mRNA_H-elongata_contig145490.3110.1 (mRNA) Himanthalia elongata Himel1 dioecious

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

Overview
NamemRNA_H-elongata_contig145490.3110.1
Unique NamemRNA_H-elongata_contig145490.3110.1
TypemRNA
OrganismHimanthalia elongata Himel1 dioecious (Himanthalia elongata Himel1 dioecious)
Homology
[Close]
BLAST of mRNA_H-elongata_contig145490.3110.1 vs. uniprot
Match: D8LEF3_ECTSI (Putative hUPF2 n=2 Tax=Ectocarpus TaxID=2879 RepID=D8LEF3_ECTSI)

HSP 1 Score: 98.2 bits (243), Expect = 2.330e-22
Identity = 49/59 (83.05%), Postives = 52/59 (88.14%), Query Frame = 1 
Query:    4 DPEAKIESEVLRASLRFCRSRYPSIHLAADVLSGLARYQDRVAVKAVDMVLEELRRGIE 180
            DPEA +ESEVLRASLR CRSRYP IHLAADVLSGLAR+QDRVAVKAVD VLE + R IE
Sbjct: 1106 DPEADVESEVLRASLRLCRSRYPCIHLAADVLSGLARHQDRVAVKAVDAVLEAMHRAIE 1164
[Close]
BLAST of mRNA_H-elongata_contig145490.3110.1 vs. uniprot
Match: K8YVG1_NANGC (Regulator of nonsense transcripts 2 (Fragment) n=1 Tax=Nannochloropsis gaditana (strain CCMP526) TaxID=1093141 RepID=K8YVG1_NANGC)

HSP 1 Score: 54.3 bits (129), Expect = 6.350e-7
Identity = 24/58 (41.38%), Postives = 41/58 (70.69%), Query Frame = 1 
Query:   13 AKIESEVLRASLRFCRSRYPSIHLAADVLSGLARYQDRVAVKAVDMVLEELRRGIEAS 186
            +++E   LR+ L+  R ++ ++H  ADV++GL +Y + +AV  VD VLEEL+RG+E +
Sbjct:  236 SELEVFFLRSVLQAARGKFHALHALADVVAGLGKYHENMAVSMVDEVLEELKRGLETA 293
[Close]
BLAST of mRNA_H-elongata_contig145490.3110.1 vs. uniprot
Match: W7TWK6_9STRA (Regulator of nonsense transcripts 2 n=2 Tax=Nannochloropsis gaditana TaxID=72520 RepID=W7TWK6_9STRA)

HSP 1 Score: 54.3 bits (129), Expect = 6.480e-7
Identity = 24/58 (41.38%), Postives = 41/58 (70.69%), Query Frame = 1 
Query:   13 AKIESEVLRASLRFCRSRYPSIHLAADVLSGLARYQDRVAVKAVDMVLEELRRGIEAS 186
            +++E   LR+ L+  R ++ ++H  ADV++GL +Y + +AV  VD VLEEL+RG+E +
Sbjct:  232 SELEVFFLRSVLQAARGKFHALHALADVVAGLGKYHENMAVSMVDEVLEELKRGLETA 289
[Close]
BLAST of mRNA_H-elongata_contig145490.3110.1 vs. uniprot
Match: A0A4D9D616_9STRA (Uncharacterized protein n=1 Tax=Nannochloropsis salina CCMP1776 TaxID=1027361 RepID=A0A4D9D616_9STRA)

HSP 1 Score: 54.3 bits (129), Expect = 6.550e-7
Identity = 24/58 (41.38%), Postives = 41/58 (70.69%), Query Frame = 1 
Query:   13 AKIESEVLRASLRFCRSRYPSIHLAADVLSGLARYQDRVAVKAVDMVLEELRRGIEAS 186
            +++E   LR+ L+  R ++ ++H  ADV++GL +Y + +AV  VD VLEEL+RG+E +
Sbjct:  762 SELEVFFLRSVLQAARGKFHALHALADVVAGLGKYHENMAVSMVDEVLEELKRGLETA 819
[Close]
BLAST of mRNA_H-elongata_contig145490.3110.1 vs. uniprot
Match: A0A2B4S2I7_STYPI (Regulator of nonsense transcripts 2 n=1 Tax=Stylophora pistillata TaxID=50429 RepID=A0A2B4S2I7_STYPI)

HSP 1 Score: 49.7 bits (117), Expect = 2.790e-5
Identity = 23/59 (38.98%), Postives = 39/59 (66.10%), Query Frame = 1 
Query:   10 EAKIESEVLRASLRFCRSRYPSIHLAADVLSGLARYQDRVAVKAVDMVLEELRRGIEAS 186
            E ++   V++  +R    +Y S+H AA++L+GLA+Y + V +  VD VLEE+R G+E +
Sbjct:  338 EPQVALYVIKCLIRVWNIKYNSVHCAANLLAGLAQYNEDVGLYVVDGVLEEIRLGMETN 396
The following BLAST results are available for this feature:
BLAST of mRNA_H-elongata_contig145490.3110.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 5
Match NameE-valueIdentityDescription
D8LEF3_ECTSI2.330e-2283.05Putative hUPF2 n=2 Tax=Ectocarpus TaxID=2879 RepID... [more]
K8YVG1_NANGC6.350e-741.38Regulator of nonsense transcripts 2 (Fragment) n=1... [more]
W7TWK6_9STRA6.480e-741.38Regulator of nonsense transcripts 2 n=2 Tax=Nannoc... [more]
A0A4D9D616_9STRA6.550e-741.38Uncharacterized protein n=1 Tax=Nannochloropsis sa... [more]
A0A2B4S2I7_STYPI2.790e-538.98Regulator of nonsense transcripts 2 n=1 Tax=Stylop... [more]
back to top
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
H-elongata_contig145490contigH-elongata_contig145490:409..606 +
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 score99.0
Seed ortholog evalue8.9e-19
Seed eggNOG ortholog2880.D8LEF3
Preferred nameUPF2
KEGG koko:K14327
KEGG Pathwayko03013,ko03015,map03013,map03015
KEGG ModuleM00430
GOsGO:0000184,GO:0000288,GO:0000291,GO:0000956,GO:0001101,GO:0003674,GO:0003676,GO:0003677,GO:0003723,GO:0003729,GO:0005488,GO:0005515,GO:0005575,GO:0005622,GO:0005623,GO:0005634,GO:0005730,GO:0005737,GO:0005829,GO:0005844,GO:0006139,GO:0006259,GO:0006310,GO:0006401,GO:0006402,GO:0006403,GO:0006405,GO:0006406,GO:0006611,GO:0006725,GO:0006807,GO:0006810,GO:0006886,GO:0006913,GO:0006950,GO:0006952,GO:0007154,GO:0007165,GO:0007267,GO:0007268,GO:0007274,GO:0008104,GO:0008150,GO:0008152,GO:0009056,GO:0009057,GO:0009314,GO:0009416,GO:0009605,GO:0009607,GO:0009611,GO:0009617,GO:0009628,GO:0009648,GO:0009719,GO:0009725,GO:0009751,GO:0009753,GO:0009755,GO:0009863,GO:0009867,GO:0009892,GO:0009987,GO:0010033,GO:0010467,GO:0010468,GO:0010605,GO:0010629,GO:0014070,GO:0015031,GO:0015833,GO:0015931,GO:0016043,GO:0016070,GO:0016071,GO:0019222,GO:0019439,GO:0019899,GO:0023052,GO:0031503,GO:0031974,GO:0031981,GO:0032870,GO:0032991,GO:0033036,GO:0034427,GO:0034613,GO:0034641,GO:0034655,GO:0035145,GO:0035690,GO:0035770,GO:0036464,GO:0042162,GO:0042221,GO:0042493,GO:0042742,GO:0042886,GO:0043170,GO:0043207,GO:0043226,GO:0043227,GO:0043228,GO:0043229,GO:0043231,GO:0043232,GO:0043233,GO:0043565,GO:0043928,GO:0044237,GO:0044238,GO:0044248,GO:0044260,GO:0044265,GO:0044270,GO:0044422,GO:0044424,GO:0044428,GO:0044444,GO:0044446,GO:0044464,GO:0045184,GO:0046483,GO:0046677,GO:0046700,GO:0046907,GO:0048519,GO:0048571,GO:0050657,GO:0050658,GO:0050789,GO:0050794,GO:0050808,GO:0050896,GO:0051028,GO:0051168,GO:0051169,GO:0051179,GO:0051234,GO:0051236,GO:0051641,GO:0051649,GO:0051704,GO:0051707,GO:0051716,GO:0060255,GO:0065007,GO:0070013,GO:0070478,GO:0070727,GO:0070887,GO:0071166,GO:0071229,GO:0071236,GO:0071310,GO:0071395,GO:0071407,GO:0071426,GO:0071427,GO:0071446,GO:0071495,GO:0071702,GO:0071704,GO:0071705,GO:0071840,GO:0090304,GO:0097159,GO:0098542,GO:0098916,GO:0099536,GO:0099537,GO:1901360,GO:1901361,GO:1901363,GO:1901575,GO:1901700,GO:1901701,GO:1990904
EggNOG free text desc.nuclear-transcribed mRNA catabolic process, nonsense-mediated decay
EggNOG OGsKOG2051@1,KOG2051@2759
COG Functional cat.S
Best tax levelEukaryota
Best eggNOG OGNA|NA|NA
BRITEko00000,ko00001,ko00002,ko03019
Hectar predicted targeting categoryother localisation
Exons1
Model size198
Cds size198
Stop0
Start0
Relationships

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

Feature NameUnique NameSpeciesTypePosition
1622929865.4416149-CDS-H-elongata_contig145490:408..6061622929865.4416149-CDS-H-elongata_contig145490:408..606Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig145490 409..606 +
1691679187.3735242-CDS-H-elongata_contig145490:408..6061691679187.3735242-CDS-H-elongata_contig145490:408..606Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig145490 409..606 +


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

Feature NameUnique NameSpeciesTypePosition
mRNA_H-elongata_contig145490.3110.1prot_H-elongata_contig145490.3110.1Himanthalia elongata Himel1 dioeciouspolypeptideH-elongata_contig145490 409..606 +


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_H-elongata_contig145490.3110.1

>prot_H-elongata_contig145490.3110.1 ID=prot_H-elongata_contig145490.3110.1|Name=mRNA_H-elongata_contig145490.3110.1|organism=Himanthalia elongata Himel1 dioecious|type=polypeptide|length=66bp
KDPEAKIESEVLRASLRFCRSRYPSIHLAADVLSGLARYQDRVAVKAVDM
VLEELRRGIEASDEGL
back to top

mRNA from alignment at H-elongata_contig145490:409..606+

Legend: CDSpolypeptide
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_H-elongata_contig145490.3110.1 ID=mRNA_H-elongata_contig145490.3110.1|Name=mRNA_H-elongata_contig145490.3110.1|organism=Himanthalia elongata Himel1 dioecious|type=mRNA|length=198bp|location=Sequence derived from alignment at H-elongata_contig145490:409..606+ (Himanthalia elongata Himel1 dioecious)
AAGGATCCCGAGGCGAAAATTGAGTCCGAAGTCCTGCGAGCGTCGCTGCG
GTTCTGTCGCTCGCGCTACCCGTCCATCCACCTAGCCGCGGATGTGCTCT
CCGGGCTGGCGAGGTATCAAGACAGAGTTGCGGTGAAGGCGGTGGACATG
GTGCTGGAGGAGTTACGCAGGGGCATCGAGGCGAGTGATGAGGGATTG
back to top

Coding sequence (CDS) from alignment at H-elongata_contig145490:409..606+

>mRNA_H-elongata_contig145490.3110.1 ID=mRNA_H-elongata_contig145490.3110.1|Name=mRNA_H-elongata_contig145490.3110.1|organism=Himanthalia elongata Himel1 dioecious|type=CDS|length=396bp|location=Sequence derived from alignment at H-elongata_contig145490:409..606+ (Himanthalia elongata Himel1 dioecious)
AAGGATCCCGAGGCGAAAATTGAGTCCGAAGTCCTGCGAGCGTCGCTGCG
GTTCTGTCGCTCGCGCTACCCGTCCATCCACCTAGCCGCGGATGTGCTCT
CCGGGCTGGCGAGGTATCAAGACAGAGTTGCGGTGAAGGCGGTGGACATG
GTGCTGGAGGAGTTACGCAGGGGCATCGAGGCGAGTGATGAGGGATTGAA
GGATCCCGAGGCGAAAATTGAGTCCGAAGTCCTGCGAGCGTCGCTGCGGT
TCTGTCGCTCGCGCTACCCGTCCATCCACCTAGCCGCGGATGTGCTCTCC
GGGCTGGCGAGGTATCAAGACAGAGTTGCGGTGAAGGCGGTGGACATGGT
GCTGGAGGAGTTACGCAGGGGCATCGAGGCGAGTGATGAGGGATTG
back to top