mRNA_H-elongata_contig111214.919.1 (mRNA) Himanthalia elongata Himel1 dioecious

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

Overview
NamemRNA_H-elongata_contig111214.919.1
Unique NamemRNA_H-elongata_contig111214.919.1
TypemRNA
OrganismHimanthalia elongata Himel1 dioecious (Himanthalia elongata Himel1 dioecious)
Homology
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BLAST of mRNA_H-elongata_contig111214.919.1 vs. uniprot
Match: A0A6H5L4T7_9PHAE (TFIIB-type domain-containing protein n=2 Tax=Ectocarpus TaxID=2879 RepID=A0A6H5L4T7_9PHAE)

HSP 1 Score: 71.6 bits (174), Expect = 4.040e-13
Identity = 36/66 (54.55%), Postives = 53/66 (80.30%), Query Frame = 1 
Query:    4 FKNMDIDKG-TVRGTHLIPQLCNKLGVPAFITMAAQNVAEKASELDLVGGVMPSAVAAAAVLLICS 198
              N++I++  ++RG H IP LC+KLG+P F+++AA++ A++AS  DLV G+ PSAVAAAAVLL+CS
Sbjct:  201 LSNLEIERAPSLRGEHHIPLLCDKLGLPPFVSVAARHAAQQASRWDLVDGMKPSAVAAAAVLLVCS 266
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BLAST of mRNA_H-elongata_contig111214.919.1 vs. uniprot
Match: A0A8D3A2J0_SCOMX (Transcription initiation factor IIB n=4 Tax=Scophthalmus maximus TaxID=52904 RepID=A0A8D3A2J0_SCOMX)

HSP 1 Score: 50.8 bits (120), Expect = 1.030e-5
Identity = 27/61 (44.26%), Postives = 38/61 (62.30%), Query Frame = 1 
Query:    1 VFKNMDIDKGTVRGTHLIPQLCNKLGVPAFITMAAQNVAEKASELDLVGGVMPSAVAAAAV 183
            + K +DI    +    L+P+ C+ LG+P  + MAA  +A KA ELDLV G  P +VAAAA+
Sbjct:  200 ILKMLDISLDLINPGDLMPRFCSNLGLPKPVRMAANFIARKAVELDLVPGRSPISVAAAAI 260
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BLAST of mRNA_H-elongata_contig111214.919.1 vs. uniprot
Match: A0A6A4TM01_SCOMX (Transcription initiation factor IIB n=1 Tax=Scophthalmus maximus TaxID=52904 RepID=A0A6A4TM01_SCOMX)

HSP 1 Score: 50.8 bits (120), Expect = 1.070e-5
Identity = 27/61 (44.26%), Postives = 38/61 (62.30%), Query Frame = 1 
Query:    1 VFKNMDIDKGTVRGTHLIPQLCNKLGVPAFITMAAQNVAEKASELDLVGGVMPSAVAAAAV 183
            + K +DI    +    L+P+ C+ LG+P  + MAA  +A KA ELDLV G  P +VAAAA+
Sbjct:  312 ILKMLDISLDLINPGDLMPRFCSNLGLPKPVRMAANFIARKAVELDLVPGRSPISVAAAAI 372
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BLAST of mRNA_H-elongata_contig111214.919.1 vs. uniprot
Match: A0A835YX77_9STRA (TFIIB-type domain-containing protein n=1 Tax=Tribonema minus TaxID=303371 RepID=A0A835YX77_9STRA)

HSP 1 Score: 48.5 bits (114), Expect = 6.870e-5
Identity = 23/49 (46.94%), Postives = 35/49 (71.43%), Query Frame = 1 
Query:   34 VRGTHLIPQLCNKLGVPAFITMAAQNVAEKASELDLVGGVMPSAVAAAA 180
            + G HL+P+LC+ LGVP  ++ AA+ +A + +EL L+ G+ P  VAAAA
Sbjct:  211 ILGEHLVPRLCDALGVPQ-VSQAAKEIATQCAELSLIDGIKPQVVAAAA 258
The following BLAST results are available for this feature:
BLAST of mRNA_H-elongata_contig111214.919.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 4
Match NameE-valueIdentityDescription
A0A6H5L4T7_9PHAE4.040e-1354.55TFIIB-type domain-containing protein n=2 Tax=Ectoc... [more]
A0A8D3A2J0_SCOMX1.030e-544.26Transcription initiation factor IIB n=4 Tax=Scopht... [more]
A0A6A4TM01_SCOMX1.070e-544.26Transcription initiation factor IIB n=1 Tax=Scopht... [more]
A0A835YX77_9STRA6.870e-546.94TFIIB-type domain-containing protein n=1 Tax=Tribo... [more]
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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
H-elongata_contig111214contigH-elongata_contig111214:86..283 +
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 size198
Cds size186
Stop0
Start1
Relationships

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

Feature NameUnique NameSpeciesTypePosition
1622929636.5300486-UTR-H-elongata_contig111214:85..971622929636.5300486-UTR-H-elongata_contig111214:85..97Himanthalia elongata Himel1 dioeciousUTRH-elongata_contig111214 86..97 +
1691679100.5390272-UTR-H-elongata_contig111214:85..971691679100.5390272-UTR-H-elongata_contig111214:85..97Himanthalia elongata Himel1 dioeciousUTRH-elongata_contig111214 86..97 +


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

Feature NameUnique NameSpeciesTypePosition
1622929636.5431807-CDS-H-elongata_contig111214:97..2831622929636.5431807-CDS-H-elongata_contig111214:97..283Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig111214 98..283 +
1691679100.5463383-CDS-H-elongata_contig111214:97..2831691679100.5463383-CDS-H-elongata_contig111214:97..283Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig111214 98..283 +


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

Feature NameUnique NameSpeciesTypePosition
mRNA_H-elongata_contig111214.919.1prot_H-elongata_contig111214.919.1Himanthalia elongata Himel1 dioeciouspolypeptideH-elongata_contig111214 98..283 +


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_H-elongata_contig111214.919.1

>prot_H-elongata_contig111214.919.1 ID=prot_H-elongata_contig111214.919.1|Name=mRNA_H-elongata_contig111214.919.1|organism=Himanthalia elongata Himel1 dioecious|type=polypeptide|length=62bp
MDIDKGTVRGTHLIPQLCNKLGVPAFITMAAQNVAEKASELDLVGGVMPS
AVAAAAVLLICS
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mRNA from alignment at H-elongata_contig111214:86..283+

Legend: UTRpolypeptideCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_H-elongata_contig111214.919.1 ID=mRNA_H-elongata_contig111214.919.1|Name=mRNA_H-elongata_contig111214.919.1|organism=Himanthalia elongata Himel1 dioecious|type=mRNA|length=198bp|location=Sequence derived from alignment at H-elongata_contig111214:86..283+ (Himanthalia elongata Himel1 dioecious)
GTCTTCAAGAACATGGACATTGACAAGGGAACGGTTCGCGGAACGCACTT
GATACCTCAGCTGTGCAACAAGCTGGGGGTTCCCGCCTTCATCACAATGG
CTGCGCAGAACGTCGCAGAGAAGGCAAGCGAGCTGGACCTCGTTGGCGGC
GTGATGCCTTCGGCTGTGGCAGCTGCGGCGGTCCTCCTGATCTGCTCG
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Coding sequence (CDS) from alignment at H-elongata_contig111214:86..283+

>mRNA_H-elongata_contig111214.919.1 ID=mRNA_H-elongata_contig111214.919.1|Name=mRNA_H-elongata_contig111214.919.1|organism=Himanthalia elongata Himel1 dioecious|type=CDS|length=372bp|location=Sequence derived from alignment at H-elongata_contig111214:86..283+ (Himanthalia elongata Himel1 dioecious)
ATGGACATTGACAAGGGAACGGTTCGCGGAACGCACTTGATACCTCAGCT
GTGCAACAAGCTGGGGGTTCCCGCCTTCATCACAATGGCTGCGCAGAACG
TCGCAGAGAAGGCAAGCGAGCTGGACCTCGTTGGCGGCGTGATGCCTTCG
GCTGTGGCAGCTGCGGCGGTCCTCCTGATCTGCTCGATGGACATTGACAA
GGGAACGGTTCGCGGAACGCACTTGATACCTCAGCTGTGCAACAAGCTGG
GGGTTCCCGCCTTCATCACAATGGCTGCGCAGAACGTCGCAGAGAAGGCA
AGCGAGCTGGACCTCGTTGGCGGCGTGATGCCTTCGGCTGTGGCAGCTGC
GGCGGTCCTCCTGATCTGCTCG
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