mRNA_C-linearis_contig10.536.1 (mRNA) Chordaria linearis ClinC8C monoicous

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

Overview
NamemRNA_C-linearis_contig10.536.1
Unique NamemRNA_C-linearis_contig10.536.1
TypemRNA
OrganismChordaria linearis ClinC8C monoicous (Chordaria linearis ClinC8C monoicous)
Homology
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BLAST of mRNA_C-linearis_contig10.536.1 vs. uniprot
Match: A0A6H5L4H0_9PHAE (Coilin n=1 Tax=Ectocarpus sp. CCAP 1310/34 TaxID=867726 RepID=A0A6H5L4H0_9PHAE)

HSP 1 Score: 147 bits (371), Expect = 2.830e-36
Identity = 72/106 (67.92%), Postives = 86/106 (81.13%), Query Frame = -1 
Query:  483 RMDSAALPLIVTPPPRRIRVVFSAESGCIPSCNPALCQRWAFIPPNLKVVGDLAHHLARQLKQQ-GKKSRRSSLVLSLDGFVLPPNESLDILRETDVVTLTRGEVD 797
            +MD+ ALP  V   PRRIRVVF A++GC+PS NP L +RW FIPP L V+GDLAHHL RQLK++ G+K+R SSLVL+LDGFVLPP ESLD+LRETDVVTLT  + D
Sbjct:   53 KMDTVALPPAVASSPRRIRVVFKADAGCVPSSNPTLTKRWIFIPPRLTVIGDLAHHLTRQLKRRKGRKARSSSLVLTLDGFVLPPTESLDVLRETDVVTLTLRQSD 158
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BLAST of mRNA_C-linearis_contig10.536.1 vs. uniprot
Match: A0A0P0Y9A7_ORYSJ (Coilin n=1 Tax=Oryza sativa subsp. japonica TaxID=39947 RepID=A0A0P0Y9A7_ORYSJ)

HSP 1 Score: 59.7 bits (143), Expect = 6.170e-8
Identity = 35/91 (38.46%), Postives = 54/91 (59.34%), Query Frame = -1 
Query:  507 IVTPPPR--RIRVVFSAESGCIPSCNPALCQR-WAFIPPNLKVVGDLAHHLARQLKQQGKKSRRSSLVLSLDGFVLPPNESLDILRETDVV 770
            + TPP +  R+R+VF  +     S   +  +R W  +PP L  V DLA H+A + +   ++S  S ++LS+DGFVLPP ES  I R+ D++
Sbjct:    1 MATPPAQAVRLRLVFDNQRILRRSLRESGLRRCWLLLPPELSTVSDLAAHIAARFRL--RRSCPSCVILSIDGFVLPPFESTCIFRDNDII 89
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BLAST of mRNA_C-linearis_contig10.536.1 vs. uniprot
Match: B8BP67_ORYSI (Coilin n=3 Tax=Oryza sativa TaxID=4530 RepID=B8BP67_ORYSI)

HSP 1 Score: 61.2 bits (147), Expect = 6.730e-7
Identity = 36/95 (37.89%), Postives = 56/95 (58.95%), Query Frame = -1 
Query:  501 PLIVTPPPR--RIRVVFSAESGCIPSCNPALCQR-WAFIPPNLKVVGDLAHHLARQLKQQGKKSRRSSLVLSLDGFVLPPNESLDILRETDVVTL 776
            P + TPP +  R+R+VF  +     S   +  +R W  +PP L  V DLA H+A + +   ++S  S ++LS+DGFVLPP ES  I R+ D++ +
Sbjct:  131 PPMATPPAQAVRLRLVFDNQRILRRSLRESGLRRCWLLLPPELSTVSDLAAHIAARFRL--RRSCPSCVILSIDGFVLPPFESTCIFRDNDIIRV 223
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BLAST of mRNA_C-linearis_contig10.536.1 vs. uniprot
Match: A0A0E0RG41_ORYRU (Coilin n=7 Tax=Oryza TaxID=4527 RepID=A0A0E0RG41_ORYRU)

HSP 1 Score: 60.1 bits (144), Expect = 1.540e-6
Identity = 35/93 (37.63%), Postives = 55/93 (59.14%), Query Frame = -1 
Query:  501 IVTPPPR--RIRVVFSAESGCIPSCNPALCQR-WAFIPPNLKVVGDLAHHLARQLKQQGKKSRRSSLVLSLDGFVLPPNESLDILRETDVVTL 770
            + TPP +  R+R+VF  +     S   +  +R W  +PP L  V DLA H+A + +   ++S  S ++LS+DGFVLPP ES  I R+ D++ +
Sbjct:    1 MATPPAQAVRLRLVFDNQRILRRSLRESGLRRCWLLLPPELSTVSDLAAHIAARFRL--RRSCPSCVILSIDGFVLPPFESTCIFRDNDIIRV 91
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BLAST of mRNA_C-linearis_contig10.536.1 vs. uniprot
Match: A0A6G1BQ98_9ORYZ (Coilin n=1 Tax=Oryza meyeriana var. granulata TaxID=110450 RepID=A0A6G1BQ98_9ORYZ)

HSP 1 Score: 55.8 bits (133), Expect = 3.770e-5
Identity = 34/93 (36.56%), Postives = 53/93 (56.99%), Query Frame = -1 
Query:  501 IVTPPPR--RIRVVFSAESGCIPSCNPALCQR-WAFIPPNLKVVGDLAHHLARQLKQQGKKSRRSSLVLSLDGFVLPPNESLDILRETDVVTL 770
            + TPP +  R+R+VF  +     S   +  +R W  +PP L  V DLA H+A + +   + S    ++LS+DGFVLPP ES  I R+ D++ +
Sbjct:    1 MATPPAQVVRLRLVFDNQRLLRRSQRESGLRRCWLLLPPELATVADLAAHIAARFRL--RYSCPGCVILSIDGFVLPPFESTCIFRDNDIIRV 91
[Close]
BLAST of mRNA_C-linearis_contig10.536.1 vs. uniprot
Match: A0A0D9XYN2_9ORYZ (Coilin n=1 Tax=Leersia perrieri TaxID=77586 RepID=A0A0D9XYN2_9ORYZ)

HSP 1 Score: 55.1 bits (131), Expect = 6.710e-5
Identity = 33/92 (35.87%), Postives = 51/92 (55.43%), Query Frame = -1 
Query:  501 LIVTPPPRRIRVVFSAESGCIPSCNPALCQR-WAFIPPNLKVVGDLAHHLARQLKQQGKKSRRSSLVLSLDGFVLPPNESLDILRETDVVTL 773
            +  TP   R+R+VF        S   +  +R W  +P +L  V DLA H+A + + +   SR   ++LS+DGFVLPP ES  I R+ D++ +
Sbjct:    1 MATTPAAVRLRLVFDNRRLLRRSQRESGLRRCWLLLPADLPTVADLAGHIAARFRLRRSCSR--CVILSIDGFVLPPFESTCIFRDNDIIRV 90
The following BLAST results are available for this feature:
BLAST of mRNA_C-linearis_contig10.536.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 6
Match NameE-valueIdentityDescription
A0A6H5L4H0_9PHAE2.830e-3667.92Coilin n=1 Tax=Ectocarpus sp. CCAP 1310/34 TaxID=8... [more]
A0A0P0Y9A7_ORYSJ6.170e-838.46Coilin n=1 Tax=Oryza sativa subsp. japonica TaxID=... [more]
B8BP67_ORYSI6.730e-737.89Coilin n=3 Tax=Oryza sativa TaxID=4530 RepID=B8BP6... [more]
A0A0E0RG41_ORYRU1.540e-637.63Coilin n=7 Tax=Oryza TaxID=4527 RepID=A0A0E0RG41_O... [more]
A0A6G1BQ98_9ORYZ3.770e-536.56Coilin n=1 Tax=Oryza meyeriana var. granulata TaxI... [more]
A0A0D9XYN2_9ORYZ6.710e-535.87Coilin n=1 Tax=Leersia perrieri TaxID=77586 RepID=... [more]
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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
C-linearis_contig10contigC-linearis_contig10:2025843..2026684 +
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 Chordaria linearis ClinC8C monoicous2021-02-24
Properties
Property NameValue
Hectar predicted targeting categorysignal peptide
Exons1
Model size844
Cds size633
Stop1
Start0
Relationships

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

Feature NameUnique NameSpeciesTypePosition
1622927325.9114153-CDS-C-linearis_contig10:2025842..20264751622927325.9114153-CDS-C-linearis_contig10:2025842..2026475Chordaria linearis ClinC8C monoicousCDSC-linearis_contig10 2025843..2026475 +
1690879627.7461665-CDS-C-linearis_contig10:2025842..20264751690879627.7461665-CDS-C-linearis_contig10:2025842..2026475Chordaria linearis ClinC8C monoicousCDSC-linearis_contig10 2025843..2026475 +


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

Feature NameUnique NameSpeciesTypePosition
1622927325.9237726-UTR-C-linearis_contig10:2026475..20266841622927325.9237726-UTR-C-linearis_contig10:2026475..2026684Chordaria linearis ClinC8C monoicousUTRC-linearis_contig10 2026476..2026684 +
1690879627.757637-UTR-C-linearis_contig10:2026475..20266841690879627.757637-UTR-C-linearis_contig10:2026475..2026684Chordaria linearis ClinC8C monoicousUTRC-linearis_contig10 2026476..2026684 +


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

Feature NameUnique NameSpeciesTypePosition
mRNA_C-linearis_contig10.536.1prot_C-linearis_contig10.536.1Chordaria linearis ClinC8C monoicouspolypeptideC-linearis_contig10 2025843..2026475 +


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_C-linearis_contig10.536.1

>prot_C-linearis_contig10.536.1 ID=prot_C-linearis_contig10.536.1|Name=mRNA_C-linearis_contig10.536.1|organism=Chordaria linearis ClinC8C monoicous|type=polypeptide|length=211bp
PPAPTALPGPWLAVLSPPCVELLLLLLLLPPDDEEPSSPDEEDDSSEEPS
SEEELCAAAAFAFALFFAAGGGDFLLTEAAAAAAADEEATFRRLPATAVA
AAAAAEDSAAGARRFLPPALASWTVGGALTVLGVVSPRFFFFDRPLAFGL
SSRTLLSPSPLSTSPRVRVTTSVSRRISRLSFGGSTKPSRLSTRDERRDF
LPCCLSCRAR*
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mRNA from alignment at C-linearis_contig10:2025843..2026684+

Legend: CDSpolypeptideUTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_C-linearis_contig10.536.1 ID=mRNA_C-linearis_contig10.536.1|Name=mRNA_C-linearis_contig10.536.1|organism=Chordaria linearis ClinC8C monoicous|type=mRNA|length=842bp|location=Sequence derived from alignment at C-linearis_contig10:2025843..2026684+ (Chordaria linearis ClinC8C monoicous)
CCACCGGCTCCGACGGCCTTGCCAGGACCCTGGCTAGCCGTTTTGTCCCC
GCCTTGCGTTGAGCTGCTGCTGCTGCTGCTGCTGCTGCCGCCAGATGACG
AGGAACCCTCCTCGCCTGATGAGGAGGATGATTCGTCGGAGGAGCCGTCC
TCTGAGGAAGAGCTCTGCGCAGCCGCGGCTTTCGCCTTCGCGCTTTTCTT
CGCTGCCGGAGGAGGGGATTTCTTGCTTACAGAGGCTGCTGCTGCTGCTG
CTGCAGACGAGGAGGCAACCTTCCGCCGCTTGCCAGCAACGGCGGTAGCT
GCAGCGGCTGCTGCCGAAGACTCCGCGGCGGGCGCCCGTCGTTTCTTGCC
CCCAGCACTGGCTAGCTGGACAGTGGGAGGTGCATTAACAGTGCTCGGGG
TCGTCTCGCCGCGCTTCTTCTTCTTCGATCGACCACTTGCCTTTGGCTTA
TCGTCCCGCACCCTGCTGTCGCCATCGCCTCTGTCCACCTCCCCACGCGT
GAGAGTCACCACGTCCGTCTCTCGCAGGATATCAAGGCTCTCGTTCGGGG
GCAGCACGAAGCCGTCCAGGCTGAGCACGAGGGACGAGCGCCGCGACTTC
TTGCCCTGCTGCTTGAGCTGCCGCGCGAGGTGATGGGCCAGGTCGCCCAC
CACCTTCAAATTTGGAGGGATGAAGGCCCACCGCTGGCAGAGGGCTGGGT
TGCAGCTCGGGATGCACCCTGACTCCGCCGAGAACACCACGCGGATCCGG
CGTGGAGGCGGCGTCACTATTAGTGGTAGAGCCGCGGAGTCCATCCTGGA
CGCGTGTGCGGCGGAGAAGAGAGTTGGTCAAGCGCGTGGGTG
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Coding sequence (CDS) from alignment at C-linearis_contig10:2025843..2026684+

>mRNA_C-linearis_contig10.536.1 ID=mRNA_C-linearis_contig10.536.1|Name=mRNA_C-linearis_contig10.536.1|organism=Chordaria linearis ClinC8C monoicous|type=CDS|length=1266bp|location=Sequence derived from alignment at C-linearis_contig10:2025843..2026684+ (Chordaria linearis ClinC8C monoicous)
CCACCGGCTCCGACGGCCTTGCCAGGACCCTGGCTAGCCGTTTTGTCCCC
GCCTTGCGTTGAGCTGCTGCTGCTGCTGCTGCTGCTGCCGCCAGATGACG
AGGAACCCTCCTCGCCTGATGAGGAGGATGATTCGTCGGAGGAGCCGTCC
TCTGAGGAAGAGCTCTGCGCAGCCGCGGCTTTCGCCTTCGCGCTTTTCTT
CGCTGCCGGAGGAGGGGATTTCTTGCTTACAGAGGCTGCTGCTGCTGCTG
CTGCAGACGAGGAGGCAACCTTCCGCCGCTTGCCAGCAACGGCGGTAGCT
GCAGCGGCTGCTGCCGAAGACTCCGCGGCGGGCGCCCGTCGTTTCTTGCC
CCCAGCACTGGCTAGCTGGACAGTGGGAGGTGCATTAACAGTGCTCGGGG
TCGTCTCGCCGCGCTTCTTCTTCTTCGATCGACCACTTGCCTTTGGCTTA
TCGTCCCGCACCCTGCTGTCGCCATCGCCTCTGTCCACCTCCCCACGCGT
GAGAGTCACCACGTCCGTCTCTCGCAGGATATCAAGGCTCTCGTTCGGGG
GCAGCACGAAGCCGTCCAGGCTGAGCACGAGGGACGAGCGCCGCGACTTC
TTGCCCTGCTGCTTGAGCTGCCGCGCGAGGTGACCACCGGCTCCGACGGC
CTTGCCAGGACCCTGGCTAGCCGTTTTGTCCCCGCCTTGCGTTGAGCTGC
TGCTGCTGCTGCTGCTGCTGCCGCCAGATGACGAGGAACCCTCCTCGCCT
GATGAGGAGGATGATTCGTCGGAGGAGCCGTCCTCTGAGGAAGAGCTCTG
CGCAGCCGCGGCTTTCGCCTTCGCGCTTTTCTTCGCTGCCGGAGGAGGGG
ATTTCTTGCTTACAGAGGCTGCTGCTGCTGCTGCTGCAGACGAGGAGGCA
ACCTTCCGCCGCTTGCCAGCAACGGCGGTAGCTGCAGCGGCTGCTGCCGA
AGACTCCGCGGCGGGCGCCCGTCGTTTCTTGCCCCCAGCACTGGCTAGCT
GGACAGTGGGAGGTGCATTAACAGTGCTCGGGGTCGTCTCGCCGCGCTTC
TTCTTCTTCGATCGACCACTTGCCTTTGGCTTATCGTCCCGCACCCTGCT
GTCGCCATCGCCTCTGTCCACCTCCCCACGCGTGAGAGTCACCACGTCCG
TCTCTCGCAGGATATCAAGGCTCTCGTTCGGGGGCAGCACGAAGCCGTCC
AGGCTGAGCACGAGGGACGAGCGCCGCGACTTCTTGCCCTGCTGCTTGAG
CTGCCGCGCGAGGTGA
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