mRNA_H-elongata_contig127.2005.1 (mRNA) Himanthalia elongata Himel1 dioecious

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

Overview
NamemRNA_H-elongata_contig127.2005.1
Unique NamemRNA_H-elongata_contig127.2005.1
TypemRNA
OrganismHimanthalia elongata Himel1 dioecious (Himanthalia elongata Himel1 dioecious)
Homology
BLAST of mRNA_H-elongata_contig127.2005.1 vs. uniprot
Match: A0A803LD36_CHEQI (Uncharacterized protein n=1 Tax=Chenopodium quinoa TaxID=63459 RepID=A0A803LD36_CHEQI)

HSP 1 Score: 53.5 bits (127), Expect = 2.420e-6
Identity = 29/80 (36.25%), Postives = 47/80 (58.75%), Query Frame = 1
Query:    1 WIRDSGASCHMTSDASKMYNVRTPPFGKHEVMTSDGTRLWVECIGNIDVVFHGRSDEPITLCDVSHVPDLKFNLFSFHKV 240
            W+ DSGA+ H+ SD + ++   TP    + +   DG+R+ V+  G +      + ++ I+L +V HVPD KFNL S HK+
Sbjct:  277 WLLDSGATDHIFSDIA-LFAKLTPVLTPYYITIPDGSRILVKNTGVV------KLNDEISLLNVLHVPDFKFNLISVHKL 349          
BLAST of mRNA_H-elongata_contig127.2005.1 vs. uniprot
Match: A0A834WYN7_9FABA (Retrovirus-related Pol polyprotein from transposon TNT 1-94 n=1 Tax=Senna tora TaxID=362788 RepID=A0A834WYN7_9FABA)

HSP 1 Score: 52.4 bits (124), Expect = 6.270e-6
Identity = 29/82 (35.37%), Postives = 47/82 (57.32%), Query Frame = 1
Query:    1 WIRDSGASCHMTSDASKMYNVRTPPFGKHEVMTSDGTRLWVECIGNIDVVFHGRSDEPITLCDVSHVPDLKFNLFSFHKVQQ 246
            W  DSGAS H+T+DAS +++   P  G  +V  ++GT L +  +G  ++  H  S + ++L ++ HVP +  NL S  K  Q
Sbjct:  322 WYPDSGASHHITNDASNLHS-HQPYTGSEQVHAANGTGLVIHNVGQSEI--HTNSSKILSLKNLFHVPSVTKNLLSVSKCAQ 400          
BLAST of mRNA_H-elongata_contig127.2005.1 vs. uniprot
Match: A0A834T3C8_9FABA (Retrovirus-related Pol polyprotein from transposon TNT 1-94 n=1 Tax=Senna tora TaxID=362788 RepID=A0A834T3C8_9FABA)

HSP 1 Score: 50.8 bits (120), Expect = 2.100e-5
Identity = 32/82 (39.02%), Postives = 44/82 (53.66%), Query Frame = 1
Query:    1 WIRDSGASCHMTSDASKMYNVRTPPFGKHEVMTSDGTRLWVECIGNIDVVFHGRSDEPITLCDVSHVPDLKFNLFSFHKVQQ 246
            WI DSGAS HMT +AS +++   P     +V  +DGT   V  IG+I +         +TL +V +VP L  NL S  K+ Q
Sbjct:   74 WIVDSGASDHMTGNAS-LFSTLAPCASSLQVKIADGTMAKVSAIGSIKI------STTLTLMNVLYVPALACNLLSISKLTQ 148          
BLAST of mRNA_H-elongata_contig127.2005.1 vs. uniprot
Match: A0A336MT82_CULSO (CSON006917 protein n=1 Tax=Culicoides sonorensis TaxID=179676 RepID=A0A336MT82_CULSO)

HSP 1 Score: 50.8 bits (120), Expect = 2.200e-5
Identity = 29/82 (35.37%), Postives = 46/82 (56.10%), Query Frame = 1
Query:    1 WIRDSGASCHMTSDASKMYNVRTPPFGKHEVMTSDGTRLWVECIGNIDVVFHGRSDEPITLC--DVSHVPDLKFNLFSFHKV 240
            W  DSGAS HM +D     ++++    K  ++ +DG +L    IG++ +     SD+ + +   DV HVP+LK NL S HK+
Sbjct:  271 WFVDSGASNHMCNDEKVFQSLKSTSESK--IILADGDKLVSNNIGDVKLSLKTNSDDMMNVLIKDVLHVPNLKGNLISVHKL 350          
BLAST of mRNA_H-elongata_contig127.2005.1 vs. uniprot
Match: A0A336N465_CULSO (CSON011514 protein n=1 Tax=Culicoides sonorensis TaxID=179676 RepID=A0A336N465_CULSO)

HSP 1 Score: 50.8 bits (120), Expect = 2.250e-5
Identity = 29/82 (35.37%), Postives = 46/82 (56.10%), Query Frame = 1
Query:    1 WIRDSGASCHMTSDASKMYNVRTPPFGKHEVMTSDGTRLWVECIGNIDVVFHGRSDEPITLC--DVSHVPDLKFNLFSFHKV 240
            W  DSGAS HM +D     ++++    K  ++ +DG +L    IG++ +     SD+ + +   DV HVP+LK NL S HK+
Sbjct:  271 WFVDSGASNHMCNDEKVFQSLKSTSESK--IILADGDKLVSNNIGDVKLSLKTNSDDMMNVLIKDVLHVPNLKGNLISVHKL 350          
BLAST of mRNA_H-elongata_contig127.2005.1 vs. uniprot
Match: A0A834U2Q9_9FABA (F-box protein interaction domain protein n=1 Tax=Senna tora TaxID=362788 RepID=A0A834U2Q9_9FABA)

HSP 1 Score: 50.8 bits (120), Expect = 2.260e-5
Identity = 33/82 (40.24%), Postives = 45/82 (54.88%), Query Frame = 1
Query:    1 WIRDSGASCHMTSDASKMYNVRTPPFGKHEVMTSDGTRLWVECIGNIDVVFHGRSDEPITLCDVSHVPDLKFNLFSFHKVQQ 246
            WI DSGAS HMT +AS +++   P     +V  +DGT   V  IG++ +       + ITL +V HVP L  NL S  K+ Q
Sbjct:   95 WIVDSGASDHMTGNAS-LFSTLGPCKTSLQVKIADGTMAKVLGIGSVKI------SDTITLLNVLHVPTLACNLLSISKLTQ 169          
BLAST of mRNA_H-elongata_contig127.2005.1 vs. uniprot
Match: A0A835CFI5_9FABA (Retrovirus-related Pol polyprotein from transposon TNT 1-94 n=1 Tax=Senna tora TaxID=362788 RepID=A0A835CFI5_9FABA)

HSP 1 Score: 50.4 bits (119), Expect = 3.040e-5
Identity = 29/79 (36.71%), Postives = 45/79 (56.96%), Query Frame = 1
Query:    1 WIRDSGASCHMTSDASKMYNVRTPPFGKHEVMTSDGTRLWVECIGNIDVVFHGRSDEPITLCDVSHVPDLKFNLFSFHK 237
            W  DSGAS H+T+DAS +  VR P  G+  V T++GT L ++ +G  ++     + + + L  + HVP +  NL S  K
Sbjct:  310 WYPDSGASSHLTNDASNL-QVRQPYNGQELVHTANGTGLPIQSVGYSNI--SSSNSQILHLSQLYHVPSVSKNLISVSK 385          
BLAST of mRNA_H-elongata_contig127.2005.1 vs. uniprot
Match: A0A803LZV8_CHEQI (Retrotran_gag_3 domain-containing protein n=1 Tax=Chenopodium quinoa TaxID=63459 RepID=A0A803LZV8_CHEQI)

HSP 1 Score: 49.7 bits (117), Expect = 5.510e-5
Identity = 30/80 (37.50%), Postives = 42/80 (52.50%), Query Frame = 1
Query:    1 WIRDSGASCHMTSDASKMYNVRTPPFGKHEVMTSDGTRLWVECIGNIDVVFHGRSDEPITLCDVSHVPDLKFNLFSFHKV 240
            WI DSGA+ H+ S+ S   + +        +  +DG  + VE IG +      + D  I L +V HVP LKFNL S HK+
Sbjct:  367 WIVDSGATDHICSNLSLFESYKCFDKTPSTITIADGKHVTVEHIGTV------QFDNGIVLQNVLHVPGLKFNLISTHKL 440          
BLAST of mRNA_H-elongata_contig127.2005.1 vs. uniprot
Match: A0A0A9SPJ8_ARUDO (gag_pre-integrs domain-containing protein n=1 Tax=Arundo donax TaxID=35708 RepID=A0A0A9SPJ8_ARUDO)

HSP 1 Score: 49.3 bits (116), Expect = 7.100e-5
Identity = 30/76 (39.47%), Postives = 40/76 (52.63%), Query Frame = 1
Query:    1 WIRDSGASCHMTSDASKMYNVRTPPFGKHEVMTSDGTRLWVECIGNIDVVFHGRSDEPITLCDVSHVPDLKFNLFS 228
            W+ DSGAS HMT DAS +    +P      V T+DGT + V   G +       S +  ++ DV+HVP L   LFS
Sbjct:   86 WVLDSGASFHMTPDASSLTTTGSPVHSI-SVQTADGTSMPVTYQGTL-------STQNFSVPDVAHVPQLAMQLFS 153          
BLAST of mRNA_H-elongata_contig127.2005.1 vs. uniprot
Match: A0A2N9II60_FAGSY (Integrase catalytic domain-containing protein n=1 Tax=Fagus sylvatica TaxID=28930 RepID=A0A2N9II60_FAGSY)

HSP 1 Score: 49.3 bits (116), Expect = 7.900e-5
Identity = 29/80 (36.25%), Postives = 46/80 (57.50%), Query Frame = 1
Query:    1 WIRDSGASCHMTSDASKMYNVRTPPFGKHEVMTSDGTRLWVECIGNIDVVFHGRSDEPITLCDVSHVPDLKFNLFSFHKV 240
            W+ D+GAS H+TS+AS + +  TP  G  +V   +G  L ++ IGN  +  H +  +   L +V H+P +  NL S HK+
Sbjct:  357 WLTDTGASDHITSNASNLSSP-TPYQGSEQVTVGNGQHLPIQSIGNTHL--HTQYHK-FQLSNVLHIPRIASNLISVHKL 432          
The following BLAST results are available for this feature:
BLAST of mRNA_H-elongata_contig127.2005.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 10
Match NameE-valueIdentityDescription
A0A803LD36_CHEQI2.420e-636.25Uncharacterized protein n=1 Tax=Chenopodium quinoa... [more]
A0A834WYN7_9FABA6.270e-635.37Retrovirus-related Pol polyprotein from transposon... [more]
A0A834T3C8_9FABA2.100e-539.02Retrovirus-related Pol polyprotein from transposon... [more]
A0A336MT82_CULSO2.200e-535.37CSON006917 protein n=1 Tax=Culicoides sonorensis T... [more]
A0A336N465_CULSO2.250e-535.37CSON011514 protein n=1 Tax=Culicoides sonorensis T... [more]
A0A834U2Q9_9FABA2.260e-540.24F-box protein interaction domain protein n=1 Tax=S... [more]
A0A835CFI5_9FABA3.040e-536.71Retrovirus-related Pol polyprotein from transposon... [more]
A0A803LZV8_CHEQI5.510e-537.50Retrotran_gag_3 domain-containing protein n=1 Tax=... [more]
A0A0A9SPJ8_ARUDO7.100e-539.47gag_pre-integrs domain-containing protein n=1 Tax=... [more]
A0A2N9II60_FAGSY7.900e-536.25Integrase catalytic domain-containing protein n=1 ... [more]
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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
H-elongata_contig127contigH-elongata_contig127:26746..26997 +
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
Exons1
Model size252
Cds size222
Stop0
Start1
Relationships

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

Feature NameUnique NameSpeciesTypePosition
1622929753.6572516-UTR-H-elongata_contig127:26745..267751622929753.6572516-UTR-H-elongata_contig127:26745..26775Himanthalia elongata Himel1 dioeciousUTRH-elongata_contig127 26746..26775 +
1691679144.6580353-UTR-H-elongata_contig127:26745..267751691679144.6580353-UTR-H-elongata_contig127:26745..26775Himanthalia elongata Himel1 dioeciousUTRH-elongata_contig127 26746..26775 +


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

Feature NameUnique NameSpeciesTypePosition
1622929753.6736085-CDS-H-elongata_contig127:26775..269971622929753.6736085-CDS-H-elongata_contig127:26775..26997Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig127 26776..26997 +
1691679144.6687613-CDS-H-elongata_contig127:26775..269971691679144.6687613-CDS-H-elongata_contig127:26775..26997Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig127 26776..26997 +


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

Feature NameUnique NameSpeciesTypePosition
mRNA_H-elongata_contig127.2005.1prot_H-elongata_contig127.2005.1Himanthalia elongata Himel1 dioeciouspolypeptideH-elongata_contig127 26776..26997 +


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_H-elongata_contig127.2005.1

>prot_H-elongata_contig127.2005.1 ID=prot_H-elongata_contig127.2005.1|Name=mRNA_H-elongata_contig127.2005.1|organism=Himanthalia elongata Himel1 dioecious|type=polypeptide|length=74bp
MTSDASKMYNVRTPPFGKHEVMTSDGTRLWVECIGNIDVVFHGRSDEPIT
LCDVSHVPDLKFNLFSFHKVQQTH
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mRNA from alignment at H-elongata_contig127:26746..26997+

Legend: UTRpolypeptideCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_H-elongata_contig127.2005.1 ID=mRNA_H-elongata_contig127.2005.1|Name=mRNA_H-elongata_contig127.2005.1|organism=Himanthalia elongata Himel1 dioecious|type=mRNA|length=252bp|location=Sequence derived from alignment at H-elongata_contig127:26746..26997+ (Himanthalia elongata Himel1 dioecious)
TGGATAAGGGACAGTGGTGCATCGTGTCACATGACGAGTGACGCATCAAA AATGTATAATGTGAGGACTCCTCCTTTTGGTAAACATGAAGTAATGACTA GTGATGGAACGAGATTATGGGTAGAATGTATCGGTAACATCGACGTAGTT TTTCATGGGAGAAGCGATGAACCGATCACGTTATGCGATGTATCGCACGT ACCGGATTTGAAGTTCAATCTTTTTTCGTTTCACAAGGTACAGCAAACAC AT
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Coding sequence (CDS) from alignment at H-elongata_contig127:26746..26997+

>mRNA_H-elongata_contig127.2005.1 ID=mRNA_H-elongata_contig127.2005.1|Name=mRNA_H-elongata_contig127.2005.1|organism=Himanthalia elongata Himel1 dioecious|type=CDS|length=444bp|location=Sequence derived from alignment at H-elongata_contig127:26746..26997+ (Himanthalia elongata Himel1 dioecious)
ATGACGAGTGACGCATCAAAAATGTATAATGTGAGGACTCCTCCTTTTGG
TAAACATGAAGTAATGACTAGTGATGGAACGAGATTATGGGTAGAATGTA
TCGGTAACATCGACGTAGTTTTTCATGGGAGAAGCGATGAACCGATCACG
TTATGCGATGTATCGCACGTACCGGATTTGAAGTTCAATCTTTTTTCGTT
TCACAAGGTACAGCAAACACATATGACGAGTGACGCATCAAAAATGTATA
ATGTGAGGACTCCTCCTTTTGGTAAACATGAAGTAATGACTAGTGATGGA
ACGAGATTATGGGTAGAATGTATCGGTAACATCGACGTAGTTTTTCATGG
GAGAAGCGATGAACCGATCACGTTATGCGATGTATCGCACGTACCGGATT
TGAAGTTCAATCTTTTTTCGTTTCACAAGGTACAGCAAACACAT
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