TCONS_00044003 (transcript) - C. hemisphaerica

Overview
NameTCONS_00044003
Unique NameTCONS_00044003
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1478

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00044003 ID=TCONS_00044003|Name=TCONS_00044003|organism=Clytia hemisphaerica|type=transcript|length=1478bp
GCTCCATGAATTCGTAGCTTCAATGGGTCCGGATGACAAACTGATTGTTT
TTGTCGGCCGCAAGGTGACCGCTGATGACATCTCCTCTAACTTTGCGATG
TATGGAGAACGCGATTTCGGTATCCAGTCTATTCACGGTAACAGGGATCA
AGCTGATCGAGAACAAGCGTTGCAAGACATGAAGACGGGCGCTGCTCGTG
TCTTAATCGCTACAGATGTCGCTTCAAGAGGACTGGACATTAAAGATTTA
ACACATGTACTGAACTATGATTTCCCACGCCATATTGAAGATTATGTCCA
TCGAATTGGTCGAACTGGTCGTGCGGGCCGCTCGGGTGTCGCTCTTACTT
TTGTTACGCGAGAAGATTGGATGCACGTCGGAAAGCTGATTCCTATTTTA
GAAGAAGCAGGACAGGAAATACCGGAAGAATTAATTGAGATGTCGGAACG
AGCCCGGAAAAATCGAGAAAGACGTCTGGATGAAAAGAACAGAGAACGCG
GGATGGTTGGAGATCGTACGCGAAGTGGATGTTATAATTGTGGTAAAGAA
GGTCACATGTCACGTGAATGTCCCGAACAAAGCAGAAGAGGTGGACGTGG
TAGCGGTCGTGGTGGTGGTCGTGGTGGTGGAAGAGGGCGGAGAGAACGGG
GTGGAGGCATTAGCATCGGTAGAAGTGATTTTGCATGAAGAGGCGTCTTG
GGTGAGAAAGTTCCTCTGAGTAAAAGAGGATTTCAACCAAAGGATATTGG
GTGACTCTCCAGAAGTATTTGGAGAATTATTCGGACTTCGTATCGCTTTT
AATGAGCAAAATGAATCACAAAAGAtgcattttcaaaagattttatttat
ttttcttgtaactagcgaaaaaaaaccgaaagtttCTTTACAGCGACGCA
TTATCAAGCTTGTAAAAAGagttttatgaaatattttaNACGCTTTTAAT
GAGCAAAATGAGTCACAAAAGAtgcattttcaaaagattttatttatttt
tcttgtaactaGCGAAAAAAACCGAAAGTTTCTTTACAGCGACGCATTAT
CAAGCTTGTAAAAAGagttttatgaaatattttattttattttatacttt
ttattttatatagttgtgtttatattttttcatgggCTTCACTTTGAGTG
TGGAATATTCGAAGActaaacccagctggcacacaacgttgtttcaacgt
tcatctaacgttatattgacgttgtgaacattagatagacgttgaaacaa
cggcGTTTGCCAGCTGGGAACGCTCATTTGAGAAAGAATCCCATTCTCAG
GTGACGTTGGTTAGTTGGTCTAGTTTTTTACCGAAaggtgtaaaatttta
ttatccAGACTGAATCTATATGAGAATATTTTATGAAAGATGGCCCTTAA
GAGGGCAACTATGACGAAAGGTTTTTCcagttttttccatttttgataCC
ATATCTCATATTTTCgtggtttgttttt
Run BLAST on NCBI

protein sequence of TCONS_00044003-protein

>TCONS_00044003-protein ID=TCONS_00044003-protein|Name=TCONS_00044003-protein|organism=Clytia hemisphaerica|type=polypeptide|length=228bp
LHEFVASMGPDDKLIVFVGRKVTADDISSNFAMYGERDFGIQSIHGNRDQ
ADREQALQDMKTGAARVLIATDVASRGLDIKDLTHVLNYDFPRHIEDYVH
RIGRTGRAGRSGVALTFVTREDWMHVGKLIPILEEAGQEIPEELIEMSER
ARKNRERRLDEKNRERGMVGDRTRSGCYNCGKEGHMSRECPEQSRRGGRG
SGRGGGRGGGRGRRERGGGISIGRSDFA
Run BLAST on NCBI

transcript from alignment at sc0004836:9..1904+

Legend: exonfive_prime_UTRCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00044003 ID=TCONS_00044003|Name=TCONS_00044003|organism=Clytia hemisphaerica|type=transcript|length=1896bp|location=Sequence derived from alignment at sc0004836:9..1904+ (Clytia hemisphaerica)
GCTCCATGAATTCGTAGCTTCAATGGGTCCGGATGACAAACTGATTGTTT
TTGTCGGCCGCAAGGTGACCGCTGATGACATCTCCTCTAACTTTGCGATG
TATGGAGAACGCGATTTCGGTATCCAGTCTATTCACGGTAACAGGGATCA
AGCTGATCGAGAACAAGCGTTGCAAGACATGAAGACGGGCGCTGCTCGTG
TCTTAATCGCTACAGATGTCGCTTCAAGAGGACTGGACATTAAAGATTTA
ACGTAAGATATTCCACATTATCATGATATAAAGCTGCCTTGTTAACGCTC
GCCAATCTTAAGGACTTTAACCACTTCTTTTAGAGTTGAGAAATTTGAAC
TTTTACTTTCAGACATGTACTGAACTATGATTTCCCACGCCATATTGAAG
ATTATGTCCATCGAATTGGTCGAACTGGTCGTGCGGGCCGCTCGGGTGTC
GCTCTTACTTTTGTTACGCGAGAAGATTGGATGCACGTCGGAAAGCTGAT
TCCTATTTTAGAAGAAGCAGGACAGGAAATACCGGAAGAATTAATTGAGA
TGTCGGAACGAGCCCGGAAAAATCGAGAAAGACGTCTGGATGAAAAGAAC
AGAGAACGTAAGTTTGACATTAATGTAAAAGCTGCTCGAACCTTTATCCC
TCTTCCTTCGTTGTCTCATTctaaattaaaggttttgtttttaaaaaaga
gttttgcttatatcagcacattataacaataggcagacactgtcctagTA
TGTAACATGTGTCTGATTTGAAACGGGAAcgcttatgtaaaaataaaacc
ttgtgTGTAAAACTGAAAACGAAGCAtggataatttttaaaaaatcactt
gAAATAAGTAACAAATTGCATAAGTTTAAAACTTGTTAAGattaattttg
tatttcattCTTTAGGCGGGATGGTTGGAGATCGTACGCGAAGTGGATGT
TATAATTGTGGTAAAGAAGGTCACATGTCACGTGAATGTCCCGAACAAAG
CAGAAGAGGTGGACGTGGTAGCGGTCGTGGTGGTGGTCGTGGTGGTGGAA
GAGGGCGGAGAGAACGGGGTGGAGGCATTAGCATCGGTAGAAGTGATTTT
GCATGAAGAGGCGTCTTGGGTGAGAAAGTTCCTCTGAGTAAAAGAGGATT
TCAACCAAAGGATATTGGGTGACTCTCCAGAAGTATTTGGAGAATTATTC
GGACTTCGTATCGCTTTTAATGAGCAAAATGAATCACAAAAGAtgcattt
tcaaaagattttatttatttttcttgtaactagcgaaaaaaaaccgaaag
tttCTTTACAGCGACGCATTATCAAGCTTGTAAAAAGagttttatgaaat
attttaNACGCTTTTAATGAGCAAAATGAGTCACAAAAGAtgcattttca
aaagattttatttatttttcttgtaactaGCGAAAAAAACCGAAAGTTTC
TTTACAGCGACGCATTATCAAGCTTGTAAAAAGagttttatgaaatattt
tattttattttatactttttattttatatagttgtgtttatattttttca
tgggCTTCACTTTGAGTGTGGAATATTCGAAGActaaacccagctggcac
acaacgttgtttcaacgttcatctaacgttatattgacgttgtgaacatt
agatagacgttgaaacaacggcGTTTGCCAGCTGGGAACGCTCATTTGAG
AAAGAATCCCATTCTCAGGTGACGTTGGTTAGTTGGTCTAGTTTTTTACC
GAAaggtgtaaaattttattatccAGACTGAATCTATATGAGAATATTTT
ATGAAAGATGGCCCTTAAGAGGGCAACTATGACGAAAGGTTTTTCcagtt
ttttccatttttgataCCATATCTCATATTTTCgtggtttgttttt

Coding sequence (CDS) from alignment at sc0004836:9..1904+

>TCONS_00044003 ID=TCONS_00044003|Name=TCONS_00044003|organism=Clytia hemisphaerica|type=CDS|length=2061bp|location=Sequence derived from alignment at sc0004836:9..1904+ (Clytia hemisphaerica)
CTCCATGAATTCGTAGCTTCAATGGGTCCGGATGACAAACTGATTGTTTT
TGTCGGCCGCAAGGTGACCGCTGATGACATCTCCTCTAACTTTGCGATGT
ATGGAGAACGCGATTTCGGTATCCAGTCTATTCACGGTAACAGGGATCAA
GCTGATCGAGAACAAGCGTTGCAAGACATGAAGACGGGCGCTGCTCGTGT
CTTAATCGCTACAGATGTCGCTTCAAGAGGACTGGACATTAAAGATTTAA
CACATGTACTGAACTATGATTTCCCACGCCATATTGAAGATTATGTCCAT
CGAATTGGTCGAACTGGTCGTGCGGGCCGCTCGGGTGTCGCTCTTACTTT
TGTTACGCGAGAAGATTGGATGCACGTCGGAAAGCTGATTCCTATTTTAG
AAGAAGCAGGACAGGAAATACCGGAAGAATTAATTGAGATGTCGGAACGA
GCCCGGAAAAATCGAGAAAGACGTCTGGATGAAAAGAACAGAGAACGCGG
GATGGTTGGAGATCGTACGCGAAGTGGATGTTATAATTGTGGTAAAGAAG
GTCACATGTCACGTGAATGTCCCGAACAAAGCAGAAGAGGTGGACGTGGT
AGCGGTCGTGGTGGTGGTCGTGGTGGTGGAAGAGGGCGGAGAGAACGGGG
TGGAGGCATTAGCATCGGTAGAAGTGATTTTGCATGACTCCATGAATTCG
TAGCTTCAATGGGTCCGGATGACAAACTGATTGTTTTTGTCGGCCGCAAG
GTGACCGCTGATGACATCTCCTCTAACTTTGCGATGTATGGAGAACGCGA
TTTCGGTATCCAGTCTATTCACGGTAACAGGGATCAAGCTGATCGAGAAC
AAGCGTTGCAAGACATGAAGACGGGCGCTGCTCGTGTCTTAATCGCTACA
GATGTCGCTTCAAGAGGACTGGACATTAAAGATTTAACACATGTACTGAA
CTATGATTTCCCACGCCATATTGAAGATTATGTCCATCGAATTGGTCGAA
CTGGTCGTGCGGGCCGCTCGGGTGTCGCTCTTACTTTTGTTACGCGAGAA
GATTGGATGCACGTCGGAAAGCTGATTCCTATTTTAGAAGAAGCAGGACA
GGAAATACCGGAAGAATTAATTGAGATGTCGGAACGAGCCCGGAAAAATC
GAGAAAGACGTCTGGATGAAAAGAACAGAGAACGCGGGATGGTTGGAGAT
CGTACGCGAAGTGGATGTTATAATTGTGGTAAAGAAGGTCACATGTCACG
TGAATGTCCCGAACAAAGCAGAAGAGGTGGACGTGGTAGCGGTCGTGGTG
GTGGTCGTGGTGGTGGAAGAGGGCGGAGAGAACGGGGTGGAGGCATTAGC
ATCGGTAGAAGTGATTTTGCATGACTCCATGAATTCGTAGCTTCAATGGG
TCCGGATGACAAACTGATTGTTTTTGTCGGCCGCAAGGTGACCGCTGATG
ACATCTCCTCTAACTTTGCGATGTATGGAGAACGCGATTTCGGTATCCAG
TCTATTCACGGTAACAGGGATCAAGCTGATCGAGAACAAGCGTTGCAAGA
CATGAAGACGGGCGCTGCTCGTGTCTTAATCGCTACAGATGTCGCTTCAA
GAGGACTGGACATTAAAGATTTAACACATGTACTGAACTATGATTTCCCA
CGCCATATTGAAGATTATGTCCATCGAATTGGTCGAACTGGTCGTGCGGG
CCGCTCGGGTGTCGCTCTTACTTTTGTTACGCGAGAAGATTGGATGCACG
TCGGAAAGCTGATTCCTATTTTAGAAGAAGCAGGACAGGAAATACCGGAA
GAATTAATTGAGATGTCGGAACGAGCCCGGAAAAATCGAGAAAGACGTCT
GGATGAAAAGAACAGAGAACGCGGGATGGTTGGAGATCGTACGCGAAGTG
GATGTTATAATTGTGGTAAAGAAGGTCACATGTCACGTGAATGTCCCGAA
CAAAGCAGAAGAGGTGGACGTGGTAGCGGTCGTGGTGGTGGTCGTGGTGG
TGGAAGAGGGCGGAGAGAACGGGGTGGAGGCATTAGCATCGGTAGAAGTG
ATTTTGCATGA
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_027660XLOC_027660Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00044003-proteinTCONS_00044003-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00044003-exon-sc0004836-1491911889:9..260TCONS_00044003-exon-sc0004836-1491911889:9..260Clytia hemisphaericaexon
TCONS_00044003-exon-sc0004836-1510915933:9..260TCONS_00044003-exon-sc0004836-1510915933:9..260Clytia hemisphaericaexon
TCONS_00044003-exon-sc0004836-1575043694:9..260TCONS_00044003-exon-sc0004836-1575043694:9..260Clytia hemisphaericaexon
TCONS_00044003-exon-sc0004836-1491911889:371..615TCONS_00044003-exon-sc0004836-1491911889:371..615Clytia hemisphaericaexon
TCONS_00044003-exon-sc0004836-1510915933:371..615TCONS_00044003-exon-sc0004836-1510915933:371..615Clytia hemisphaericaexon
TCONS_00044003-exon-sc0004836-1575043694:371..615TCONS_00044003-exon-sc0004836-1575043694:371..615Clytia hemisphaericaexon
TCONS_00044003-exon-sc0004836-1491911889:924..1904TCONS_00044003-exon-sc0004836-1491911889:924..1904Clytia hemisphaericaexon
TCONS_00044003-exon-sc0004836-1510915933:924..1904TCONS_00044003-exon-sc0004836-1510915933:924..1904Clytia hemisphaericaexon
TCONS_00044003-exon-sc0004836-1575043694:924..1904TCONS_00044003-exon-sc0004836-1575043694:924..1904Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0004836supercontigsc0004836:9..1904 +
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
4.04006	3.8467	1.47068	1.31154	16.4137	12.8418	6.80081	9.6823	4.19944	5.86705	3.56565	2.64127	3.69382	4.70112	3.4757	5.4001	6.05578	4.99002	1.21373	1.6337	6.06179	8.20459	10.3826	10.2823	11.4529	11.9911	3.62957	3.65243	9.23079	12.0142
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR001650Helicase_C
IPR001878Znf_CCHC
IPR027417P-loop_NTPase
Vocabulary: Molecular Function
TermDefinition
GO:0008270zinc ion binding
GO:0003676nucleic acid binding
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
Category Term Accession Term Name
molecular_function GO:0003676 nucleic acid binding
molecular_function GO:0008270 zinc ion binding
Blast
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BLAST of TCONS_00044003 vs. Swiss-Prot (Human)
Match: DDX43 (Probable ATP-dependent RNA helicase DDX43 OS=Homo sapiens GN=DDX43 PE=2 SV=2)

HSP 1 Score: 190.66 bits (483), Expect = 9.222e-53
Identity = 90/166 (54.22%), Postives = 125/166 (75.30%), Query Frame = 2 
Query:    2 LHEFVASMGPDDKLIVFVGRKVTADDISSNFAMYGERDFGIQSIHGNRDQADREQALQDMKTGAARVLIATDVASRGLDIKDLTHVLNYDFPRHIEDYVHRIGRTGRAGRSGVALTFVTREDWMHVGKLIPILEEAGQEIPEELIEMSERARKNRERRLDEKNRER 499
            +  F+ SM   DK+IVFV RK  AD +SS+  +    +  ++S+HG+R+Q DRE+AL++ KTG  R+LIATD+ASRGLD+ D+THV N+DFPR+IE+YVHRIGRTGRAGR+GV++T +TR DW    +LI ILE A Q IPEEL+ M+ER + ++++R  E+  ER
Sbjct:  477 MQTFLQSMSSTDKVIVFVSRKAVADHLSSDLIL---GNISVESLHGDREQRDREKALENFKTGKVRILIATDLASRGLDVHDVTHVYNFDFPRNIEEYVHRIGRTGRAGRTGVSITTLTRNDWRVASELINILERANQSIPEELVSMAERFKAHQQKREMERKMER 639
The following BLAST results are available for this feature:
BLAST of TCONS_00044003 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
DDX439.222e-5354.22Probable ATP-dependent RNA helicase DDX43 OS=Homo ... [more]
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