TCONS_00042780 (transcript) - C. hemisphaerica

Overview
NameTCONS_00042780
Unique NameTCONS_00042780
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1416

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00042780 ID=TCONS_00042780|Name=TCONS_00042780|organism=Clytia hemisphaerica|type=transcript|length=1416bp
tcaaaatacattaatttcatgtacaaaaatttacaatacaatggaaatga
aattaattttaacAACTGTTAACaatcaaaaagaaatgaaacaTTATCAG
TCAGTCTTACTAGCCTCCcaacaaaaacatttcaaagatTAAGTAATGCT
GCTCTATGTATGATAAACATTTGTAAGCCCTGTCTTGATAGTTTTAAATC
GCATGCTTTGAGGTATGCAATTGATCATATTTAATTGACCGCGGACTTGG
TTGTTTGCTGGATTTCCTTATTATGACTAACTGATTAtaatttaaaaatt
acaaagtaagaaatttatgtttttctctttcatggttttcaagatatttt
ttaCGCGTAAAATTTCCTTTACACACACTACATTTATATTCTTTAGTTAC
AAGATGAGTTTGTTTATGTCTCTTCAAATTACTATTTCGATGAAAAGATT
TACCACAATCATCGCAATGAAACTTCTTGATTCCAGTGTGTATGTCTTGG
TGCCTTTCAAAATCAGATTTTCTTGCAAAAGATTTACTGCATACGTCACA
AACGAAGGGTCTAGGAAGCTCATAGGATTCTTGAAGCTGTCTTTTTTTAG
CAAAGCAGTTTCCGCATTCACTAACTAAAAATGCTCCAACACCAATACga
ctttcaaaactttgtttcaaTGTAAACGGTTCTCCACATTTCCGACAAAT
TTCAATGCTCAACGTTTTAACACTCTCATTAATACCAGAATCCAATTGGT
TATTGCAAACAAGAGGAACCTCTGGAGTTATTAGAGGGATTTCTGAAGGG
ATAAAAGGTATTTCTGGAGCAAATGAATGTATTCTAGGAGCTTCTTGTTG
AATTACGGTTATTTCTTCAGTTAAATCAGTACATTCATTACAGCAAAAAC
TCTCGTAGCTTCTGTCATCTTCTCTTGTTGTATCTcctttcaaaaatgat
ttaccACACACTTTACAGTTTTCTTCCTTGATATCTGAACTTTCTCCAAT
TAAACCATTTTCATTATTGCTGCTAGGAATGTAAGCTTGATGTATGgttt
gttttaaatttgatacaatattttCTATACTCAGGctctgttttttcttt
ttggatttaTCTACTTGTACTTTGTTTTTAATGTCATTCATGCTACTTTT
TAAAAAGATCTGGAGATGAGTCATAATTACAATTAAGATTTTGGGATGCT
AAATTGAGCTCACATTGAATAAGTAATACTATTAACAGCATAACCCCTTA
ataaaaaagtagtttttttcAGGCTAAATTCTTGTCAAGAATCTGTATTT
CAGCCAAATGCATTGAAAGAATTTGACTgttgttttctttcaattcAAAG
ATTTctaaatcgaatgttttttaaaggtaaatattttcttaaatcgaatc
atttctttaataaaat
Run BLAST on NCBI

protein sequence of TCONS_00042780-protein

>TCONS_00042780-protein ID=TCONS_00042780-protein|Name=TCONS_00042780-protein|organism=Clytia hemisphaerica|type=polypeptide|length=291bp
MTHLQIFLKSSMNDIKNKVQVDKSKKKKQSLSIENIVSNLKQTIHQAYIP
SSNNENGLIGESSDIKEENCKVCGKSFLKGDTTREDDRSYESFCCNECTD
LTEEITVIQQEAPRIHSFAPEIPFIPSEIPLITPEVPLVCNNQLDSGINE
SVKTLSIEICRKCGEPFTLKQSFESRIGVGAFLVSECGNCFAKKRQLQES
YELPRPFVCDVCSKSFARKSDFERHQDIHTGIKKFHCDDCGKSFHRNSNL
KRHKQTHLVTKEYKCSVCKGNFTRKKYLENHEREKHKFLTL
Run BLAST on NCBI

transcript from alignment at sc0003668:8263..9678

Legend: exonfive_prime_UTRCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00042780 ID=TCONS_00042780|Name=TCONS_00042780|organism=Clytia hemisphaerica|type=transcript|length=1416bp|location=Sequence derived from alignment at sc0003668:8263..9678 (Clytia hemisphaerica)
attttattaaagaaatgattcgatttaagaaaatatttacctttaaaaaa
cattcgatttagAAATCTTTgaattgaaagaaaacaacAGTCAAATTCTT
TCAATGCATTTGGCTGAAATACAGATTCTTGACAAGAATTTAGCCTgaaa
aaaactacttttttatTAAGGGGTTATGCTGTTAATAGTATTACTTATTC
AATGTGAGCTCAATTTAGCATCCCAAAATCTTAATTGTAATTATGACTCA
TCTCCAGATCTTTTTAAAAAGTAGCATGAATGACATTAAAAACAAAGTAC
AAGTAGAtaaatccaaaaagaaaaaacagagCCTGAGTATAGaaaatatt
gtatcaaatttaaaacaaacCATACATCAAGCTTACATTCCTAGCAGCAA
TAATGAAAATGGTTTAATTGGAGAAAGTTCAGATATCAAGGAAGAAAACT
GTAAAGTGTGTggtaaatcatttttgaaaggAGATACAACAAGAGAAGAT
GACAGAAGCTACGAGAGTTTTTGCTGTAATGAATGTACTGATTTAACTGA
AGAAATAACCGTAATTCAACAAGAAGCTCCTAGAATACATTCATTTGCTC
CAGAAATACCTTTTATCCCTTCAGAAATCCCTCTAATAACTCCAGAGGTT
CCTCTTGTTTGCAATAACCAATTGGATTCTGGTATTAATGAGAGTGTTAA
AACGTTGAGCATTGAAATTTGTCGGAAATGTGGAGAACCGTTTACAttga
aacaaagttttgaaagtcGTATTGGTGTTGGAGCATTTTTAGTTAGTGAA
TGCGGAAACTGCTTTGCTAAAAAAAGACAGCTTCAAGAATCCTATGAGCT
TCCTAGACCCTTCGTTTGTGACGTATGCAGTAAATCTTTTGCAAGAAAAT
CTGATTTTGAAAGGCACCAAGACATACACACTGGAATCAAGAAGTTTCAT
TGCGATGATTGTGGTAAATCTTTTCATCGAAATAGTAATTTGAAGAGACA
TAAACAAACTCATCTTGTAACTAAAGAATATAAATGTAGTGTGTGTAAAG
GAAATTTTACGCGtaaaaaatatcttgaaaaccatgaaagagaaaaacat
aaatttcttactttgtaatttttaaattaTAATCAGTTAGTCATAATAAG
GAAATCCAGCAAACAACCAAGTCCGCGGTCAATTAAATATGATCAATTGC
ATACCTCAAAGCATGCGATTTAAAACTATCAAGACAGGGCTTACAAATGT
TTATCATACATAGAGCAGCATTACTTAatctttgaaatgtttttgttgGG
AGGCTAGTAAGACTGACTGATAAtgtttcatttctttttgattGTTAACA
GTTgttaaaattaatttcatttccattgtattgtaaatttttgtacatga
aattaatgtattttga

Coding sequence (CDS) from alignment at sc0003668:8263..9678

>TCONS_00042780 ID=TCONS_00042780|Name=TCONS_00042780|organism=Clytia hemisphaerica|type=CDS|length=876bp|location=Sequence derived from alignment at sc0003668:8263..9678 (Clytia hemisphaerica)
ATGACTCATCTCCAGATCTTTTTAAAAAGTAGCATGAATGACATTAAAAA
CAAAGTACAAGTAGAtaaatccaaaaagaaaaaacagagCCTGAGTATAG
aaaatattgtatcaaatttaaaacaaacCATACATCAAGCTTACATTCCT
AGCAGCAATAATGAAAATGGTTTAATTGGAGAAAGTTCAGATATCAAGGA
AGAAAACTGTAAAGTGTGTggtaaatcatttttgaaaggAGATACAACAA
GAGAAGATGACAGAAGCTACGAGAGTTTTTGCTGTAATGAATGTACTGAT
TTAACTGAAGAAATAACCGTAATTCAACAAGAAGCTCCTAGAATACATTC
ATTTGCTCCAGAAATACCTTTTATCCCTTCAGAAATCCCTCTAATAACTC
CAGAGGTTCCTCTTGTTTGCAATAACCAATTGGATTCTGGTATTAATGAG
AGTGTTAAAACGTTGAGCATTGAAATTTGTCGGAAATGTGGAGAACCGTT
TACAttgaaacaaagttttgaaagtcGTATTGGTGTTGGAGCATTTTTAG
TTAGTGAATGCGGAAACTGCTTTGCTAAAAAAAGACAGCTTCAAGAATCC
TATGAGCTTCCTAGACCCTTCGTTTGTGACGTATGCAGTAAATCTTTTGC
AAGAAAATCTGATTTTGAAAGGCACCAAGACATACACACTGGAATCAAGA
AGTTTCATTGCGATGATTGTGGTAAATCTTTTCATCGAAATAGTAATTTG
AAGAGACATAAACAAACTCATCTTGTAACTAAAGAATATAAATGTAGTGT
GTGTAAAGGAAATTTTACGCGtaaaaaatatcttgaaaaccatgaaagag
aaaaacataaatttcttactttgtaa
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_026579XLOC_026579Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00042780-proteinTCONS_00042780-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00042780-exon-sc0003668-1491911889:8263..9678TCONS_00042780-exon-sc0003668-1491911889:8263..9678Clytia hemisphaericaexon
TCONS_00042780-exon-sc0003668-1510915933:8263..9678TCONS_00042780-exon-sc0003668-1510915933:8263..9678Clytia hemisphaericaexon
TCONS_00042780-exon-sc0003668-1575043694:8263..9678TCONS_00042780-exon-sc0003668-1575043694:8263..9678Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0003668supercontigsc0003668:8263..9678 .
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
4.24404	3.99243	2.10386	0.903713	3.95886	2.10788	3.4855	3.33199	2.46438	1.77412	1.64552	1.48929	1.89138	0.660982	0.737468	0.762463	1.1726	1.2138	0.691418	0.602949	1.85868	0.948957	3.30423	3.23394	5.21331	5.54947	1.40998	0.856463	1.93254	2.94557
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR013087Znf_C2H2_type
IPR013088Znf_NHR/GATA
Vocabulary: Molecular Function
TermDefinition
GO:0003676nucleic acid binding
GO:0008270zinc ion binding
Vocabulary: Biological Process
TermDefinition
GO:0006355regulation of transcription, DNA-templated
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006355 regulation of transcription, DNA-templated
molecular_function GO:0003676 nucleic acid binding
molecular_function GO:0008270 zinc ion binding
Blast
[Close]
BLAST of TCONS_00042780 vs. Swiss-Prot (Human)
Match: ZN549 (Zinc finger protein 549 OS=Homo sapiens GN=ZNF549 PE=1 SV=2)

HSP 1 Score: 103.605 bits (257), Expect = 2.009e-23
Identity = 78/246 (31.71%), Postives = 113/246 (45.93%), Query Frame = -3 
Query:  326 CKVCGKSFLK-----GDTTREDDRSYESFCCNEC-TDLTEEITVIQQ------EAPRI-----HSFAPEIPFIPSEIPLITPEVPLVCNNQLDSGINESVKTLSIEI--------CRKCGEPFTLKQSF--ESRIGVG--AFLVSECGNCFAKKRQLQESYEL---PRPFVCDVCSKSFARKSDFERHQDIHTGIKKFHCDDCGKSFHRNSNLKRHKQTHLVTKEYKCSVCKGNFTRKKYLENHER 967
            C +CGKSFL      G   R   R   S+ C EC   L+ + ++++       E P +      SF  +  F+  +  + T E P VC     S I+   +     +        C +CG+ F  KQS     RI  G   +   ECG  F  K++L E   +    +P+VC +C KSF R SD+ RHQ IHTG + + C DCGK+F     L +H + H   + Y+CS C   F  +  L  H+R
Sbjct:  277 CNICGKSFLHKQTLVGHQQRIHTRE-RSYVCIECGKSLSSKYSLVEHQRTHNGEKPYVCNVCGKSFRHKQTFVGHQQRIHTGERPYVCMECGKSFIHSYDRIRHQRVHTGEGAYQCSECGKSFIYKQSLLDHHRIHTGERPYECKECGKAFIHKKRLLEHQRIHTGEKPYVCIICGKSFIRSSDYMRHQRIHTGERAYECSDCGKAFISKQTLLKHHKIHTRERPYECSECGKGFYLEVKLLQHQR 521
The following BLAST results are available for this feature:
BLAST of TCONS_00042780 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
ZN5492.009e-2331.71Zinc finger protein 549 OS=Homo sapiens GN=ZNF549 ... [more]
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