mRNA_H-elongata_contig76710.15341.1 (mRNA) Himanthalia elongata Himel1 dioecious

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

Overview
NamemRNA_H-elongata_contig76710.15341.1
Unique NamemRNA_H-elongata_contig76710.15341.1
TypemRNA
OrganismHimanthalia elongata Himel1 dioecious (Himanthalia elongata Himel1 dioecious)
Homology
[Close]
BLAST of mRNA_H-elongata_contig76710.15341.1 vs. uniprot
Match: A0A6H5LHA9_9PHAE (CCHC-type domain-containing protein (Fragment) n=1 Tax=Ectocarpus sp. CCAP 1310/34 TaxID=867726 RepID=A0A6H5LHA9_9PHAE)

HSP 1 Score: 54.3 bits (129), Expect = 1.270e-6
Identity = 26/68 (38.24%), Postives = 39/68 (57.35%), Query Frame = 1 
Query:   16 WLLDSGATAHPTNSANDMTNIRECQRGMKVASGEIIPIEGYGDLLLKFRSEGDIVPLQLLDVAYVPRL 219
            ++ D+GAT H   +++      EC R ++VA+GE  P+ GYGD+ +   S      L L  VA+VPRL
Sbjct:  253 YVADTGATTHMFANSDGFVRYEECDRRVRVATGETFPMVGYGDVTVTLGSRDGTTDLFLKRVAHVPRL 320
[Close]
BLAST of mRNA_H-elongata_contig76710.15341.1 vs. uniprot
Match: A5CB87_VITVI (Reverse transcriptase Ty1/copia-type domain-containing protein n=1 Tax=Vitis vinifera TaxID=29760 RepID=A5CB87_VITVI)

HSP 1 Score: 49.3 bits (116), Expect = 7.540e-5
Identity = 30/77 (38.96%), Postives = 46/77 (59.74%), Query Frame = 1 
Query:   13 PWLLDSGATAHPTNSANDMTNIREC--QRGMKVASGEIIPIEGYGDLLLKFRSEGDIVPLQLLDVAYVPRLSHHLIS 237
            PW++DSGA+ H TNS+N   +   C   + +++A G   PI G G  L+K  SEG    + L  V +VP+L+ +L+S
Sbjct:  241 PWIIDSGASDHMTNSSNMFESYSPCPGNKKVRIADGNFSPIAGKG--LIKI-SEG----IDLKSVLHVPKLTCNLLS 310
[Close]
BLAST of mRNA_H-elongata_contig76710.15341.1 vs. uniprot
Match: A5ARX9_VITVI (ABC transporter domain-containing protein n=1 Tax=Vitis vinifera TaxID=29760 RepID=A5ARX9_VITVI)

HSP 1 Score: 49.3 bits (116), Expect = 7.550e-5
Identity = 30/77 (38.96%), Postives = 46/77 (59.74%), Query Frame = 1 
Query:   13 PWLLDSGATAHPTNSANDMTNIREC--QRGMKVASGEIIPIEGYGDLLLKFRSEGDIVPLQLLDVAYVPRLSHHLIS 237
            PW++DSGA+ H TNS+N   +   C   + +++A G   PI G G  L+K  SEG    + L  V +VP+L+ +L+S
Sbjct:  152 PWIIDSGASDHMTNSSNMFESYSPCPGNKKVRIADGNFSPIAGKG--LIKI-SEG----IDLKSVLHVPKLTCNLLS 221
[Close]
BLAST of mRNA_H-elongata_contig76710.15341.1 vs. uniprot
Match: UPI00053FABD5 (uncharacterized protein LOC104881375 isoform X1 n=2 Tax=Vitis vinifera TaxID=29760 RepID=UPI00053FABD5)

HSP 1 Score: 48.9 bits (115), Expect = 9.500e-5
Identity = 30/78 (38.46%), Postives = 47/78 (60.26%), Query Frame = 1 
Query:   13 PWLLDSGATAHPTNSANDMTNIREC--QRGMKVASGEIIPIEGYGDLLLKFRSEGDIVPLQLLDVAYVPRLSHHLISL 240
            PW++DSGA+ H TNS+N   +   C   + +++A G   PI G G  L+K  SEG    + L  V +VP+L+ +L+S+
Sbjct:  194 PWIIDSGASDHMTNSSNMFGSYLPCPGNKKVRIADGNFSPIAGKG--LIKI-SEG----IDLKSVLHVPKLTCNLLSI 264
The following BLAST results are available for this feature:
BLAST of mRNA_H-elongata_contig76710.15341.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 4
Match NameE-valueIdentityDescription
A0A6H5LHA9_9PHAE1.270e-638.24CCHC-type domain-containing protein (Fragment) n=1... [more]
A5CB87_VITVI7.540e-538.96Reverse transcriptase Ty1/copia-type domain-contai... [more]
A5ARX9_VITVI7.550e-538.96ABC transporter domain-containing protein n=1 Tax=... [more]
UPI00053FABD59.500e-538.46uncharacterized protein LOC104881375 isoform X1 n=... [more]
back to top
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
H-elongata_contig76710contigH-elongata_contig76710:2447..2695 +
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 size249
Cds size249
Stop0
Start1
Relationships

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

Feature NameUnique NameSpeciesTypePosition
1622931171.4377363-CDS-H-elongata_contig76710:2446..26951622931171.4377363-CDS-H-elongata_contig76710:2446..2695Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig76710 2447..2695 +
1691679727.613894-CDS-H-elongata_contig76710:2446..26951691679727.613894-CDS-H-elongata_contig76710:2446..2695Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig76710 2447..2695 +


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

Feature NameUnique NameSpeciesTypePosition
mRNA_H-elongata_contig76710.15341.1prot_H-elongata_contig76710.15341.1Himanthalia elongata Himel1 dioeciouspolypeptideH-elongata_contig76710 2447..2695 +


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_H-elongata_contig76710.15341.1

>prot_H-elongata_contig76710.15341.1 ID=prot_H-elongata_contig76710.15341.1|Name=mRNA_H-elongata_contig76710.15341.1|organism=Himanthalia elongata Himel1 dioecious|type=polypeptide|length=83bp
MGDEPWLLDSGATAHPTNSANDMTNIRECQRGMKVASGEIIPIEGYGDLL
LKFRSEGDIVPLQLLDVAYVPRLSHHLISLQTV
back to top

mRNA from alignment at H-elongata_contig76710:2447..2695+

Legend: CDSpolypeptide
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_H-elongata_contig76710.15341.1 ID=mRNA_H-elongata_contig76710.15341.1|Name=mRNA_H-elongata_contig76710.15341.1|organism=Himanthalia elongata Himel1 dioecious|type=mRNA|length=249bp|location=Sequence derived from alignment at H-elongata_contig76710:2447..2695+ (Himanthalia elongata Himel1 dioecious)
ATGGGGGATGAGCCCTGGTTGCTTGATAGTGGTGCGACAGCGCATCCAAC
CAACAGCGCCAATGACATGACCAACATTCGTGAATGTCAGCGGGGTATGA
AGGTTGCTAGTGGAGAAATCATCCCAATCGAAGGTTACGGAGACCTCTTA
TTGAAATTTCGATCTGAGGGAGACATCGTACCTCTACAGCTTCTTGACGT
CGCGTATGTACCTCGTCTCTCGCACCATCTTATTAGTCTACAGACTGTG
back to top

Coding sequence (CDS) from alignment at H-elongata_contig76710:2447..2695+

>mRNA_H-elongata_contig76710.15341.1 ID=mRNA_H-elongata_contig76710.15341.1|Name=mRNA_H-elongata_contig76710.15341.1|organism=Himanthalia elongata Himel1 dioecious|type=CDS|length=498bp|location=Sequence derived from alignment at H-elongata_contig76710:2447..2695+ (Himanthalia elongata Himel1 dioecious)
ATGGGGGATGAGCCCTGGTTGCTTGATAGTGGTGCGACAGCGCATCCAAC
CAACAGCGCCAATGACATGACCAACATTCGTGAATGTCAGCGGGGTATGA
AGGTTGCTAGTGGAGAAATCATCCCAATCGAAGGTTACGGAGACCTCTTA
TTGAAATTTCGATCTGAGGGAGACATCGTACCTCTACAGCTTCTTGACGT
CGCGTATGTACCTCGTCTCTCGCACCATCTTATTAGTCTACAGACTGTGA
TGGGGGATGAGCCCTGGTTGCTTGATAGTGGTGCGACAGCGCATCCAACC
AACAGCGCCAATGACATGACCAACATTCGTGAATGTCAGCGGGGTATGAA
GGTTGCTAGTGGAGAAATCATCCCAATCGAAGGTTACGGAGACCTCTTAT
TGAAATTTCGATCTGAGGGAGACATCGTACCTCTACAGCTTCTTGACGTC
GCGTATGTACCTCGTCTCTCGCACCATCTTATTAGTCTACAGACTGTG
back to top