mRNA_H-elongata_contig199970.5627.1 (mRNA) Himanthalia elongata Himel1 dioecious

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

Overview
NamemRNA_H-elongata_contig199970.5627.1
Unique NamemRNA_H-elongata_contig199970.5627.1
TypemRNA
OrganismHimanthalia elongata Himel1 dioecious (Himanthalia elongata Himel1 dioecious)
Homology
[Close]
BLAST of mRNA_H-elongata_contig199970.5627.1 vs. uniprot
Match: D7FPC2_ECTSI (Tudor domain-containing protein n=1 Tax=Ectocarpus siliculosus TaxID=2880 RepID=D7FPC2_ECTSI)

HSP 1 Score: 103 bits (258), Expect = 2.230e-24
Identity = 47/53 (88.68%), Postives = 52/53 (98.11%), Query Frame = 1 
Query:   22 QQQVVDEIYSRCDHVAPWAPGTSRVPSTAFCLLMKLFVMKLTRPQMNEILVHE 180
            +++VVDEIYS CDHVAPWAPGTSRVPS+AFCLLMKLFV+KLTRPQMNEILVHE
Sbjct:  118 REKVVDEIYSYCDHVAPWAPGTSRVPSSAFCLLMKLFVIKLTRPQMNEILVHE 170
[Close]
BLAST of mRNA_H-elongata_contig199970.5627.1 vs. uniprot
Match: A0A6H5KEK1_9PHAE (Tudor domain-containing protein n=1 Tax=Ectocarpus sp. CCAP 1310/34 TaxID=867726 RepID=A0A6H5KEK1_9PHAE)

HSP 1 Score: 101 bits (251), Expect = 1.950e-23
Identity = 46/51 (90.20%), Postives = 49/51 (96.08%), Query Frame = 1 
Query:   28 QVVDEIYSRCDHVAPWAPGTSRVPSTAFCLLMKLFVMKLTRPQMNEILVHE 180
            +VVDEIY  CDHVAPWAPGTSRVPS+AFCLLMKLFV+KLTRPQMNEILVHE
Sbjct:   88 EVVDEIYRYCDHVAPWAPGTSRVPSSAFCLLMKLFVIKLTRPQMNEILVHE 138
[Close]
BLAST of mRNA_H-elongata_contig199970.5627.1 vs. uniprot
Match: A0A3R7B771_9STRA (Pre-mRNA-splicing factor 38 n=1 Tax=Aphanomyces astaci TaxID=112090 RepID=A0A3R7B771_9STRA)

HSP 1 Score: 71.6 bits (174), Expect = 4.430e-14
Identity = 33/53 (62.26%), Postives = 37/53 (69.81%), Query Frame = 1 
Query:   28 QVVDEIYSRCDHVAPWAPGTSRVPSTAFCLLMKLFVMKLTRPQMNEILVHEVG 186
            +VVDEIY R DH  PWA GTSR+PST FCLLMK   M+LT  QM  +L H V 
Sbjct:   66 EVVDEIYYRVDHAEPWAAGTSRIPSTCFCLLMKFCTMRLTVNQMQGLLKHVVS 118
[Close]
BLAST of mRNA_H-elongata_contig199970.5627.1 vs. uniprot
Match: UPI0009AA8545 (pre-mRNA splicing factor SR-like 1 n=1 Tax=Zea mays TaxID=4577 RepID=UPI0009AA8545)

HSP 1 Score: 69.3 bits (168), Expect = 1.790e-13
Identity = 31/51 (60.78%), Postives = 38/51 (74.51%), Query Frame = 1 
Query:   28 QVVDEIYSRCDHVAPWAPGTSRVPSTAFCLLMKLFVMKLTRPQMNEILVHE 180
            +VVDEIY++ DHV PW  G  R PS+AFCLL KLF MKLT  QM+ +L H+
Sbjct:   63 EVVDEIYNQVDHVEPWMTGNCRGPSSAFCLLYKLFTMKLTVKQMHNLLKHQ 113
[Close]
BLAST of mRNA_H-elongata_contig199970.5627.1 vs. uniprot
Match: W7TLT3_9STRA (Pre-mRNA-splicing factor 38 n=1 Tax=Nannochloropsis gaditana TaxID=72520 RepID=W7TLT3_9STRA)

HSP 1 Score: 72.0 bits (175), Expect = 1.930e-13
Identity = 29/50 (58.00%), Postives = 39/50 (78.00%), Query Frame = 1 
Query:   28 QVVDEIYSRCDHVAPWAPGTSRVPSTAFCLLMKLFVMKLTRPQMNEILVH 177
            +V+DE+Y++  HV PWA GTSR+PSTAFCLL K F M+LT+ Q+  +L H
Sbjct:   69 EVIDEVYNKVTHVEPWATGTSRLPSTAFCLLFKFFTMRLTKKQVTGLLTH 118
[Close]
BLAST of mRNA_H-elongata_contig199970.5627.1 vs. uniprot
Match: A0A3L6D7C0_MAIZE (Pre-mRNA-splicing factor 38 n=1 Tax=Zea mays TaxID=4577 RepID=A0A3L6D7C0_MAIZE)

HSP 1 Score: 68.2 bits (165), Expect = 1.980e-13
Identity = 30/51 (58.82%), Postives = 38/51 (74.51%), Query Frame = 1 
Query:   28 QVVDEIYSRCDHVAPWAPGTSRVPSTAFCLLMKLFVMKLTRPQMNEILVHE 180
            + VDEIY++ DHV PW  G  R PS+AFCLL KLF MKLT  QM+++L H+
Sbjct:   26 EAVDEIYNQVDHVEPWMTGNCRGPSSAFCLLYKLFTMKLTVKQMHDMLKHQ 76
[Close]
BLAST of mRNA_H-elongata_contig199970.5627.1 vs. uniprot
Match: UPI001D1A5254 (pre-mRNA splicing factor SR-like 1 isoform X2 n=5 Tax=Pooideae TaxID=147368 RepID=UPI001D1A5254)

HSP 1 Score: 68.6 bits (166), Expect = 2.350e-13
Identity = 31/50 (62.00%), Postives = 37/50 (74.00%), Query Frame = 1 
Query:   28 QVVDEIYSRCDHVAPWAPGTSRVPSTAFCLLMKLFVMKLTRPQMNEILVH 177
            +V+DEIY++ DHV PW  G  R PSTAFCLL KLF MKLT  QM+ +L H
Sbjct:   39 EVIDEIYNQVDHVEPWMTGNCRGPSTAFCLLYKLFTMKLTVNQMHGLLKH 88
[Close]
BLAST of mRNA_H-elongata_contig199970.5627.1 vs. uniprot
Match: A1YKG0_BRASY (Pre-mRNA-splicing factor 38 n=1 Tax=Brachypodium sylvaticum TaxID=29664 RepID=A1YKG0_BRASY)

HSP 1 Score: 69.3 bits (168), Expect = 3.290e-13
Identity = 31/50 (62.00%), Postives = 37/50 (74.00%), Query Frame = 1 
Query:   28 QVVDEIYSRCDHVAPWAPGTSRVPSTAFCLLMKLFVMKLTRPQMNEILVH 177
            +V+DEIY++ DHV PW  G  R PSTAFCLL KLF MKLT  QM+ +L H
Sbjct:   39 EVIDEIYNQVDHVEPWMTGNCRGPSTAFCLLYKLFTMKLTMNQMHGLLKH 88
[Close]
BLAST of mRNA_H-elongata_contig199970.5627.1 vs. uniprot
Match: A0A4D9DAU1_9STRA (Pre-mRNA-splicing factor 38 n=1 Tax=Nannochloropsis salina CCMP1776 TaxID=1027361 RepID=A0A4D9DAU1_9STRA)

HSP 1 Score: 72.0 bits (175), Expect = 3.760e-13
Identity = 29/50 (58.00%), Postives = 39/50 (78.00%), Query Frame = 1 
Query:   28 QVVDEIYSRCDHVAPWAPGTSRVPSTAFCLLMKLFVMKLTRPQMNEILVH 177
            +V+DE+Y++  HV PWA GTSR+PSTAFCLL K F M+LT+ Q+  +L H
Sbjct:   69 EVIDEVYNKVTHVEPWATGTSRLPSTAFCLLFKFFTMRLTKKQVTGLLTH 118
[Close]
BLAST of mRNA_H-elongata_contig199970.5627.1 vs. uniprot
Match: F2EBP1_HORVV (Pre-mRNA-splicing factor 38 n=3 Tax=Triticeae TaxID=147389 RepID=F2EBP1_HORVV)

HSP 1 Score: 68.6 bits (166), Expect = 6.160e-13
Identity = 31/50 (62.00%), Postives = 37/50 (74.00%), Query Frame = 1 
Query:   28 QVVDEIYSRCDHVAPWAPGTSRVPSTAFCLLMKLFVMKLTRPQMNEILVH 177
            +V+DEIY++ DHV PW  G  R PSTAFCLL KLF MKLT  QM+ +L H
Sbjct:   39 EVIDEIYNQVDHVEPWMTGNCRGPSTAFCLLYKLFTMKLTVNQMHGLLKH 88
The following BLAST results are available for this feature:
BLAST of mRNA_H-elongata_contig199970.5627.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 25
Match NameE-valueIdentityDescription
D7FPC2_ECTSI2.230e-2488.68Tudor domain-containing protein n=1 Tax=Ectocarpus... [more]
A0A6H5KEK1_9PHAE1.950e-2390.20Tudor domain-containing protein n=1 Tax=Ectocarpus... [more]
A0A3R7B771_9STRA4.430e-1462.26Pre-mRNA-splicing factor 38 n=1 Tax=Aphanomyces as... [more]
UPI0009AA85451.790e-1360.78pre-mRNA splicing factor SR-like 1 n=1 Tax=Zea may... [more]
W7TLT3_9STRA1.930e-1358.00Pre-mRNA-splicing factor 38 n=1 Tax=Nannochloropsi... [more]
A0A3L6D7C0_MAIZE1.980e-1358.82Pre-mRNA-splicing factor 38 n=1 Tax=Zea mays TaxID... [more]
UPI001D1A52542.350e-1362.00pre-mRNA splicing factor SR-like 1 isoform X2 n=5 ... [more]
A1YKG0_BRASY3.290e-1362.00Pre-mRNA-splicing factor 38 n=1 Tax=Brachypodium s... [more]
A0A4D9DAU1_9STRA3.760e-1358.00Pre-mRNA-splicing factor 38 n=1 Tax=Nannochloropsi... [more]
F2EBP1_HORVV6.160e-1362.00Pre-mRNA-splicing factor 38 n=3 Tax=Triticeae TaxI... [more]

Pages

back to top
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
H-elongata_contig199970contigH-elongata_contig199970:286..486 +
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 score102.4
Seed ortholog evalue8.1e-20
Seed eggNOG ortholog2880.D7FPC2
Preferred namePRPF38B
KEGG koko:K12850
KEGG Pathwayko03040,map03040
GOsGO:0000375,GO:0000377,GO:0000398,GO:0005575,GO:0005622,GO:0005623,GO:0005634,GO:0005681,GO:0006139,GO:0006396,GO:0006397,GO:0006725,GO:0006807,GO:0006950,GO:0006970,GO:0008150,GO:0008152,GO:0008380,GO:0009628,GO:0009651,GO:0009987,GO:0010035,GO:0010038,GO:0010226,GO:0010467,GO:0016070,GO:0016071,GO:0032991,GO:0034641,GO:0042221,GO:0043170,GO:0043226,GO:0043227,GO:0043229,GO:0043231,GO:0044237,GO:0044238,GO:0044422,GO:0044424,GO:0044428,GO:0044446,GO:0044464,GO:0046483,GO:0050896,GO:0071011,GO:0071704,GO:0090304,GO:1901360,GO:1990904
EggNOG free text desc.RNA splicing
EggNOG OGsKOG2888@1,KOG2888@2759
Ec32 ortholog descriptionPre-mRNA-splicing factor 38
Ec32 orthologEc-15_003940.1
COG Functional cat.O
Best tax levelEukaryota
Best eggNOG OGNA|NA|NA
BRITEko00000,ko00001,ko03041
Hectar predicted targeting categoryother localisation
Exons1
Model size201
Cds size201
Stop1
Start1
Relationships

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

Feature NameUnique NameSpeciesTypePosition
1622930126.7352798-CDS-H-elongata_contig199970:285..4861622930126.7352798-CDS-H-elongata_contig199970:285..486Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig199970 286..486 +
1691679291.2350774-CDS-H-elongata_contig199970:285..4861691679291.2350774-CDS-H-elongata_contig199970:285..486Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig199970 286..486 +


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

Feature NameUnique NameSpeciesTypePosition
mRNA_H-elongata_contig199970.5627.1prot_H-elongata_contig199970.5627.1Himanthalia elongata Himel1 dioeciouspolypeptideH-elongata_contig199970 286..486 +


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_H-elongata_contig199970.5627.1

>prot_H-elongata_contig199970.5627.1 ID=prot_H-elongata_contig199970.5627.1|Name=mRNA_H-elongata_contig199970.5627.1|organism=Himanthalia elongata Himel1 dioecious|type=polypeptide|length=67bp
MPWVNEKQQQVVDEIYSRCDHVAPWAPGTSRVPSTAFCLLMKLFVMKLTR
PQMNEILVHEVGLRIE*
back to top

mRNA from alignment at H-elongata_contig199970:286..486+

Legend: CDSpolypeptide
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_H-elongata_contig199970.5627.1 ID=mRNA_H-elongata_contig199970.5627.1|Name=mRNA_H-elongata_contig199970.5627.1|organism=Himanthalia elongata Himel1 dioecious|type=mRNA|length=201bp|location=Sequence derived from alignment at H-elongata_contig199970:286..486+ (Himanthalia elongata Himel1 dioecious)
ATGCCCTGGGTGAACGAAAAACAACAACAGGTGGTGGACGAAATATACTC
CCGCTGCGATCACGTGGCGCCGTGGGCCCCCGGCACGAGCCGCGTTCCCT
CGACGGCGTTTTGTCTCCTCATGAAGCTGTTCGTCATGAAGCTCACCAGG
CCCCAGATGAATGAGATCCTGGTGCACGAGGTGGGTTTGCGAATAGAGTA
A
back to top

Coding sequence (CDS) from alignment at H-elongata_contig199970:286..486+

>mRNA_H-elongata_contig199970.5627.1 ID=mRNA_H-elongata_contig199970.5627.1|Name=mRNA_H-elongata_contig199970.5627.1|organism=Himanthalia elongata Himel1 dioecious|type=CDS|length=402bp|location=Sequence derived from alignment at H-elongata_contig199970:286..486+ (Himanthalia elongata Himel1 dioecious)
ATGCCCTGGGTGAACGAAAAACAACAACAGGTGGTGGACGAAATATACTC
CCGCTGCGATCACGTGGCGCCGTGGGCCCCCGGCACGAGCCGCGTTCCCT
CGACGGCGTTTTGTCTCCTCATGAAGCTGTTCGTCATGAAGCTCACCAGG
CCCCAGATGAATGAGATCCTGGTGCACGAGGTGGGTTTGCGAATAGAGTA
AATGCCCTGGGTGAACGAAAAACAACAACAGGTGGTGGACGAAATATACT
CCCGCTGCGATCACGTGGCGCCGTGGGCCCCCGGCACGAGCCGCGTTCCC
TCGACGGCGTTTTGTCTCCTCATGAAGCTGTTCGTCATGAAGCTCACCAG
GCCCCAGATGAATGAGATCCTGGTGCACGAGGTGGGTTTGCGAATAGAGT
AA
back to top