mRNA_H-paniculata_contig2592.7071.1 (mRNA) Halopteris paniculata Hal_grac_a_UBK monoicous

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

Overview
NamemRNA_H-paniculata_contig2592.7071.1
Unique NamemRNA_H-paniculata_contig2592.7071.1
TypemRNA
OrganismHalopteris paniculata Hal_grac_a_UBK monoicous (Halopteris paniculata Hal_grac_a_UBK monoicous)
Homology
BLAST of mRNA_H-paniculata_contig2592.7071.1 vs. uniprot
Match: W7TII5_9STRA (Gag-pol polyprotein n=1 Tax=Nannochloropsis gaditana TaxID=72520 RepID=W7TII5_9STRA)

HSP 1 Score: 114 bits (284), Expect = 1.000e-27
Identity = 61/136 (44.85%), Postives = 86/136 (63.24%), Query Frame = 1
Query:    1 VRRLRRSVYGLEQSGRNWNNTLDDFLVGIGLDRSTTDSCLYFSRDDGGETNLLVVVYVDGLVIAGR-REKVDEFKHNISQRFRMKDLGSLSRVLGIEARRDRPNGTITISQGSYIREALKRYSFDECRGVPTPVEG 405
            V RLR+S+YGL+QSGRNW+  +D +  G G   S+ D CLY      GE  L++V+YVD L+IAG  R+ VD+FK  IS+   MKDL  L  +LG+  +R+R    + ISQ +YI   L ++   +C+ V TP+EG
Sbjct:  118 VCRLRKSLYGLKQSGRNWHKKIDGWFRGYGFHSSSADPCLYVKFGSSGEM-LVIVLYVDDLIIAGNSRDMVDDFKQAISKEISMKDLKELDWILGMAIKRNREKRFMEISQTAYIDMMLAKFKMADCKPVLTPMEG 252          
BLAST of mRNA_H-paniculata_contig2592.7071.1 vs. uniprot
Match: Q9SZY0_ARATH (Putative retrotransposon n=1 Tax=Arabidopsis thaliana TaxID=3702 RepID=Q9SZY0_ARATH)

HSP 1 Score: 117 bits (293), Expect = 1.370e-27
Identity = 57/140 (40.71%), Postives = 91/140 (65.00%), Query Frame = 1
Query:   10 LRRSVYGLEQSGRNWNNTLDDFLVGIGLDRSTTDSCLYF-SRDDGGETNLLVVVYVDGLVIAGR-REKVDEFKHNISQRFRMKDLGSLSRVLGIEARRDRPNGTITISQGSYIREALKRYSFDECRGVPTPVEGKVKISA 423
            L +++YGL+QS R WN   D +++ IG +RS  + C Y  S +DG +  LL+  YVD +++A R  + + E K  +S++F MKDLG+  R+LG+E  RDR  GT+T+SQ  Y+ + L+ Y+ D+C+ V TP+   +K+ A
Sbjct:  883 LNKTMYGLKQSPRRWNQKFDSYMLEIGFERSPRNKCAYIKSLEDGSKVYLLI--YVDDMLVAARDMQVISELKQKLSEKFEMKDLGAAKRILGMEISRDRVKGTLTLSQEDYLSKVLETYNVDQCKFVVTPLGAHLKMHA 1020          
BLAST of mRNA_H-paniculata_contig2592.7071.1 vs. uniprot
Match: A0A178VBX6_ARATH (Reverse transcriptase Ty1/copia-type domain-containing protein n=1 Tax=Arabidopsis thaliana TaxID=3702 RepID=A0A178VBX6_ARATH)

HSP 1 Score: 114 bits (286), Expect = 1.970e-27
Identity = 57/139 (41.01%), Postives = 90/139 (64.75%), Query Frame = 1
Query:   10 LRRSVYGLEQSGRNWNNTLDDFLVGIGLDRSTTDSCLYFSRDDGGETNLLVVVYVDGLVIAG-RREKVDEFKHNISQRFRMKDLGSLSRVLGIEARRDRPNGTITISQGSYIREALKRYSFDECRGVPTPVEGKVKISA 423
            L+RS+YGL+QS R WN   D+F+ GI   RS  DSC+YF + +G +T + +++YVD ++IA   + +V+E K  +S+ F MKDLG   ++LG+E  RDR  G +T+SQ  Y+++ L+ +  D  + V TP+    K+ A
Sbjct:   47 LKRSLYGLKQSPRQWNLRFDEFMRGIKYTRSAYDSCVYFKKCNG-DTYIYLLLYVDDMLIASANKSEVNELKQLLSREFEMKDLGDAKKILGMEISRDRGAGLLTLSQEGYVKKVLRSFQMDNAKPVSTPLGIHFKLKA 184          
BLAST of mRNA_H-paniculata_contig2592.7071.1 vs. uniprot
Match: W7T0T3_9STRA (Gag-pol polyprotein n=2 Tax=Nannochloropsis gaditana TaxID=72520 RepID=W7T0T3_9STRA)

HSP 1 Score: 116 bits (291), Expect = 2.480e-27
Identity = 62/136 (45.59%), Postives = 86/136 (63.24%), Query Frame = 1
Query:    1 VRRLRRSVYGLEQSGRNWNNTLDDFLVGIGLDRSTTDSCLYFSRDDGGETNLLVVVYVDGLVIAGR-REKVDEFKHNISQRFRMKDLGSLSRVLGIEARRDRPNGTITISQGSYIREALKRYSFDECRGVPTPVEG 405
            V RLR+S+YGL+QSGRNW+  +D +  G G   S+ D CLY      GE  L++V+YVD L+I    RE V++FKH IS+ F MKDL  L  +LG+  +RDR    + ISQ +YI   L ++   +C+ V TP+EG
Sbjct:  558 VCRLRKSLYGLKQSGRNWHKKIDGWFRGYGFHPSSADPCLYVKFGSSGEI-LVIVLYVDDLIITSNSREMVNKFKHAISREFSMKDLKELDWILGMAIKRDREKRVMEISQTAYIDMMLAKFGMADCKPVLTPMEG 692          
BLAST of mRNA_H-paniculata_contig2592.7071.1 vs. uniprot
Match: W7TCB8_9STRA (Gag-pol polyprotein n=3 Tax=Nannochloropsis gaditana TaxID=72520 RepID=W7TCB8_9STRA)

HSP 1 Score: 115 bits (287), Expect = 2.900e-27
Identity = 62/136 (45.59%), Postives = 85/136 (62.50%), Query Frame = 1
Query:    1 VRRLRRSVYGLEQSGRNWNNTLDDFLVGIGLDRSTTDSCLYFSRDDGGETNLLVVVYVDGLVIAGR-REKVDEFKHNISQRFRMKDLGSLSRVLGIEARRDRPNGTITISQGSYIREALKRYSFDECRGVPTPVEG 405
            V RLR+S+YGL+QSGRNW+  +D +  G G   S+ D CLY      GE  L++V+YVD L+I    RE V +FKH IS+ F MKDL  L  +LG+  +RDR    + ISQ +YI   L ++   +C+ V TP+EG
Sbjct:  118 VCRLRKSLYGLKQSGRNWHKKIDGWFRGYGFHPSSADPCLYVKFGSSGEI-LVIVLYVDDLIITSNSREMVGKFKHAISREFSMKDLKELDWILGMAIKRDRGKRVMEISQTAYIDMMLAKFRMADCKPVLTPMEG 252          
BLAST of mRNA_H-paniculata_contig2592.7071.1 vs. uniprot
Match: H3H934_PHYRM (Reverse transcriptase Ty1/copia-type domain-containing protein n=1 Tax=Phytophthora ramorum TaxID=164328 RepID=H3H934_PHYRM)

HSP 1 Score: 112 bits (280), Expect = 3.040e-27
Identity = 53/141 (37.59%), Postives = 90/141 (63.83%), Query Frame = 1
Query:    1 VRRLRRSVYGLEQSGRNWNNTLDDFLVGIGLDRSTTDSCLYFSRDDGGETNLLVVVYVDGLVIAGRREKV-DEFKHNISQRFRMKDLGSLSRVLGIEARRDRPNGTITISQGSYIREALKRYSFDECRGVPTPVEGKVKIS 420
            V +L+RS+YGL+QS R WN T+DDF++ +G  +  +D C+Y  RD  G+  + V +YVD LV+A   +++ +  KH +S+RF M DLG L   LG+E + DR +G +T+ Q  +++  L ++   + + V TP +  +K++
Sbjct:  127 VCKLKRSLYGLKQSPRMWNQTIDDFMLKLGFKKCESDHCVYLKRD--GQDMIFVALYVDDLVLASSNDELLESTKHALSKRFEMTDLGELEYFLGMEIKNDRDSGKVTVRQTKFLKSILTKFGMQDSKPVKTPQDPGLKLT 265          
BLAST of mRNA_H-paniculata_contig2592.7071.1 vs. uniprot
Match: W7TJ26_9STRA (Gag-pol polyprotein n=2 Tax=Nannochloropsis gaditana TaxID=72520 RepID=W7TJ26_9STRA)

HSP 1 Score: 115 bits (288), Expect = 5.930e-27
Identity = 62/136 (45.59%), Postives = 85/136 (62.50%), Query Frame = 1
Query:    1 VRRLRRSVYGLEQSGRNWNNTLDDFLVGIGLDRSTTDSCLYFSRDDGGETNLLVVVYVDGLVIAGR-REKVDEFKHNISQRFRMKDLGSLSRVLGIEARRDRPNGTITISQGSYIREALKRYSFDECRGVPTPVEG 405
            V RLR+S+YGL+QSGRNW+  +D +  G GL  S  D CLY      GE  L++V+YVD L+I    R   D+FK +IS+ F MKDL  L  +LG+  +R+R N T+ ISQ  YI   L ++   +C+ V TP+EG
Sbjct:  338 VCRLRKSLYGLKQSGRNWHKKIDGWFRGYGLHPSYADPCLYVKFASSGEI-LVIVLYVDDLIIGSNSRTMTDKFKQDISREFSMKDLKELDWILGMGIKRNRENRTMEISQTGYIGMMLNKFGMADCKSVLTPMEG 472          
BLAST of mRNA_H-paniculata_contig2592.7071.1 vs. uniprot
Match: A0A438JW73_VITVI (Retrovirus-related Pol polyprotein from transposon TNT 1-94 n=1 Tax=Vitis vinifera TaxID=29760 RepID=A0A438JW73_VITVI)

HSP 1 Score: 112 bits (279), Expect = 6.180e-27
Identity = 57/155 (36.77%), Postives = 96/155 (61.94%), Query Frame = 1
Query:    1 VRRLRRSVYGLEQSGRNWNNTLDDFLVGIGLDRSTTDSCLYFSRDDGGETNLLVVVYVDGLVIAGRR-EKVDEFKHNISQRFRMKDLGSLSRVLGIEARRDRPNGTITISQGSYIREALKRYSFDECRGVPTPVEGKVKISAPQSADKPSEPKSL 462
            V RL++S+YGL+Q+ R W    D F+V  G DR+  D C++  +   GE  +++++YVD ++I G    K+D+ K+ +S+ F MKDLG  S++L I+  RDR NG   +SQ SYI + L +++  + + V +P+   +K+S+ QS  +  E K +
Sbjct:  124 VCRLKKSLYGLKQTSRQWYKKFDSFMVKHGYDRTAFDHCVFVKKFSYGEF-IILLLYVDDMLIVGHNTSKIDKLKNELSKSFEMKDLGLASQILSIKISRDRTNGKSWLSQESYIEKVLDKFNMGKAKPVSSPLGSHLKLSSKQSPSREKEKKEM 277          
BLAST of mRNA_H-paniculata_contig2592.7071.1 vs. uniprot
Match: W7TIM1_9STRA (Gag-pol polyprotein n=1 Tax=Nannochloropsis gaditana TaxID=72520 RepID=W7TIM1_9STRA)

HSP 1 Score: 115 bits (288), Expect = 6.320e-27
Identity = 62/136 (45.59%), Postives = 85/136 (62.50%), Query Frame = 1
Query:    1 VRRLRRSVYGLEQSGRNWNNTLDDFLVGIGLDRSTTDSCLYFSRDDGGETNLLVVVYVDGLVIAGR-REKVDEFKHNISQRFRMKDLGSLSRVLGIEARRDRPNGTITISQGSYIREALKRYSFDECRGVPTPVEG 405
            V RLR+S+YGL+QSGRNW+  +D +  G G   S+ D CLY      GE  L++V+YVD L+I    RE VD+FK  IS+ F MKDL  L  +LG+  +R+R    + ISQ +YI   L ++   +CR V TP+EG
Sbjct:  347 VCRLRKSLYGLKQSGRNWHKKIDGWFRGYGFHPSSADPCLYVKFGSSGEM-LVIVLYVDDLIITSNSREMVDKFKQAISREFSMKDLKELDWILGMAIKRNREKRVMEISQTAYIDMVLNKFGMADCRPVLTPMEG 481          
BLAST of mRNA_H-paniculata_contig2592.7071.1 vs. uniprot
Match: A0A7D9HG25_PARCT (Reverse transcriptase Ty1/copia-type domain-containing protein n=1 Tax=Paramuricea clavata TaxID=317549 RepID=A0A7D9HG25_PARCT)

HSP 1 Score: 114 bits (285), Expect = 6.370e-27
Identity = 58/135 (42.96%), Postives = 88/135 (65.19%), Query Frame = 1
Query:    1 VRRLRRSVYGLEQSGRNWNNTLDDFLVGIGLDRSTTDSCLYFSRDDGGETNLLVVVYVDGLVIAGRR-EKVDEFKHNISQRFRMKDLGSLSRVLGIEARRDRPNGTITISQGSYIREALKRYSFDECRGVPTPVE 402
            V RL++S+YGL+QSGRNWN  LD++L+  G  R+  D C+Y  +   GE  ++VV++VD L+IA    +K+ +FK N+  +FRMKDLG +S  LGI  ++   NG I ++Q  YI++ L R+   +C+   TP E
Sbjct:  288 VYRLKKSLYGLKQSGRNWNRVLDEYLISDGFVRNPVDHCVY--QKQTGEDIIIVVIWVDDLIIASSNTDKIRQFKENMKSKFRMKDLGEISYFLGISFKQG--NGVIKMNQKRYIQKILDRFGMSDCKPRTTPCE 418          
The following BLAST results are available for this feature:
BLAST of mRNA_H-paniculata_contig2592.7071.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 25
Match NameE-valueIdentityDescription
W7TII5_9STRA1.000e-2744.85Gag-pol polyprotein n=1 Tax=Nannochloropsis gadita... [more]
Q9SZY0_ARATH1.370e-2740.71Putative retrotransposon n=1 Tax=Arabidopsis thali... [more]
A0A178VBX6_ARATH1.970e-2741.01Reverse transcriptase Ty1/copia-type domain-contai... [more]
W7T0T3_9STRA2.480e-2745.59Gag-pol polyprotein n=2 Tax=Nannochloropsis gadita... [more]
W7TCB8_9STRA2.900e-2745.59Gag-pol polyprotein n=3 Tax=Nannochloropsis gadita... [more]
H3H934_PHYRM3.040e-2737.59Reverse transcriptase Ty1/copia-type domain-contai... [more]
W7TJ26_9STRA5.930e-2745.59Gag-pol polyprotein n=2 Tax=Nannochloropsis gadita... [more]
A0A438JW73_VITVI6.180e-2736.77Retrovirus-related Pol polyprotein from transposon... [more]
W7TIM1_9STRA6.320e-2745.59Gag-pol polyprotein n=1 Tax=Nannochloropsis gadita... [more]
A0A7D9HG25_PARCT6.370e-2742.96Reverse transcriptase Ty1/copia-type domain-contai... [more]

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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
H-paniculata_contig2592contigH-paniculata_contig2592:20138..20602 +
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 Halopteris paniculata Hal_grac_a_UBK monoicous2021-02-24
Properties
Property NameValue
Taxonomic scopeEukaryota
Seed ortholog score112.1
Seed ortholog evalue2.4e-22
Seed eggNOG ortholog164328.Phyra87462
Hectar predicted targeting categoryother localisation
EggNOG free text desc.gag-polypeptide of LTR copia-type
EggNOG OGs3QHJF@4776,COG2801@1,KOG0017@2759
COG Functional cat.L
Best tax levelPeronosporales
Best eggNOG OGNA|NA|NA
Exons1
Model size465
Cds size465
Stop0
Start0
Relationships

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

Feature NameUnique NameSpeciesTypePosition
1622929772.397641-CDS-H-paniculata_contig2592:20137..206021622929772.397641-CDS-H-paniculata_contig2592:20137..20602Halopteris paniculata Hal_grac_a_UBK monoicousCDSH-paniculata_contig2592 20138..20602 +
1691481004.5061805-CDS-H-paniculata_contig2592:20137..206021691481004.5061805-CDS-H-paniculata_contig2592:20137..20602Halopteris paniculata Hal_grac_a_UBK monoicousCDSH-paniculata_contig2592 20138..20602 +


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

Feature NameUnique NameSpeciesTypePosition
mRNA_H-paniculata_contig2592.7071.1prot_H-paniculata_contig2592.7071.1Halopteris paniculata Hal_grac_a_UBK monoicouspolypeptideH-paniculata_contig2592 20138..20602 +


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_H-paniculata_contig2592.7071.1

>prot_H-paniculata_contig2592.7071.1 ID=prot_H-paniculata_contig2592.7071.1|Name=mRNA_H-paniculata_contig2592.7071.1|organism=Halopteris paniculata Hal_grac_a_UBK monoicous|type=polypeptide|length=155bp
VRRLRRSVYGLEQSGRNWNNTLDDFLVGIGLDRSTTDSCLYFSRDDGGET
NLLVVVYVDGLVIAGRREKVDEFKHNISQRFRMKDLGSLSRVLGIEARRD
RPNGTITISQGSYIREALKRYSFDECRGVPTPVEGKVKISAPQSADKPSE
PKSLG
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mRNA from alignment at H-paniculata_contig2592:20138..20602+

Legend: CDSpolypeptide
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_H-paniculata_contig2592.7071.1 ID=mRNA_H-paniculata_contig2592.7071.1|Name=mRNA_H-paniculata_contig2592.7071.1|organism=Halopteris paniculata Hal_grac_a_UBK monoicous|type=mRNA|length=465bp|location=Sequence derived from alignment at H-paniculata_contig2592:20138..20602+ (Halopteris paniculata Hal_grac_a_UBK monoicous)
GTGCGCCGCCTGCGTAGAAGCGTGTACGGCCTCGAGCAGAGCGGCCGAAA CTGGAATAACACTCTTGACGATTTTCTTGTTGGGATAGGACTCGACCGTT CCACTACCGACTCATGTTTGTACTTTTCCCGCGACGATGGGGGAGAAACA AACCTTCTGGTAGTCGTGTATGTTGACGGCCTGGTCATTGCTGGTCGTCG TGAGAAAGTAGACGAGTTCAAGCATAACATAAGTCAGCGTTTTAGGATGA AAGACTTGGGCTCTCTCTCGCGCGTGTTGGGAATAGAAGCACGACGTGAC CGCCCTAATGGTACCATAACCATCTCGCAGGGTAGCTACATCCGCGAGGC ACTAAAAAGATACAGCTTTGACGAGTGTCGAGGAGTACCCACCCCTGTAG AGGGAAAAGTGAAGATTTCGGCACCCCAGTCGGCCGACAAGCCCTCCGAA CCGAAGTCACTTGGA
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Coding sequence (CDS) from alignment at H-paniculata_contig2592:20138..20602+

>mRNA_H-paniculata_contig2592.7071.1 ID=mRNA_H-paniculata_contig2592.7071.1|Name=mRNA_H-paniculata_contig2592.7071.1|organism=Halopteris paniculata Hal_grac_a_UBK monoicous|type=CDS|length=930bp|location=Sequence derived from alignment at H-paniculata_contig2592:20138..20602+ (Halopteris paniculata Hal_grac_a_UBK monoicous)
GTGCGCCGCCTGCGTAGAAGCGTGTACGGCCTCGAGCAGAGCGGCCGAAA
CTGGAATAACACTCTTGACGATTTTCTTGTTGGGATAGGACTCGACCGTT
CCACTACCGACTCATGTTTGTACTTTTCCCGCGACGATGGGGGAGAAACA
AACCTTCTGGTAGTCGTGTATGTTGACGGCCTGGTCATTGCTGGTCGTCG
TGAGAAAGTAGACGAGTTCAAGCATAACATAAGTCAGCGTTTTAGGATGA
AAGACTTGGGCTCTCTCTCGCGCGTGTTGGGAATAGAAGCACGACGTGAC
CGCCCTAATGGTACCATAACCATCTCGCAGGGTAGCTACATCCGCGAGGC
ACTAAAAAGATACAGCTTTGACGAGTGTCGAGGAGTACCCACCCCTGTAG
AGGGAAAAGTGAAGATTTCGGCACCCCAGTCGGCCGACAAGCCCTCCGAA
CCGAAGTCACTTGGAGTGCGCCGCCTGCGTAGAAGCGTGTACGGCCTCGA
GCAGAGCGGCCGAAACTGGAATAACACTCTTGACGATTTTCTTGTTGGGA
TAGGACTCGACCGTTCCACTACCGACTCATGTTTGTACTTTTCCCGCGAC
GATGGGGGAGAAACAAACCTTCTGGTAGTCGTGTATGTTGACGGCCTGGT
CATTGCTGGTCGTCGTGAGAAAGTAGACGAGTTCAAGCATAACATAAGTC
AGCGTTTTAGGATGAAAGACTTGGGCTCTCTCTCGCGCGTGTTGGGAATA
GAAGCACGACGTGACCGCCCTAATGGTACCATAACCATCTCGCAGGGTAG
CTACATCCGCGAGGCACTAAAAAGATACAGCTTTGACGAGTGTCGAGGAG
TACCCACCCCTGTAGAGGGAAAAGTGAAGATTTCGGCACCCCAGTCGGCC
GACAAGCCCTCCGAACCGAAGTCACTTGGA
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