-like protein LSm4 n=1 Tax=Thraustotheca clavata TaxID=74557 RepID=A0A1W0A614_9STRA)

HSP 1 Score: 66.6 bits (161), Expect = 1.290e-11
Identity = 31/50 (62.00%), Postives = 39/50 (78.00%), Query Frame = 1 
Query:    7 KDADKFVKMVEVYVRGNSIKYVTIPDEVLDMVQEEDLSKEKRN-LAGRGR 153
            KD D+F K+ E Y+RGN+IKY+ +PD+VLD V EEDLSK  RN + GRGR
Sbjct:   48 KDGDRFWKLTECYIRGNTIKYIGVPDKVLDQVNEEDLSKRDRNAMRGRGR 97
[Close]
BLAST of mRNA_H-elongata_contig199240.5600.1 vs. uniprot
Match: A0A7S2E5C6_9STRA (U6 snRNA-associated Sm-like protein LSm4 (Fragment) n=1 Tax=Dictyocha speculum TaxID=35687 RepID=A0A7S2E5C6_9STRA)

HSP 1 Score: 64.7 bits (156), Expect = 4.830e-11
Identity = 30/51 (58.82%), Postives = 41/51 (80.39%), Query Frame = 1 
Query:    7 KDADKFVKMVEVYVRGNSIKYVTIPDEVLDMVQEEDLSKEKRNLA--GRGR 153
            +D D+F K+ E Y+RGNSIKY+ IP++V+D+VQEEDL +E RN +  GRGR
Sbjct:   62 RDGDRFWKLPECYIRGNSIKYLRIPEDVIDLVQEEDLKQETRNASRGGRGR 112
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BLAST of mRNA_H-elongata_contig199240.5600.1 vs. uniprot
Match: L1ICE1_GUITC (U6 snRNA-associated Sm-like protein LSm4 n=1 Tax=Guillardia theta (strain CCMP2712) TaxID=905079 RepID=L1ICE1_GUITC)

HSP 1 Score: 63.5 bits (153), Expect = 1.390e-10
Identity = 27/49 (55.10%), Postives = 38/49 (77.55%), Query Frame = 1 
Query:    7 KDADKFVKMVEVYVRGNSIKYVTIPDEVLDMVQEEDLSKEKRNLAGRGR 153
            +D DKF K+ E Y+RGN+IKY+ +PDEV+D V +E + KE++  AGRGR
Sbjct:   34 RDGDKFWKIPECYIRGNNIKYLRVPDEVIDKVVDEPVKKERKEFAGRGR 82
[Close]
BLAST of mRNA_H-elongata_contig199240.5600.1 vs. uniprot
Match: A0A835XZY3_9CHLO (U6 snRNA-associated Sm-like protein LSm4 n=1 Tax=Edaphochlamys debaryana TaxID=47281 RepID=A0A835XZY3_9CHLO)

HSP 1 Score: 63.9 bits (154), Expect = 1.550e-10
Identity = 30/50 (60.00%), Postives = 39/50 (78.00%), Query Frame = 1 
Query:    7 KDADKFVKMVEVYVRGNSIKYVTIPDEVLDMVQEEDLSK-EKRNLAGRGR 153
            KD  +F KM E YVRGN+IKY+++P+EV+D VQEE+L + EKR   GRGR
Sbjct:   48 KDGQRFFKMAEAYVRGNTIKYISVPEEVIDKVQEENLRRDEKRPARGRGR 97
[Close]
BLAST of mRNA_H-elongata_contig199240.5600.1 vs. uniprot
Match: A0A7S2FS84_9STRA (U6 snRNA-associated Sm-like protein LSm4 (Fragment) n=1 Tax=Florenciella parvula TaxID=236787 RepID=A0A7S2FS84_9STRA)

HSP 1 Score: 62.8 bits (151), Expect = 1.740e-10
Identity = 27/45 (60.00%), Postives = 37/45 (82.22%), Query Frame = 1 
Query:    7 KDADKFVKMVEVYVRGNSIKYVTIPDEVLDMVQEEDLSKEKRNLA 141
            +D D+F K+ E Y+RGNSIKY+ IP++V+D+VQEEDL +E RN A
Sbjct:   61 RDGDRFWKLPECYIRGNSIKYLRIPEDVIDLVQEEDLKQESRNAA 105
[Close]
BLAST of mRNA_H-elongata_contig199240.5600.1 vs. uniprot
Match: A0A836C9X5_9STRA (U6 snRNA-associated Sm-like protein LSm4 n=1 Tax=Tribonema minus TaxID=303371 RepID=A0A836C9X5_9STRA)

HSP 1 Score: 63.9 bits (154), Expect = 2.170e-10
Identity = 31/46 (67.39%), Postives = 37/46 (80.43%), Query Frame = 1 
Query:    7 KDADKFVKMVEVYVRGNSIKYVTIPDEVLDMVQEEDLSKEKRNLAG 144
            +D D+F K+ EVYVRG SIKY+TIPDEVL+MV EE+  KEKR  AG
Sbjct:   48 RDGDRFWKLPEVYVRGTSIKYMTIPDEVLEMVVEEEEGKEKRAAAG 93
The following BLAST results are available for this feature:
BLAST of mRNA_H-elongata_contig199240.5600.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 25
Match NameE-valueIdentityDescription
D7G8J7_ECTSI1.140e-2089.80U6 snRNA-associated Sm-like protein LSm4 n=2 Tax=E... [more]
A0A6G0XI18_9STRA1.300e-1266.00U6 snRNA-associated Sm-like protein LSm4 n=1 Tax=A... [more]
A0A485KDN7_9STRA2.180e-1266.00U6 snRNA-associated Sm-like protein LSm4 n=3 Tax=A... [more]
T0PSL4_SAPDV5.840e-1266.00U6 snRNA-associated Sm-like protein LSm4 n=2 Tax=S... [more]
A0A1W0A614_9STRA1.290e-1162.00U6 snRNA-associated Sm-like protein LSm4 n=1 Tax=T... [more]
A0A7S2E5C6_9STRA4.830e-1158.82U6 snRNA-associated Sm-like protein LSm4 (Fragment... [more]
L1ICE1_GUITC1.390e-1055.10U6 snRNA-associated Sm-like protein LSm4 n=1 Tax=G... [more]
A0A835XZY3_9CHLO1.550e-1060.00U6 snRNA-associated Sm-like protein LSm4 n=1 Tax=E... [more]
A0A7S2FS84_9STRA1.740e-1060.00U6 snRNA-associated Sm-like protein LSm4 (Fragment... [more]
A0A836C9X5_9STRA2.170e-1067.39U6 snRNA-associated Sm-like protein LSm4 n=1 Tax=T... [more]

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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
H-elongata_contig199240contigH-elongata_contig199240:41..980 +
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
Hectar predicted targeting categoryother localisation
Exons2
Model size342
Cds size330
Stop0
Start1
Relationships

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

Feature NameUnique NameSpeciesTypePosition
mRNA_H-elongata_contig199240.5600.1prot_H-elongata_contig199240.5600.1Himanthalia elongata Himel1 dioeciouspolypeptideH-elongata_contig199240 51..980 +


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

Feature NameUnique NameSpeciesTypePosition
1622930124.5622177-UTR-H-elongata_contig199240:40..501622930124.5622177-UTR-H-elongata_contig199240:40..50Himanthalia elongata Himel1 dioeciousUTRH-elongata_contig199240 41..50 +
1691679290.3996944-UTR-H-elongata_contig199240:40..501691679290.3996944-UTR-H-elongata_contig199240:40..50Himanthalia elongata Himel1 dioeciousUTRH-elongata_contig199240 41..50 +


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

Feature NameUnique NameSpeciesTypePosition
1622930124.5786533-CDS-H-elongata_contig199240:50..1671622930124.5786533-CDS-H-elongata_contig199240:50..167Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig199240 51..167 +
1691679290.4129078-CDS-H-elongata_contig199240:50..1671691679290.4129078-CDS-H-elongata_contig199240:50..167Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig199240 51..167 +
1622930124.5940785-CDS-H-elongata_contig199240:767..9801622930124.5940785-CDS-H-elongata_contig199240:767..980Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig199240 768..980 +
1691679290.4217122-CDS-H-elongata_contig199240:767..9801691679290.4217122-CDS-H-elongata_contig199240:767..980Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig199240 768..980 +


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_H-elongata_contig199240.5600.1

>prot_H-elongata_contig199240.5600.1 ID=prot_H-elongata_contig199240.5600.1|Name=mRNA_H-elongata_contig199240.5600.1|organism=Himanthalia elongata Himel1 dioecious|type=polypeptide|length=110bp
MQTSLLRWLRCTCGEIASSTSRSPTRCWTWCRKKIFLKRNATWQAGGVDV
GEAGGMVEGVDGAEATQRAPHEEEGRPEDEEIVGGGGVLLEEGEGEMVAE
GEEAVVMAPE
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mRNA from alignment at H-elongata_contig199240:41..980+

Legend: UTRpolypeptideCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_H-elongata_contig199240.5600.1 ID=mRNA_H-elongata_contig199240.5600.1|Name=mRNA_H-elongata_contig199240.5600.1|organism=Himanthalia elongata Himel1 dioecious|type=mRNA|length=940bp|location=Sequence derived from alignment at H-elongata_contig199240:41..980+ (Himanthalia elongata Himel1 dioecious)
TCAAAAAAGGATGCAGACAAGTTTGTTAAGATGGTTGAGGTGTACGTGCG
GGGAAATAGCATCAAGTACGTCACGATCCCCGACGAGGTGCTGGACATGG
TGCAGGAAGAAGATCTTTCTAAAGAGAGTGAGTTCGCGTGTGGAGGAGGC
ACGTCGAACAGACCTTGCAACCGTTGCCCCCCCCCTCCCCCGTTCTGGCC
GCGATCCATTTCTCCGTACCAGTTTCTGTTCAAACCACCTCGTTATCGAC
ACTCGGCAGAAATGTCGTGCGCCACGGTAGTAAAAGATAGCTTTGAAGTG
TTTGCGATGGGGGAATGATCCTTCGCGGCGCCTGCGCAAGCCATGAGCCA
GCCAGCTTAGACCCCTTGCAGAATCCATTGAACCAGACATACTTCTTTAT
GGAGGCGAGATCAGTAGAGTGTTGTAGGGAGGTAAAAGTCGTCGGCTCGG
TCGGTAGGCGCGGAATCGGGGGAGAGTGGAGATCGTCTCGGCTGCCTTTA
GAAGAAGGACGATAGAACTACGCCATAAGTCTTGTTATGTGTGTTGTTAT
TTTTTCTTACCTAATTTTAGACACTTTACAAACAAAATTCACGATATCAG
CACCGCATAGAGCCTAGCCTGTTCACCAATGCTGGAACTCCTCAATCGTT
AAAACAAGGCATCAAAGGTCACTCTCCGATTTCTCTTCTGTGTTCCATCG
TCTGTGTAATGCGGGCGGACCAAGCAGAACGCAACTTGGCAGGCAGGGGG
CGTGGACGTGGGCGAGGCGGGCGGGATGGTGGAAGGGGTGGACGGGGCAG
AAGCGACGCAAAGGGCGCCGCACGAGGAAGAGGGGCGGCCAGAGGACGAG
GAGATCGTGGGCGGGGGAGGGGTGCTTCTAGAGGAAGGGGAGGGGGAGAT
GGTGGCGGAAGGGGAGGAGGCCGTGGTGATGGCGCCCGAG
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Coding sequence (CDS) from alignment at H-elongata_contig199240:41..980+

>mRNA_H-elongata_contig199240.5600.1 ID=mRNA_H-elongata_contig199240.5600.1|Name=mRNA_H-elongata_contig199240.5600.1|organism=Himanthalia elongata Himel1 dioecious|type=CDS|length=660bp|location=Sequence derived from alignment at H-elongata_contig199240:41..980+ (Himanthalia elongata Himel1 dioecious)
ATGCAGACAAGTTTGTTAAGATGGTTGAGGTGTACGTGCGGGGAAATAGC
ATCAAGTACGTCACGATCCCCGACGAGGTGCTGGACATGGTGCAGGAAGA
AGATCTTTCTAAAGAGAATGCAGACAAGTTTGTTAAGATGGTTGAGGTGT
ACGTGCGGGGAAATAGCATCAAGTACGTCACGATCCCCGACGAGGTGCTG
GACATGGTGCAGGAAGAAGATCTTTCTAAAGAGAAACGCAACTTGGCAGG
CAGGGGGCGTGGACGTGGGCGAGGCGGGCGGGATGGTGGAAGGGGTGGAC
GGGGCAGAAGCGACGCAAAGGGCGCCGCACGAGGAAGAGGGGCGGCCAGA
GGACGAGGAGATCGTGGGCGGGGGAGGGGTGCTTCTAGAGGAAGGGGAGG
GGGAGATGGTGGCGGAAGGGGAGGAGGCCGTGGTGATGGCGCCCGAGAAC
GCAACTTGGCAGGCAGGGGGCGTGGACGTGGGCGAGGCGGGCGGGATGGT
GGAAGGGGTGGACGGGGCAGAAGCGACGCAAAGGGCGCCGCACGAGGAAG
AGGGGCGGCCAGAGGACGAGGAGATCGTGGGCGGGGGAGGGGTGCTTCTA
GAGGAAGGGGAGGGGGAGATGGTGGCGGAAGGGGAGGAGGCCGTGGTGAT
GGCGCCCGAG
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