TCONS_00057619 (transcript) - C. hemisphaerica

Overview
NameTCONS_00057619
Unique NameTCONS_00057619
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length383

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00057619 ID=TCONS_00057619|Name=TCONS_00057619|organism=Clytia hemisphaerica|type=transcript|length=383bp
ATATTTCGAAATATTTATTCTTTTAACTATAGCAGTAAATTGTGTTTTCA
TGGCATTATCAGATCCTCCAGAGCTTATGGAaTTCATATTTGCCGCAATC
TACACGTTAGAAATGataatcaaaattttagccaaaggTTTTGTTATGCA
CAAATATTCTTATTTACGGAACTCCTGGAATTGGTTAGATTTCGTTGTAG
TTGTTTTAGGTTATGTTACTATGACGCCTTGGGTCAACAATTTAGATGGT
TTTAGAACATTTAGGGTATTGAGAGCATTGAAAACTATATCAACAGTTAA
AGGTTTAAAAGCGATGGTGAATACATTACTGAAGTCCATGAAAATGATGA
CGGATGTGATCATTCTAACATTGTTCTTTATCT
Run BLAST on NCBI

protein sequence of TCONS_00057619-protein

>TCONS_00057619-protein ID=TCONS_00057619-protein|Name=TCONS_00057619-protein|organism=Clytia hemisphaerica|type=polypeptide|length=127bp
YFEIFILLTIAVNCVFMALSDPPELMEFIFAAIYTLEMIIKILAKGFVMH
KYSYLRNSWNWLDFVVVVLGYVTMTPWVNNLDGFRTFRVLRALKTISTVK
GLKAMVNTLLKSMKMMTDVIILTLFFI
Run BLAST on NCBI

transcript from alignment at scaffold_294:1..4019-

Legend: exonfive_prime_UTRCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00057619 ID=TCONS_00057619|Name=TCONS_00057619|organism=Clytia hemisphaerica|type=transcript|length=4019bp|location=Sequence derived from alignment at scaffold_294:1..4019- (Clytia hemisphaerica)
ATATTTCGAAATATTTATTCTTTTAACTATAGCAGTAAATTGTGTTTTCA
TGGCATTATCAGATCCTCCAGAGCTTATGGAGTAAGTATCGCAACTAACA
CAATATTCATAATTTCACCTTCTCTGGAAAGCCGATTATCATCTATAGCT
TTGACTTAATTTATATTTAATCTAATCATTGAATTGATCGGCAATCTCAT
TTTGGATGAATAATTTGAGAGCTCCTTTTGATATTTGATCGATCTCGTAG
CATCGGAAAACCCGAAAAGGTATACCCTCCAGATTGATACCAAAACAGAG
TAGTAATAAACTTACCAACATTTCGTGACCAGTAATTATCTCTCAGTAGT
TCGAACACCATTCTGATCGATTTCAAAACTTCTTCATCATTTCTTTTTCT
TTCCAGATTCATATTTGCCGCAATCTACACGTTAGAAATGATAATCAAAA
TTTTAGCCAAAGGTTTTGTTATGCACAAATATTCTTATTTACGGAACTCC
TGGAATTGGTTAGATTTCGTTGTAGTTGTTTTAGGGTAAGTGGTGATATA
CTTTTTGGTTAACAACCGCAGTGTGGTATACCTTATCGGGGAAAACTTCG
TCGGGGAAAGTGACGAATATTTTCCCCGACGAAAATTTTCCCCGGCCTTA
ATGCGTTTACCAACTACCAGCAAGTGACGAATTTTTCCCCGACGAAAATT
TTCCCCAACGAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
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GACGAATTTTTCCCCGACGAAAATTTTCCCCAACGAAGTTTTCCCCGATA
AGGTAGCATTAGGATATGGGACGCAAGGTATTGGGTTTAGTCCCTGGTCC
GTCTTACCAAGAACTCCTGGTCTCACCAAGGACTTAGAGGCTTATCTATT
AGAACACATATAATATATATACCATATAATCTATGTTTGAACCAGCAAGA
AACGACCCAGAAAGCTCTGTCACCTGACAAAGAAAAAAATACTGTTAAGA
TCAATTAGGGAGCTTATTTCTTGCAAAAATTATGGACCGCTTCCCTAAAA
AACTTCCTCTTTGAATTCCCTTTCTCTGTTTTCAGTTATGTTACTATGAC
GCCTTGGGTCAACAATTTAGATGGTTTTAGAACATTTAGGGTATTGAGAG
CATTGAAAACTATATCAACAGTTAAAGGTGAGTAAGGCCTCTATTCTGTA
TGGTTCACAGCTCTAAGCCTTCAACATCACAAACTAAATGTGATCCAGTT
AAAAATGATAATGTTAATTTCATATGCAACCGACTTGCGATATTTCAAAT
TAACTCAAATTAACAACATAAGAATATCAACCGAACTAGATTTAAAATGA
GACTCATTGTACAATGGGACTTTGATATCATTCTTCTCATCGTCGCTTTG
TAATACGTTCTGAAATGAAAGAAGTCAGCCAGTCAGTTAAAAACAGCAAC
CGTCATATTCCCCATTACTAGTCCATGTTCTTATTAAACTGTTCCTATTC
AACTGTTCTCGCGCAAAAAGTCAGTGTATTTAAAAAAATAAATATTTTAG
AGTAATACCTACAGCGCTATTAAATTCGAACCTTTCTGCAATTCGAACTA
AAATATTGATCCCTCCCGCTGGAAAGTGTTAAATTTGTCTCTGTAATTCG
AATCCGTCTATTCTAATTCGAGGGCTTTTTGGTCCCTTGAATATCGAATG
AGGCAACTATACACTAATTCGAGTTTTACTTGAAGATCGAATTAGAGAGA
GAAAGTCTATATCAGTTTCTTTATAATCTTTTTTCCAGGTTTAAAAGCGA
TGGTGAATACATTACTGAAGTCCATGAAAATGATGACGGATGTGATCATT
CTAACATTGTTCTTTATCT

Coding sequence (CDS) from alignment at scaffold_294:1..4019-

>TCONS_00057619 ID=TCONS_00057619|Name=TCONS_00057619|organism=Clytia hemisphaerica|type=CDS|length=1524bp|location=Sequence derived from alignment at scaffold_294:1..4019- (Clytia hemisphaerica)
GTTTAAAAGCGATGGTGAATACATTACTGAAGTCCATGAAAATGATGACG
GATGTGATCATTCTAACATTGTTCTTTATCTTATGTTACTATGACGCCTT
GGGTCAACAATTTAGATGGTTTTAGAACATTTAGGGTATTGAGAGCATTG
AAAACTATATCAACAGTTAAAGATTCATATTTGCCGCAATCTACACGTTA
GAAATGATAATCAAAATTTTAGCCAAAGGTTTTGTTATGCACAAATATTC
TTATTTACGGAACTCCTGGAATTGGTTAGATTTCGTTGTAGTTGTTTTAG
GTATTTCGAAATATTTATTCTTTTAACTATAGCAGTAAATTGTGTTTTCA
TGGCATTATCAGATCCTCCAGAGCTTATGGAGTTTAAAAGCGATGGTGAA
TACATTACTGAAGTCCATGAAAATGATGACGGATGTGATCATTCTAACAT
TGTTCTTTATCTTATGTTACTATGACGCCTTGGGTCAACAATTTAGATGG
TTTTAGAACATTTAGGGTATTGAGAGCATTGAAAACTATATCAACAGTTA
AAGATTCATATTTGCCGCAATCTACACGTTAGAAATGATAATCAAAATTT
TAGCCAAAGGTTTTGTTATGCACAAATATTCTTATTTACGGAACTCCTGG
AATTGGTTAGATTTCGTTGTAGTTGTTTTAGGTATTTCGAAATATTTATT
CTTTTAACTATAGCAGTAAATTGTGTTTTCATGGCATTATCAGATCCTCC
AGAGCTTATGGAGTTTAAAAGCGATGGTGAATACATTACTGAAGTCCATG
AAAATGATGACGGATGTGATCATTCTAACATTGTTCTTTATCTTATGTTA
CTATGACGCCTTGGGTCAACAATTTAGATGGTTTTAGAACATTTAGGGTA
TTGAGAGCATTGAAAACTATATCAACAGTTAAAGATTCATATTTGCCGCA
ATCTACACGTTAGAAATGATAATCAAAATTTTAGCCAAAGGTTTTGTTAT
GCACAAATATTCTTATTTACGGAACTCCTGGAATTGGTTAGATTTCGTTG
TAGTTGTTTTAGGTATTTCGAAATATTTATTCTTTTAACTATAGCAGTAA
ATTGTGTTTTCATGGCATTATCAGATCCTCCAGAGCTTATGGAGTTTAAA
AGCGATGGTGAATACATTACTGAAGTCCATGAAAATGATGACGGATGTGA
TCATTCTAACATTGTTCTTTATCTTATGTTACTATGACGCCTTGGGTCAA
CAATTTAGATGGTTTTAGAACATTTAGGGTATTGAGAGCATTGAAAACTA
TATCAACAGTTAAAGATTCATATTTGCCGCAATCTACACGTTAGAAATGA
TAATCAAAATTTTAGCCAAAGGTTTTGTTATGCACAAATATTCTTATTTA
CGGAACTCCTGGAATTGGTTAGATTTCGTTGTAGTTGTTTTAGGTATTTC
GAAATATTTATTCTTTTAACTATAGCAGTAAATTGTGTTTTCATGGCATT
ATCAGATCCTCCAGAGCTTATGGA
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_036339XLOC_036339Clytia hemisphaericagene
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00057619-exon-scaffold_294-1575043694:3939..4019TCONS_00057619-exon-scaffold_294-1575043694:3939..4019Clytia hemisphaericaexon
TCONS_00057619-exon-scaffold_294-1575043694:3485..3613TCONS_00057619-exon-scaffold_294-1575043694:3485..3613Clytia hemisphaericaexon
TCONS_00057619-exon-scaffold_294-1575043694:693..784TCONS_00057619-exon-scaffold_294-1575043694:693..784Clytia hemisphaericaexon
TCONS_00057619-exon-scaffold_294-1575043694:1..81TCONS_00057619-exon-scaffold_294-1575043694:1..81Clytia hemisphaericaexon
TCONS_00057619-exon-scaffold_294-1510915933:3939..4019TCONS_00057619-exon-scaffold_294-1510915933:3939..4019Clytia hemisphaericaexon
TCONS_00057619-exon-scaffold_294-1510915933:3485..3613TCONS_00057619-exon-scaffold_294-1510915933:3485..3613Clytia hemisphaericaexon
TCONS_00057619-exon-scaffold_294-1510915933:693..784TCONS_00057619-exon-scaffold_294-1510915933:693..784Clytia hemisphaericaexon
TCONS_00057619-exon-scaffold_294-1510915933:1..81TCONS_00057619-exon-scaffold_294-1510915933:1..81Clytia hemisphaericaexon
TCONS_00057619-exon-scaffold_294-1491911889:3939..4019TCONS_00057619-exon-scaffold_294-1491911889:3939..4019Clytia hemisphaericaexon
TCONS_00057619-exon-scaffold_294-1491911889:3485..3613TCONS_00057619-exon-scaffold_294-1491911889:3485..3613Clytia hemisphaericaexon
TCONS_00057619-exon-scaffold_294-1491911889:693..784TCONS_00057619-exon-scaffold_294-1491911889:693..784Clytia hemisphaericaexon
TCONS_00057619-exon-scaffold_294-1491911889:1..81TCONS_00057619-exon-scaffold_294-1491911889:1..81Clytia hemisphaericaexon
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00057619-proteinTCONS_00057619-proteinClytia hemisphaericapolypeptide
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
scaffold_294supercontigscaffold_294:1..4019 -
Expression

Hover the mouse over a column in the graph to view expression values in transcripts per million (tpm).
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Values : 
    GrOo_1	 GrOo_2	 FGOo_1	 FGOo_2	 EG_1	 EG_2	 P1_1	 P1_2	 P2_1	 P2_2	 P3_1	 P3_2	 PoPr_1	 PoPr_2	 St_1	 St_2	 GO_1	 GO_2	 PH_1	 PH_2	 BMF_1	 BMF_2	 MMF_1	 MMF_2	 M_1	 M_2	 GEC_1	 GEC_2	 GEN_1	 GEN_2
0	0	0	0.203824	0	0	1.43436	2.69953	1.13371	0.638475	1.9137	1.30147	7.9385	5.88151	0.922926	3.23224	3.3104	5.0596	12.6717	15.8123	18.5054	25.9284	9.36833	21.8155	14.8861	28.6235	7.02279	2.31913	1.45176	1.54057
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR005821Ion_trans_dom
Vocabulary: Molecular Function
TermDefinition
GO:0005216ion channel activity
Vocabulary: Biological Process
TermDefinition
GO:0055085transmembrane transport
GO:0006811ion transport
Vocabulary: Cellular Component
TermDefinition
GO:0016020membrane
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006811 ion transport
biological_process GO:0055085 transmembrane transport
cellular_component GO:0016020 membrane
molecular_function GO:0005216 ion channel activity
Blast
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BLAST of TCONS_00057619 vs. Swiss-Prot (Human)
Match: SCN5A (Sodium channel protein type 5 subunit alpha OS=Homo sapiens GN=SCN5A PE=1 SV=2)

HSP 1 Score: 140.584 bits (353), Expect = 1.448e-38
Identity = 64/127 (50.39%), Postives = 91/127 (71.65%), Query Frame = 2 
Query:    5 FEIFILLTIAVNCVFMALSDPP---ELMEFIFAAIYTLEMIIKILAKGFVMHKYSYLRNSWNWLDFVVVVLGYVTMTPWVNNLDGFRTFRVLRALKTISTVKGLKAMVNTLLKSMKMMTDVIILTLF 376
            F + I+ TI  NCVFMA  DPP   + +E+ F AIYT E ++KILA+GF +H +++LR+ WNWLDF V+++ Y T    + N+   RTFRVLRALKTIS + GLK +V  L++S+K + DV++LT+F
Sbjct:  133 FNMLIMCTILTNCVFMAQHDPPPWTKYVEYTFTAIYTFESLVKILARGFCLHAFTFLRDPWNWLDFSVIIMAYTTEFVDLGNVSALRTFRVLRALKTISVISGLKTIVGALIQSVKKLADVMVLTVF 259
The following BLAST results are available for this feature:
BLAST of TCONS_00057619 vs. Swiss-Prot (Human)
Analysis Date: 2017-10-03 (blastx Clytia hemisphaerica v1.0 mRNA vs SwissProt (Homo sapiens))
Total hits: 1
Match NameE-valueIdentityDescription
SCN5A1.448e-3850.39Sodium channel protein type 5 subunit alpha OS=Hom... [more]
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