mRNA_H-elongata_contig55763.13009.1 (mRNA) Himanthalia elongata Himel1 dioecious

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

Overview
NamemRNA_H-elongata_contig55763.13009.1
Unique NamemRNA_H-elongata_contig55763.13009.1
TypemRNA
OrganismHimanthalia elongata Himel1 dioecious (Himanthalia elongata Himel1 dioecious)
Homology
BLAST of mRNA_H-elongata_contig55763.13009.1 vs. uniprot
Match: A0A438FIW7_VITVI (Retrovirus-related Pol polyprotein from transposon TNT 1-94 n=2 Tax=Vitis vinifera TaxID=29760 RepID=A0A438FIW7_VITVI)

HSP 1 Score: 72.0 bits (175), Expect = 3.250e-12
Identity = 38/121 (31.40%), Postives = 68/121 (56.20%), Query Frame = 1
Query:    4 VKRSQYQDVWNDSDYAEFSGVWNSNAFRRLEKRELPKHADGVIGKWVKN*KTDERGNVMKPKSRMAARGSGQIHNIDFSKTFAPILSAVSVNIAVAVANEKDWLLRQLDIPQAFIQAHLDE 366
            VK+S   + W ++   E   + ++  +  +E   LP+    +  KW+   K D +GN+++ K+R+AA+G  Q   ID+ +TF+P+LS  S  I +A+    D  L Q+D+  AF+  ++DE
Sbjct:  697 VKQSSDSEKWIEAMKDEIKSMKDNGVWDLVE---LPESVKPIGCKWIFKTKRDSKGNIVRYKARLAAKGFTQKEGIDYKETFSPVLSKDSFRIIMALVAHYDLELHQMDVKTAFLNGNIDE 814          
BLAST of mRNA_H-elongata_contig55763.13009.1 vs. uniprot
Match: A0A445JBB1_GLYSO (Retrovirus-related Pol polyprotein from transposon TNT 1-94 n=2 Tax=Glycine soja TaxID=3848 RepID=A0A445JBB1_GLYSO)

HSP 1 Score: 72.0 bits (175), Expect = 3.300e-12
Identity = 34/88 (38.64%), Postives = 52/88 (59.09%), Query Frame = 1
Query:  103 ELPKHADGVIGKWVKN*KTDERGNVMKPKSRMAARGSGQIHNIDFSKTFAPILSAVSVNIAVAVANEKDWLLRQLDIPQAFIQAHLDE 366
            ELPK    +  KWV   K + +G V+K K+R+ ARG  Q H +D+ + FAP+    +V + VA A+ + W + QLD+  AF+   L+E
Sbjct:  900 ELPKGKKAIGVKWVYKVKVNPKGEVVKYKARLVARGFLQRHGVDYEEVFAPVARIETVRVVVAHASMQRWKVHQLDVKSAFLNGELEE 987          
BLAST of mRNA_H-elongata_contig55763.13009.1 vs. uniprot
Match: A0A2N9GLZ4_FAGSY (Integrase catalytic domain-containing protein n=1 Tax=Fagus sylvatica TaxID=28930 RepID=A0A2N9GLZ4_FAGSY)

HSP 1 Score: 71.6 bits (174), Expect = 4.490e-12
Identity = 37/101 (36.63%), Postives = 60/101 (59.41%), Query Frame = 1
Query:   82 FRRLEKR------ELPKHADGVIGKWVKN*KTDERGNVMKPKSRMAARGSGQIHNIDFSKTFAPILSAVSVNIAVAVANEKDWLLRQLDIPQAFIQAHLDE 366
            F+ L+K+       LP   + V  KWV   KT   G++ + K+R+ A+G  Q H IDF++TF+P++   +V + +++A   +WLLRQLD+  AF+   L E
Sbjct:  923 FQALQKQGTWSLVPLPPSKNVVGCKWVYKLKTHSDGSIARYKARLVAKGFHQQHGIDFTETFSPVIKPPTVRLILSLAVSLNWLLRQLDVKNAFLHGTLKE 1023          
BLAST of mRNA_H-elongata_contig55763.13009.1 vs. uniprot
Match: A0A2P4X4H2_9STRA (Integrase catalytic core protein n=1 Tax=Phytophthora palmivora var. palmivora TaxID=611791 RepID=A0A2P4X4H2_9STRA)

HSP 1 Score: 69.3 bits (168), Expect = 8.900e-12
Identity = 34/87 (39.08%), Postives = 53/87 (60.92%), Query Frame = 1
Query:  103 ELPKHADGVIGKWVKN*KTDERGNVMKPKSRMAARGSGQIHNIDFSKTFAPILSAVSVNIAVAVANEKDWLLRQLDIPQAFIQAHLD 363
            + P   + +  KWV   K D  G + + K+R+ ARG  Q + IDF +TFAP+L  VS+ + VA+A     ++RQ D+P A+++A LD
Sbjct:   18 DTPSDGNLITSKWVFKLKFDNNGELERFKARLVARGFNQKYGIDFGETFAPVLKIVSLRLIVALAALWHAIIRQGDVPNAYLRAMLD 104          
BLAST of mRNA_H-elongata_contig55763.13009.1 vs. uniprot
Match: A0A438EVT0_VITVI (Retrovirus-related Pol polyprotein from transposon TNT 1-94 n=1 Tax=Vitis vinifera TaxID=29760 RepID=A0A438EVT0_VITVI)

HSP 1 Score: 70.1 bits (170), Expect = 1.540e-11
Identity = 35/112 (31.25%), Postives = 65/112 (58.04%), Query Frame = 1
Query:   31 WNDSDYAEFSGVWNSNAFRRLEKRELPKHADGVIGKWVKN*KTDERGNVMKPKSRMAARGSGQIHNIDFSKTFAPILSAVSVNIAVAVANEKDWLLRQLDIPQAFIQAHLDE 366
            W ++   E   + +++ ++ ++   LP+    V  KWV   K +  G+V + K+R+ ARG  Q + +D+S TF+P+    SV + +++A  + W++RQLDI  AF+   L+E
Sbjct:  719 WKNAMLEEICALEDNHTWKLVD---LPQGKKVVGCKWVFAVKVNPDGSVARLKARLVARGYAQTYGVDYSYTFSPVAKLNSVQLFISIAASQHWMIRQLDIKNAFLHGDLEE 827          
BLAST of mRNA_H-elongata_contig55763.13009.1 vs. uniprot
Match: A0A438EKH6_VITVI (Retrovirus-related Pol polyprotein from transposon RE2 n=1 Tax=Vitis vinifera TaxID=29760 RepID=A0A438EKH6_VITVI)

HSP 1 Score: 67.8 bits (164), Expect = 1.760e-11
Identity = 33/115 (28.70%), Postives = 62/115 (53.91%), Query Frame = 1
Query:   22 QDVWNDSDYAEFSGVWNSNAFRRLEKRELPKHADGVIGKWVKN*KTDERGNVMKPKSRMAARGSGQIHNIDFSKTFAPILSAVSVNIAVAVANEKDWLLRQLDIPQAFIQAHLDE 366
            Q+ W  +   EF  +  +  +  +    LP     +  KWV   K +  G + K K+R+ A+G  Q+   DF++TF+P++ + ++ + + +A  K+W++RQLDI  AF+   L +
Sbjct:   30 QEQWKTTMIDEFVALMRNKIWSLVS---LPNGRKAIGYKWVFKVKENFDGTINKYKARLVAKGFHQVAGFDFNETFSPVVKSTTIRVVLTIALAKNWVVRQLDINNAFLNGDLQK 141          
BLAST of mRNA_H-elongata_contig55763.13009.1 vs. uniprot
Match: A0A438G3H4_VITVI (Retrovirus-related Pol polyprotein from transposon RE1 n=1 Tax=Vitis vinifera TaxID=29760 RepID=A0A438G3H4_VITVI)

HSP 1 Score: 69.7 bits (169), Expect = 1.970e-11
Identity = 34/98 (34.69%), Postives = 56/98 (57.14%), Query Frame = 1
Query:   79 AFRRLEKREL---PKHADGVIGKWVKN*KTDERGNVMKPKSRMAARGSGQIHNIDFSKTFAPILSAVSVNIAVAVANEKDWLLRQLDIPQAFIQAHLD 363
            A +R +  EL   P+  + +  KWV   K    G + + K+R+ ARG  Q + +D+ +TF+P+    +V + +A+A  KDW LRQ+D+  AF+   LD
Sbjct:  377 ALKRNQTWELVPKPRDVEPISCKWVYKIKRRTDGLIERHKARLVARGFSQQYGLDYDETFSPVAKLTTVRVLLALAANKDWDLRQMDVKNAFLHGELD 474          
BLAST of mRNA_H-elongata_contig55763.13009.1 vs. uniprot
Match: A0A5B6WJG1_9ROSI (Retrovirus-related Pol polyprotein from transposon TNT 1-94 n=1 Tax=Gossypium australe TaxID=47621 RepID=A0A5B6WJG1_9ROSI)

HSP 1 Score: 69.3 bits (168), Expect = 2.830e-11
Identity = 30/85 (35.29%), Postives = 51/85 (60.00%), Query Frame = 1
Query:  109 PKHADGVIGKWVKN*KTDERGNVMKPKSRMAARGSGQIHNIDFSKTFAPILSAVSVNIAVAVANEKDWLLRQLDIPQAFIQAHLD 363
            P H   +  KW+   K +  G V + K+R+ A+G  Q+   DF +TF+PI+   ++ + +++A  K WLLRQ+D+  AF+  +LD
Sbjct:  835 PPHRKIIGCKWLFKIKRNPDGTVARRKARLVAKGYSQVPGCDFKETFSPIIKPATIQVILSIAVSKGWLLRQVDVNNAFLNGNLD 919          
BLAST of mRNA_H-elongata_contig55763.13009.1 vs. uniprot
Match: A0A438I797_VITVI (Retrovirus-related Pol polyprotein from transposon TNT 1-94 n=1 Tax=Vitis vinifera TaxID=29760 RepID=A0A438I797_VITVI)

HSP 1 Score: 68.9 bits (167), Expect = 3.850e-11
Identity = 37/121 (30.58%), Postives = 66/121 (54.55%), Query Frame = 1
Query:    4 VKRSQYQDVWNDSDYAEFSGVWNSNAFRRLEKRELPKHADGVIGKWVKN*KTDERGNVMKPKSRMAARGSGQIHNIDFSKTFAPILSAVSVNIAVAVANEKDWLLRQLDIPQAFIQAHLDE 366
            VK+S   + W ++   E   + ++  +  +E   LPK    +  KW+   K D +GN+++ K+R+ A+G  Q   ID+ +TF+P+ S  S  I +A+    D  L Q+D+  AF+  ++DE
Sbjct:  531 VKQSSDSEKWIEAMKDEMKSMKDNGVWDLVE---LPKGVKPIGCKWIFKTKRDSKGNIVRYKARLIAKGFTQKEGIDYKETFSPVSSKDSFRIIMALVAHYDLELHQMDVKTAFLNGNIDE 648          
BLAST of mRNA_H-elongata_contig55763.13009.1 vs. uniprot
Match: A0A6A3ADU5_HIBSY (Reverse transcriptase Ty1/copia-type domain-containing protein n=1 Tax=Hibiscus syriacus TaxID=106335 RepID=A0A6A3ADU5_HIBSY)

HSP 1 Score: 68.6 bits (166), Expect = 5.140e-11
Identity = 36/105 (34.29%), Postives = 59/105 (56.19%), Query Frame = 1
Query:   52 EFSGVWNSNAFRRLEKRELPKHADGVIGKWVKN*KTDERGNVMKPKSRMAARGSGQIHNIDFSKTFAPILSAVSVNIAVAVANEKDWLLRQLDIPQAFIQAHLDE 366
            E++ +  +N +  +    LP     V  KW+   K +  G + + KSR+ ARG  QI   DF  TF+P+  + ++N+ +A+A +K W LRQ+DI  AF+  +L E
Sbjct:  383 EYNALVKNNTWTPIR---LPGGRFPVGCKWLFRIKRNADGTLQRYKSRLVARGFSQIPGQDFQDTFSPVAKSTTINVILALAVQKRWCLRQVDINNAFLNGYLQE 484          
The following BLAST results are available for this feature:
BLAST of mRNA_H-elongata_contig55763.13009.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 25
Match NameE-valueIdentityDescription
A0A438FIW7_VITVI3.250e-1231.40Retrovirus-related Pol polyprotein from transposon... [more]
A0A445JBB1_GLYSO3.300e-1238.64Retrovirus-related Pol polyprotein from transposon... [more]
A0A2N9GLZ4_FAGSY4.490e-1236.63Integrase catalytic domain-containing protein n=1 ... [more]
A0A2P4X4H2_9STRA8.900e-1239.08Integrase catalytic core protein n=1 Tax=Phytophth... [more]
A0A438EVT0_VITVI1.540e-1131.25Retrovirus-related Pol polyprotein from transposon... [more]
A0A438EKH6_VITVI1.760e-1128.70Retrovirus-related Pol polyprotein from transposon... [more]
A0A438G3H4_VITVI1.970e-1134.69Retrovirus-related Pol polyprotein from transposon... [more]
A0A5B6WJG1_9ROSI2.830e-1135.29Retrovirus-related Pol polyprotein from transposon... [more]
A0A438I797_VITVI3.850e-1130.58Retrovirus-related Pol polyprotein from transposon... [more]
A0A6A3ADU5_HIBSY5.140e-1134.29Reverse transcriptase Ty1/copia-type domain-contai... [more]

Pages

back to top
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
H-elongata_contig55763contigH-elongata_contig55763:43..408 -
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 scopeViridiplantae
Seed ortholog score60.8
Seed ortholog evalue2.6e-07
Seed eggNOG ortholog4432.XP_010274374.1
EggNOG free text desc.cysteine-rich RLK (RECEPTOR-like protein kinase) 8
EggNOG OGs37RIF@33090,3GBWZ@35493,COG2801@1,KOG0017@2759
COG Functional cat.L
Best tax levelStreptophyta
Best eggNOG OGNA|NA|NA
Hectar predicted targeting categoryother localisation
Exons1
Model size366
Cds size189
Stop0
Start1
Relationships

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

Feature NameUnique NameSpeciesTypePosition
1622930909.1674368-CDS-H-elongata_contig55763:42..2311622930909.1674368-CDS-H-elongata_contig55763:42..231Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig55763 43..231 -
1691679620.5642333-CDS-H-elongata_contig55763:42..2311691679620.5642333-CDS-H-elongata_contig55763:42..231Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig55763 43..231 -


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

Feature NameUnique NameSpeciesTypePosition
1622930909.1834471-UTR-H-elongata_contig55763:231..4081622930909.1834471-UTR-H-elongata_contig55763:231..408Himanthalia elongata Himel1 dioeciousUTRH-elongata_contig55763 232..408 -
1691679620.5760026-UTR-H-elongata_contig55763:231..4081691679620.5760026-UTR-H-elongata_contig55763:231..408Himanthalia elongata Himel1 dioeciousUTRH-elongata_contig55763 232..408 -


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

Feature NameUnique NameSpeciesTypePosition
mRNA_H-elongata_contig55763.13009.1prot_H-elongata_contig55763.13009.1Himanthalia elongata Himel1 dioeciouspolypeptideH-elongata_contig55763 43..231 -


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_H-elongata_contig55763.13009.1

>prot_H-elongata_contig55763.13009.1 ID=prot_H-elongata_contig55763.13009.1|Name=mRNA_H-elongata_contig55763.13009.1|organism=Himanthalia elongata Himel1 dioecious|type=polypeptide|length=63bp
MKPKSRMAARGSGQIHNIDFSKTFAPILSAVSVNIAVAVANEKDWLLRQL
DIPQAFIQAHLDE
back to top

mRNA from alignment at H-elongata_contig55763:43..408-

Legend: UTRCDSpolypeptide
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_H-elongata_contig55763.13009.1 ID=mRNA_H-elongata_contig55763.13009.1|Name=mRNA_H-elongata_contig55763.13009.1|organism=Himanthalia elongata Himel1 dioecious|type=mRNA|length=366bp|location=Sequence derived from alignment at H-elongata_contig55763:43..408- (Himanthalia elongata Himel1 dioecious)
AATGTCAAGCGTTCTCAGTACCAGGATGTTTGGAACGACTCTGACTATGC CGAGTTTAGCGGTGTGTGGAATTCGAACGCATTTAGACGCCTAGAAAAAA GGGAGTTGCCAAAACATGCTGATGGCGTGATCGGAAAATGGGTCAAAAAC TAGAAAACTGATGAACGTGGGAATGTAATGAAGCCGAAATCCAGGATGGC AGCCAGGGGTTCTGGTCAGATTCATAATATAGATTTTTCGAAGACGTTTG CTCCTATCCTATCAGCTGTTAGTGTGAATATCGCTGTCGCTGTAGCGAAT GAAAAAGACTGGTTGTTGCGGCAGCTAGACATACCACAGGCGTTTATCCA GGCGCATTTGGACGAA
back to top

Coding sequence (CDS) from alignment at H-elongata_contig55763:43..408-

>mRNA_H-elongata_contig55763.13009.1 ID=mRNA_H-elongata_contig55763.13009.1|Name=mRNA_H-elongata_contig55763.13009.1|organism=Himanthalia elongata Himel1 dioecious|type=CDS|length=378bp|location=Sequence derived from alignment at H-elongata_contig55763:43..408- (Himanthalia elongata Himel1 dioecious)
ATGAAGCCGAAATCCAGGATGGCAGCCAGGGGTTCTGGTCAGATTCATAA
TATAGATTTTTCGAAGACGTTTGCTCCTATCCTATCAGCTGTTAGTGTGA
ATATCGCTGTCGCTGTAGCGAATGAAAAAGACTGGTTGTTGCGGCAGCTA
GACATACCACAGGCGTTTATCCAGGCGCATTTGGACGAAATGAAGCCGAA
ATCCAGGATGGCAGCCAGGGGTTCTGGTCAGATTCATAATATAGATTTTT
CGAAGACGTTTGCTCCTATCCTATCAGCTGTTAGTGTGAATATCGCTGTC
GCTGTAGCGAATGAAAAAGACTGGTTGTTGCGGCAGCTAGACATACCACA
GGCGTTTATCCAGGCGCATTTGGACGAA
back to top