mRNA_H-elongata_contig14354.2998.1 (mRNA) Himanthalia elongata Himel1 dioecious

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

Overview
NamemRNA_H-elongata_contig14354.2998.1
Unique NamemRNA_H-elongata_contig14354.2998.1
TypemRNA
OrganismHimanthalia elongata Himel1 dioecious (Himanthalia elongata Himel1 dioecious)
Homology
[Close]
BLAST of mRNA_H-elongata_contig14354.2998.1 vs. uniprot
Match: D7FWG1_ECTSI (Sm protein F n=2 Tax=Ectocarpus TaxID=2879 RepID=D7FWG1_ECTSI)

HSP 1 Score: 69.3 bits (168), Expect = 8.280e-13
Identity = 31/31 (100.00%), Postives = 31/31 (100.00%), Query Frame = 1 
Query:   22 MATPVNPKPFLNELTGKPVMVKLKWGMEYKG 114
            MATPVNPKPFLNELTGKPVMVKLKWGMEYKG
Sbjct:    1 MATPVNPKPFLNELTGKPVMVKLKWGMEYKG 31
[Close]
BLAST of mRNA_H-elongata_contig14354.2998.1 vs. uniprot
Match: A0A2F0BNV4_ESCRO (Sm protein F (Fragment) n=1 Tax=Eschrichtius robustus TaxID=9764 RepID=A0A2F0BNV4_ESCRO)

HSP 1 Score: 64.7 bits (156), Expect = 1.970e-11
Identity = 28/38 (73.68%), Postives = 32/38 (84.21%), Query Frame = 1 
Query:    1 IRDAKAAMATPVNPKPFLNELTGKPVMVKLKWGMEYKG 114
            +RD  +  + P+NPKPFLN LTGKPVMVKLKWGMEYKG
Sbjct:   13 VRDTSSNKSLPLNPKPFLNGLTGKPVMVKLKWGMEYKG 50
[Close]
BLAST of mRNA_H-elongata_contig14354.2998.1 vs. uniprot
Match: A0A6A1QAE3_BALPH (Sm protein F (Fragment) n=1 Tax=Balaenoptera physalus TaxID=9770 RepID=A0A6A1QAE3_BALPH)

HSP 1 Score: 64.3 bits (155), Expect = 4.360e-11
Identity = 29/35 (82.86%), Postives = 31/35 (88.57%), Query Frame = 1 
Query:   10 AKAAMATPVNPKPFLNELTGKPVMVKLKWGMEYKG 114
            A  AM+ P+NPKPFLN LTGKPVMVKLKWGMEYKG
Sbjct:   33 AVVAMSLPLNPKPFLNGLTGKPVMVKLKWGMEYKG 67
[Close]
BLAST of mRNA_H-elongata_contig14354.2998.1 vs. uniprot
Match: M3Y714_MUSPF (Sm protein F n=2 Tax=Mustela putorius furo TaxID=9669 RepID=M3Y714_MUSPF)

HSP 1 Score: 65.1 bits (157), Expect = 4.820e-11
Identity = 29/33 (87.88%), Postives = 31/33 (93.94%), Query Frame = 1 
Query:   16 AAMATPVNPKPFLNELTGKPVMVKLKWGMEYKG 114
            AAM+ P+NPKPFLN LTGKPVMVKLKWGMEYKG
Sbjct:   25 AAMSLPLNPKPFLNGLTGKPVMVKLKWGMEYKG 57
[Close]
BLAST of mRNA_H-elongata_contig14354.2998.1 vs. uniprot
Match: A0A177WM22_BATDL (Sm protein F n=2 Tax=Batrachochytrium dendrobatidis TaxID=109871 RepID=A0A177WM22_BATDL)

HSP 1 Score: 63.5 bits (153), Expect = 6.450e-11
Identity = 27/28 (96.43%), Postives = 28/28 (100.00%), Query Frame = 1 
Query:   31 PVNPKPFLNELTGKPVMVKLKWGMEYKG 114
            PVNPKPFLNELTGKP+MVKLKWGMEYKG
Sbjct:    5 PVNPKPFLNELTGKPIMVKLKWGMEYKG 32
[Close]
BLAST of mRNA_H-elongata_contig14354.2998.1 vs. uniprot
Match: A0A0D2J3N2_9CHLO (Sm protein F n=2 Tax=Selenastraceae TaxID=35466 RepID=A0A0D2J3N2_9CHLO)

HSP 1 Score: 63.9 bits (154), Expect = 6.640e-11
Identity = 27/32 (84.38%), Postives = 30/32 (93.75%), Query Frame = 1 
Query:   19 AMATPVNPKPFLNELTGKPVMVKLKWGMEYKG 114
            A A PVNPKPF+NELTGKP++VKLKWGMEYKG
Sbjct:    2 AAAAPVNPKPFMNELTGKPIVVKLKWGMEYKG 33
[Close]
BLAST of mRNA_H-elongata_contig14354.2998.1 vs. uniprot
Match: Q6NZQ3_MOUSE (Sm protein F (Fragment) n=2 Tax=Mus TaxID=862507 RepID=Q6NZQ3_MOUSE)

HSP 1 Score: 64.3 bits (155), Expect = 9.590e-11
Identity = 29/37 (78.38%), Postives = 31/37 (83.78%), Query Frame = 1 
Query:    4 RDAKAAMATPVNPKPFLNELTGKPVMVKLKWGMEYKG 114
            R    AM+ P+NPKPFLN LTGKPVMVKLKWGMEYKG
Sbjct:   21 RSPVVAMSLPLNPKPFLNGLTGKPVMVKLKWGMEYKG 57
[Close]
BLAST of mRNA_H-elongata_contig14354.2998.1 vs. uniprot
Match: W5PQH9_SHEEP (Sm protein F n=2 Tax=Ovis aries TaxID=9940 RepID=W5PQH9_SHEEP)

HSP 1 Score: 64.3 bits (155), Expect = 1.030e-10
Identity = 29/35 (82.86%), Postives = 31/35 (88.57%), Query Frame = 1 
Query:   10 AKAAMATPVNPKPFLNELTGKPVMVKLKWGMEYKG 114
            A  AM+ P+NPKPFLN LTGKPVMVKLKWGMEYKG
Sbjct:   26 AVVAMSLPLNPKPFLNGLTGKPVMVKLKWGMEYKG 60
[Close]
BLAST of mRNA_H-elongata_contig14354.2998.1 vs. uniprot
Match: A0A674GGE5_TAEGU (Sm protein F n=2 Tax=Estrildinae TaxID=40155 RepID=A0A674GGE5_TAEGU)

HSP 1 Score: 64.7 bits (156), Expect = 1.080e-10
Identity = 29/35 (82.86%), Postives = 31/35 (88.57%), Query Frame = 1 
Query:   10 AKAAMATPVNPKPFLNELTGKPVMVKLKWGMEYKG 114
            A  AM+ P+NPKPFLN LTGKPVMVKLKWGMEYKG
Sbjct:   43 ASPAMSLPLNPKPFLNGLTGKPVMVKLKWGMEYKG 77
[Close]
BLAST of mRNA_H-elongata_contig14354.2998.1 vs. uniprot
Match: A0A8B9C1D5_9AVES (Sm protein F n=1 Tax=Anser brachyrhynchus TaxID=132585 RepID=A0A8B9C1D5_9AVES)

HSP 1 Score: 65.9 bits (159), Expect = 1.130e-10
Identity = 30/37 (81.08%), Postives = 32/37 (86.49%), Query Frame = 1 
Query:    4 RDAKAAMATPVNPKPFLNELTGKPVMVKLKWGMEYKG 114
            R A  AM+ P+NPKPFLN LTGKPVMVKLKWGMEYKG
Sbjct:   95 RRAPVAMSLPLNPKPFLNGLTGKPVMVKLKWGMEYKG 131
The following BLAST results are available for this feature:
BLAST of mRNA_H-elongata_contig14354.2998.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 25
Match NameE-valueIdentityDescription
D7FWG1_ECTSI8.280e-13100.00Sm protein F n=2 Tax=Ectocarpus TaxID=2879 RepID=D... [more]
A0A2F0BNV4_ESCRO1.970e-1173.68Sm protein F (Fragment) n=1 Tax=Eschrichtius robus... [more]
A0A6A1QAE3_BALPH4.360e-1182.86Sm protein F (Fragment) n=1 Tax=Balaenoptera physa... [more]
M3Y714_MUSPF4.820e-1187.88Sm protein F n=2 Tax=Mustela putorius furo TaxID=9... [more]
A0A177WM22_BATDL6.450e-1196.43Sm protein F n=2 Tax=Batrachochytrium dendrobatidi... [more]
A0A0D2J3N2_9CHLO6.640e-1184.38Sm protein F n=2 Tax=Selenastraceae TaxID=35466 Re... [more]
Q6NZQ3_MOUSE9.590e-1178.38Sm protein F (Fragment) n=2 Tax=Mus TaxID=862507 R... [more]
W5PQH9_SHEEP1.030e-1082.86Sm protein F n=2 Tax=Ovis aries TaxID=9940 RepID=W... [more]
A0A674GGE5_TAEGU1.080e-1082.86Sm protein F n=2 Tax=Estrildinae TaxID=40155 RepID... [more]
A0A8B9C1D5_9AVES1.130e-1081.08Sm protein F n=1 Tax=Anser brachyrhynchus TaxID=13... [more]

Pages

back to top
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
H-elongata_contig14354contigH-elongata_contig14354:6263..6661 +
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 score69.7
Seed ortholog evalue5.2e-10
Seed eggNOG ortholog2880.D7FWG1
Preferred nameSNRPF
KEGG koko:K11098
KEGG Pathwayko03040,map03040
KEGG ModuleM00351,M00352,M00354,M00355,M00398
GOsGO:0000245,GO:0000375,GO:0000377,GO:0000387,GO:0000395,GO:0000398,GO:0003674,GO:0003676,GO:0003723,GO:0003727,GO:0005488,GO:0005515,GO:0005575,GO:0005622,GO:0005623,GO:0005634,GO:0005654,GO:0005681,GO:0005682,GO:0005683,GO:0005684,GO:0005685,GO:0005686,GO:0005687,GO:0005689,GO:0005737,GO:0005829,GO:0006139,GO:0006351,GO:0006353,GO:0006366,GO:0006369,GO:0006376,GO:0006396,GO:0006397,GO:0006725,GO:0006807,GO:0006810,GO:0006913,GO:0008150,GO:0008152,GO:0008187,GO:0008266,GO:0008334,GO:0008380,GO:0009058,GO:0009059,GO:0009987,GO:0010467,GO:0016043,GO:0016070,GO:0016071,GO:0018130,GO:0019438,GO:0022607,GO:0022613,GO:0022618,GO:0030532,GO:0031974,GO:0031981,GO:0032774,GO:0032991,GO:0034622,GO:0034641,GO:0034645,GO:0034654,GO:0034708,GO:0034709,GO:0034715,GO:0034719,GO:0043170,GO:0043226,GO:0043227,GO:0043229,GO:0043231,GO:0043233,GO:0043933,GO:0044085,GO:0044237,GO:0044238,GO:0044249,GO:0044260,GO:0044271,GO:0044422,GO:0044424,GO:0044428,GO:0044444,GO:0044446,GO:0044464,GO:0045292,GO:0046483,GO:0046540,GO:0046907,GO:0051169,GO:0051170,GO:0051179,GO:0051234,GO:0051641,GO:0051649,GO:0065003,GO:0070013,GO:0071007,GO:0071013,GO:0071014,GO:0071704,GO:0071826,GO:0071840,GO:0090304,GO:0097159,GO:0097525,GO:0097526,GO:0097659,GO:0120114,GO:1901360,GO:1901362,GO:1901363,GO:1901576,GO:1902494,GO:1990234,GO:1990904,GO:1990935
EggNOG free text desc.spliceosomal snRNP assembly
EggNOG OGsKOG3482@1,KOG3482@2759
COG Functional cat.J
Best tax levelEukaryota
Best eggNOG OGNA|NA|NA
BRITEko00000,ko00001,ko00002,ko03032,ko03041
Hectar predicted targeting categoryno signal peptide or anchor
Exons1
Model size399
Cds size177
Stop1
Start1
Relationships

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

Feature NameUnique NameSpeciesTypePosition
mRNA_H-elongata_contig14354.2998.1prot_H-elongata_contig14354.2998.1Himanthalia elongata Himel1 dioeciouspolypeptideH-elongata_contig14354 6284..6460 +


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

Feature NameUnique NameSpeciesTypePosition
1622929851.357612-UTR-H-elongata_contig14354:6262..62831622929851.357612-UTR-H-elongata_contig14354:6262..6283Himanthalia elongata Himel1 dioeciousUTRH-elongata_contig14354 6263..6283 +
1691679183.176129-UTR-H-elongata_contig14354:6262..62831691679183.176129-UTR-H-elongata_contig14354:6262..6283Himanthalia elongata Himel1 dioeciousUTRH-elongata_contig14354 6263..6283 +
1622929851.3905313-UTR-H-elongata_contig14354:6460..66611622929851.3905313-UTR-H-elongata_contig14354:6460..6661Himanthalia elongata Himel1 dioeciousUTRH-elongata_contig14354 6461..6661 +
1691679183.1927457-UTR-H-elongata_contig14354:6460..66611691679183.1927457-UTR-H-elongata_contig14354:6460..6661Himanthalia elongata Himel1 dioeciousUTRH-elongata_contig14354 6461..6661 +


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

Feature NameUnique NameSpeciesTypePosition
1622929851.3745885-CDS-H-elongata_contig14354:6283..64601622929851.3745885-CDS-H-elongata_contig14354:6283..6460Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig14354 6284..6460 +
1691679183.185657-CDS-H-elongata_contig14354:6283..64601691679183.185657-CDS-H-elongata_contig14354:6283..6460Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig14354 6284..6460 +


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_H-elongata_contig14354.2998.1

>prot_H-elongata_contig14354.2998.1 ID=prot_H-elongata_contig14354.2998.1|Name=mRNA_H-elongata_contig14354.2998.1|organism=Himanthalia elongata Himel1 dioecious|type=polypeptide|length=59bp
MATPVNPKPFLNELTGKPVMVKLKWGMEYKGERAELFYFNPFLDVKKRLP
NCQGKAAD*
back to top

mRNA from alignment at H-elongata_contig14354:6263..6661+

Legend: UTRpolypeptideCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_H-elongata_contig14354.2998.1 ID=mRNA_H-elongata_contig14354.2998.1|Name=mRNA_H-elongata_contig14354.2998.1|organism=Himanthalia elongata Himel1 dioecious|type=mRNA|length=399bp|location=Sequence derived from alignment at H-elongata_contig14354:6263..6661+ (Himanthalia elongata Himel1 dioecious)
ATCAGGGACGCAAAGGCTGCGATGGCGACGCCCGTAAATCCCAAGCCTTT
CTTGAATGAGCTCACCGGGAAGCCAGTCATGGTGAAACTGAAGTGGGGCA
TGGAGTACAAAGGTGAGAGGGCTGAGCTGTTTTATTTTAATCCTTTCCTC
GACGTCAAAAAGCGGCTTCCTAACTGCCAGGGTAAAGCAGCCGACTGACA
GAGCCAGCCAAGCAACCTGTGTATCGTAGATGATAGCTCAAGAGTTGCTT
GACAAGATGTAAAGAGTGCTCAAATAAAATGGCCTAGGCTTGGACAAGCG
AAATATTGACAGAGTCGTTTATCACGAAGGATGACCGGATGGACTAGTAG
CTCTAGCATTGCAGTAGGTAAGGTTGGTAGTAACTAAGTAGTAATAACG
back to top

Coding sequence (CDS) from alignment at H-elongata_contig14354:6263..6661+

>mRNA_H-elongata_contig14354.2998.1 ID=mRNA_H-elongata_contig14354.2998.1|Name=mRNA_H-elongata_contig14354.2998.1|organism=Himanthalia elongata Himel1 dioecious|type=CDS|length=354bp|location=Sequence derived from alignment at H-elongata_contig14354:6263..6661+ (Himanthalia elongata Himel1 dioecious)
ATGGCGACGCCCGTAAATCCCAAGCCTTTCTTGAATGAGCTCACCGGGAA
GCCAGTCATGGTGAAACTGAAGTGGGGCATGGAGTACAAAGGTGAGAGGG
CTGAGCTGTTTTATTTTAATCCTTTCCTCGACGTCAAAAAGCGGCTTCCT
AACTGCCAGGGTAAAGCAGCCGACTGAATGGCGACGCCCGTAAATCCCAA
GCCTTTCTTGAATGAGCTCACCGGGAAGCCAGTCATGGTGAAACTGAAGT
GGGGCATGGAGTACAAAGGTGAGAGGGCTGAGCTGTTTTATTTTAATCCT
TTCCTCGACGTCAAAAAGCGGCTTCCTAACTGCCAGGGTAAAGCAGCCGA
CTGA
back to top