mRNA_H-elongata_contig64542.14041.1 (mRNA) Himanthalia elongata Himel1 dioecious

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

Overview
NamemRNA_H-elongata_contig64542.14041.1
Unique NamemRNA_H-elongata_contig64542.14041.1
TypemRNA
OrganismHimanthalia elongata Himel1 dioecious (Himanthalia elongata Himel1 dioecious)
Homology
[Close]
BLAST of mRNA_H-elongata_contig64542.14041.1 vs. uniprot
Match: D8LKQ4_ECTSI (Poly(Rc) binding protien (Partial) (Fragment) n=1 Tax=Ectocarpus siliculosus TaxID=2880 RepID=D8LKQ4_ECTSI)

HSP 1 Score: 155 bits (392), Expect = 1.990e-44
Identity = 81/103 (78.64%), Postives = 86/103 (83.50%), Query Frame = 1 
Query:    1 SGAKVTISDSCDGVQHDLDDRTVTASGTFNAVQLAFTHILSHAGTQGPDAGPVMGFTG--VDCAANCFRILIPNVKAGGLIGRGGLTIKTIRERSGARIEISS 303
            SGAKVTISDSC G+  D DDR VTA+GTFN+VQLAFTHILSHAG  GPDA PVMG  G   DC AN FR+LIPNVKAGGLIGRGG TIK IRE+SGARIEISS
Sbjct:  130 SGAKVTISDSCTGLHGDSDDRMVTAAGTFNSVQLAFTHILSHAGAVGPDADPVMGLAGGDPDCVANSFRLLIPNVKAGGLIGRGGCTIKAIREQSGARIEISS 232
[Close]
BLAST of mRNA_H-elongata_contig64542.14041.1 vs. uniprot
Match: A0A6H5L8U0_9PHAE (KH domain-containing protein n=1 Tax=Ectocarpus sp. CCAP 1310/34 TaxID=867726 RepID=A0A6H5L8U0_9PHAE)

HSP 1 Score: 126 bits (316), Expect = 1.400e-31
Identity = 65/81 (80.25%), Postives = 69/81 (85.19%), Query Frame = 1 
Query:   67 VTASGTFNAVQLAFTHILSHAGTQGPDAGPVMGFTG--VDCAANCFRILIPNVKAGGLIGRGGLTIKTIRERSGARIEISS 303
            VTA+GTFN+VQLAFTHILSHAG  GPDA PVMG  G   DC AN FR+LIPNVKAGGLIGRGG TIK IRE+SGARIEISS
Sbjct:    2 VTAAGTFNSVQLAFTHILSHAGAVGPDADPVMGLAGGDPDCVANSFRLLIPNVKAGGLIGRGGCTIKAIREQSGARIEISS 82
[Close]
BLAST of mRNA_H-elongata_contig64542.14041.1 vs. uniprot
Match: A0A836CIH4_9STRA (Uncharacterized protein n=1 Tax=Tribonema minus TaxID=303371 RepID=A0A836CIH4_9STRA)

HSP 1 Score: 71.6 bits (174), Expect = 2.050e-12
Identity = 58/126 (46.03%), Postives = 67/126 (53.17%), Query Frame = 1 
Query:    1 SGAKVTISDSCD------GVQHDLDDRTVTASGTFNAVQLAFTHILSHAGTQGPDAG-PVMGFT--------------GVDCAA----NCFRILIPNVKAGGLIGRGGLTIKTIRERSGARIEISS 303
            SGA+VTISD+ D      G      +R V   G+F AV  A   IL+HA T  P  G P+ G                 VD A     + FR+LIPN KAG LIGRGG TIK IR+ SGARIEISS
Sbjct:  135 SGARVTISDAGDDAGWAGGGGPGGGERLVHLVGSFGAVVAALGAILAHAET--PSNGEPLPGLAQLVAGGLLSGEAAAAVDAAITVPPSAFRMLIPNAKAGALIGRGGTTIKAIRDASGARIEISS 258
[Close]
BLAST of mRNA_H-elongata_contig64542.14041.1 vs. uniprot
Match: A0A6V7UXE4_9BILA (Hypothetical protein n=1 Tax=Meloidogyne enterolobii TaxID=390850 RepID=A0A6V7UXE4_9BILA)

HSP 1 Score: 54.3 bits (129), Expect = 9.950e-7
Identity = 37/103 (35.92%), Postives = 56/103 (54.37%), Query Frame = 1 
Query:    1 SGAKVTISD-SCDGVQHDLDDRTVTASGTFNAVQLAFTHILSHAGTQGPDAGPVMGFTGVDCAANCFRILIPNVKAGGLIGRGGLTIKTIRERSGARIEISSD 306
            SGAK+ I+D SC        +R VT SGTF A+  AFT I+       P        TG        R++IP  + G LIG+GG  I+ IR+++GA ++++++
Sbjct:   26 SGAKINITDGSC-------PERIVTISGTFAAIDQAFTLIVRKFEEDIPSTQ-----TGAIKPPITLRLIIPASQCGSLIGKGGSKIREIRDKTGASLQVANE 116
[Close]
BLAST of mRNA_H-elongata_contig64542.14041.1 vs. uniprot
Match: A0A0C9QNP6_9SPER (TSA: Wollemia nobilis Ref_Wollemi_Transcript_15816_1716 transcribed RNA sequence n=2 Tax=Araucariaceae TaxID=25664 RepID=A0A0C9QNP6_9SPER)

HSP 1 Score: 49.7 bits (117), Expect = 9.930e-5
Identity = 31/82 (37.80%), Postives = 45/82 (54.88%), Query Frame = 1 
Query:   58 DRTVTASGTFNAVQLAFTHILSHAGTQGPDAGPVMGFTGVDCAANCFRILIPNVKAGGLIGRGGLTIKTIRERSGARIEISS 303
            DR V+ +GT N V +A   IL+    +  +   V   TG        R+++PN   GG+IG+GG TIK+  E S A I++SS
Sbjct:   93 DRIVSVTGTINEVLVAANLILAKLSNEAEENNDVDEKTGQ------VRLILPNSVCGGIIGKGGATIKSFVEDSQASIKLSS 168
The following BLAST results are available for this feature:
BLAST of mRNA_H-elongata_contig64542.14041.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 5
Match NameE-valueIdentityDescription
D8LKQ4_ECTSI1.990e-4478.64Poly(Rc) binding protien (Partial) (Fragment) n=1 ... [more]
A0A6H5L8U0_9PHAE1.400e-3180.25KH domain-containing protein n=1 Tax=Ectocarpus sp... [more]
A0A836CIH4_9STRA2.050e-1246.03Uncharacterized protein n=1 Tax=Tribonema minus Ta... [more]
A0A6V7UXE4_9BILA9.950e-735.92Hypothetical protein n=1 Tax=Meloidogyne enterolob... [more]
A0A0C9QNP6_9SPER9.930e-537.80TSA: Wollemia nobilis Ref_Wollemi_Transcript_15816... [more]
back to top
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
H-elongata_contig64542contigH-elongata_contig64542:709..1014 +
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 scopeEukaryota
Seed ortholog score157.5
Seed ortholog evalue3.2e-36
Seed eggNOG ortholog2880.D8LKQ4
KEGG koko:K13210
EggNOG free text desc.negative regulation of low-density lipoprotein particle clearance
EggNOG OGsKOG1676@1,KOG1676@2759
COG Functional cat.S
Best tax levelEukaryota
Best eggNOG OGNA|NA|NA
BRITEko00000,ko03019,ko03041
Hectar predicted targeting categoryother localisation
Ec32 ortholog descriptionK Homology domain, type 1
Ec32 orthologEc-07_004410.1
Exons1
Model size306
Cds size306
Stop0
Start0
Relationships

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

Feature NameUnique NameSpeciesTypePosition
1622931031.415984-CDS-H-elongata_contig64542:708..10141622931031.415984-CDS-H-elongata_contig64542:708..1014Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig64542 709..1014 +
1691679669.339925-CDS-H-elongata_contig64542:708..10141691679669.339925-CDS-H-elongata_contig64542:708..1014Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig64542 709..1014 +


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

Feature NameUnique NameSpeciesTypePosition
mRNA_H-elongata_contig64542.14041.1prot_H-elongata_contig64542.14041.1Himanthalia elongata Himel1 dioeciouspolypeptideH-elongata_contig64542 709..1014 +


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_H-elongata_contig64542.14041.1

>prot_H-elongata_contig64542.14041.1 ID=prot_H-elongata_contig64542.14041.1|Name=mRNA_H-elongata_contig64542.14041.1|organism=Himanthalia elongata Himel1 dioecious|type=polypeptide|length=102bp
SGAKVTISDSCDGVQHDLDDRTVTASGTFNAVQLAFTHILSHAGTQGPDA
GPVMGFTGVDCAANCFRILIPNVKAGGLIGRGGLTIKTIRERSGARIEIS
SD
back to top

mRNA from alignment at H-elongata_contig64542:709..1014+

Legend: CDSpolypeptide
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_H-elongata_contig64542.14041.1 ID=mRNA_H-elongata_contig64542.14041.1|Name=mRNA_H-elongata_contig64542.14041.1|organism=Himanthalia elongata Himel1 dioecious|type=mRNA|length=306bp|location=Sequence derived from alignment at H-elongata_contig64542:709..1014+ (Himanthalia elongata Himel1 dioecious)
TCTGGTGCGAAGGTCACTATAAGCGATAGCTGCGATGGAGTGCAGCACGA
CTTGGACGATAGGACGGTGACGGCGTCAGGCACCTTCAACGCCGTCCAGC
TCGCCTTCACCCACATCCTTAGCCACGCGGGCACCCAGGGACCCGATGCC
GGCCCGGTGATGGGCTTCACCGGAGTGGACTGCGCCGCCAACTGCTTCCG
TATCCTCATCCCTAACGTCAAGGCCGGGGGACTGATCGGCCGCGGCGGCT
TAACCATTAAGACCATCCGCGAGCGGAGCGGTGCGCGGATCGAGATATCC
AGCGAC
back to top

Coding sequence (CDS) from alignment at H-elongata_contig64542:709..1014+

>mRNA_H-elongata_contig64542.14041.1 ID=mRNA_H-elongata_contig64542.14041.1|Name=mRNA_H-elongata_contig64542.14041.1|organism=Himanthalia elongata Himel1 dioecious|type=CDS|length=612bp|location=Sequence derived from alignment at H-elongata_contig64542:709..1014+ (Himanthalia elongata Himel1 dioecious)
TCTGGTGCGAAGGTCACTATAAGCGATAGCTGCGATGGAGTGCAGCACGA
CTTGGACGATAGGACGGTGACGGCGTCAGGCACCTTCAACGCCGTCCAGC
TCGCCTTCACCCACATCCTTAGCCACGCGGGCACCCAGGGACCCGATGCC
GGCCCGGTGATGGGCTTCACCGGAGTGGACTGCGCCGCCAACTGCTTCCG
TATCCTCATCCCTAACGTCAAGGCCGGGGGACTGATCGGCCGCGGCGGCT
TAACCATTAAGACCATCCGCGAGCGGAGCGGTGCGCGGATCGAGATATCC
AGCGACTCTGGTGCGAAGGTCACTATAAGCGATAGCTGCGATGGAGTGCA
GCACGACTTGGACGATAGGACGGTGACGGCGTCAGGCACCTTCAACGCCG
TCCAGCTCGCCTTCACCCACATCCTTAGCCACGCGGGCACCCAGGGACCC
GATGCCGGCCCGGTGATGGGCTTCACCGGAGTGGACTGCGCCGCCAACTG
CTTCCGTATCCTCATCCCTAACGTCAAGGCCGGGGGACTGATCGGCCGCG
GCGGCTTAACCATTAAGACCATCCGCGAGCGGAGCGGTGCGCGGATCGAG
ATATCCAGCGAC
back to top