TCONS_00052369 (transcript) - C. hemisphaerica

Overview
NameTCONS_00052369
Unique NameTCONS_00052369
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length970

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00052369 ID=TCONS_00052369|Name=TCONS_00052369|organism=Clytia hemisphaerica|type=transcript|length=970bp
GTCAGCCCTGGTGACAGACAACATCAGGTTTCAGTCATCAAAACATCAAC
AATTGATTATCCACCACGACCAATGAAACGCGCCAATTCAGTATCCAGTG
TTGACCAACATTCAACTGATTCACAATCTGAAAGAAGTTTTGACAGTCGA
AGTCCACCACCTGTTTCACCCTCATTTACGCATACCCATGATGCAAAAGA
AACCTCTCGAAACTACCACGATGAATTCTACCGCACTTTACAATCACCAC
CACGACGTGAAAGACTTCGTGTTCTCCAGACTGAACATCATAACCAACAC
TCATCATTATTCGATGGTAGCAGACATGAATATCACGATATTCCATCCCC
AAACTACCCACATACTCCGATTCCATCACCTTTCAACCATCCACACCATC
CAAGATTACCTGAACATCACCATCATCATCCTCATTTCACATTCGGACCT
TATTTAGACGCCAACTTAACACTTAGACATAAATTTGCAGACTTTCCAGA
CTTCTCCATAAAGAAGAGACATCGAACTATCTTTACACCAAGCCAATTAA
GAAAACTGGAAGAGAAATTTATCGAGTGTAACTTTATCGTTGGAGTGGAT
CGATCAGCGCTGGCAAAACAACTCAAACTTAAAGAACACCAGGTCAAAAT
TTGGTTCCAAAATCGACGCACAAAGGTCAAACAACAAGGCaaagaaaaat
ctgaaatcgACGTTGTTAGTTAGACAACCAAAAATCAACACTGCAACATG
ACGCAGCCCTTTTGCGAAGCTCTTTATTAAAAATCTATTCATATTTTCta
cactttaattttttttactgttttctGAACTAACTTGTAtatatttcaaa
gaatttttagATATGATGATATACCTCATGTAATTATACTgtacaatttt
ttgaatttttataaacacaaatatttaaaacatgcaatgaaaatataaac
aaattaaAGAATTATAAGAA
Run BLAST on NCBI

protein sequence of Antp family homeodomain transcription factor protein HD01

>TCONS_00052369-protein ID=TCONS_00052369-protein|Name=Antp family homeodomain transcription factor protein HD01|organism=Clytia hemisphaerica|type=polypeptide|length=240bp
VSPGDRQHQVSVIKTSTIDYPPRPMKRANSVSSVDQHSTDSQSERSFDSR
SPPPVSPSFTHTHDAKETSRNYHDEFYRTLQSPPRRERLRVLQTEHHNQH
SSLFDGSRHEYHDIPSPNYPHTPIPSPFNHPHHPRLPEHHHHHPHFTFGP
YLDANLTLRHKFADFPDFSIKKRHRTIFTPSQLRKLEEKFIECNFIVGVD
RSALAKQLKLKEHQVKIWFQNRRTKVKQQGKEKSEIDVVS
Run BLAST on NCBI

transcript from alignment at scaffold_213:810723..812150-

Legend: exonCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00052369 ID=TCONS_00052369|Name=TCONS_00052369|organism=Clytia hemisphaerica|type=transcript|length=1428bp|location=Sequence derived from alignment at scaffold_213:810723..812150- (Clytia hemisphaerica)
GTCAGCCCTGGTGACAGACAACATCAGGTTTCAGTCATCAAAACATCAAC
AATTGATTATCCACCACGACCAATGAAACGCGCCAATTCAGTATCCAGTG
TTGACCAACATTCAACTGATTCACAATCTGAAAGAAGTTTTGACAGTCGA
AGTCCACCACCTGTTTCACCCTCATTTACGCATACCCATGATGCAAAAGA
AACCTCTCGAAACTACCACGATGAATTCTACCGCACTTTACAATCACCAC
CACGACGTGAAAGACTTCGTGTTCTCCAGACTGAACATCATAACCAACAC
TCATCATTATTCGATGGTAGCAGACATGAATATCACGATATTCCATCCCC
AAACTACCCACATACTCCGATTCCATCACCTTTCAACCATCCACACCATC
CAAGATTACCTGAACATCACCATCATCATCCTCATTTCACATTCGGACCT
TATTTAGACGCCAACTTAACACTTAGACATAAATTTGCAGGTAAGAAAAA
CTTGGAATTTCATTTTATTCGAAAGATGTATCATCAGTATTTTTGGTCTT
TGAAAATCTTCATTTTTAAAAATCTTTTTCTTCAAAATAATCATATCCCA
TGTTCTCTTTTCCAGACTTTCCAGACTTCTCCATAAAGAAGAGACATCGA
ACTATCTTTACACCAAGCCAATTAAGAAAACTGGAAGAGAAATTTATCGA
GTGTAACTTTATCGTTGGAGTGGATCGATCAGCGCTGGCAAAACAACTCA
AACTTAAAGAACACCAGGTAATTTGAAGTAAATCGATTATTAAGGTTTAG
AACTACTTAAGGGAATTAATCTCAATCTTACCTTTACAATGGATCGATCA
GTTTATAATACTGTACCCTCAAAAGCAAAACCACACACGTAGGAAGCCCT
TGATTTCTCTAAAACCAATCATCTCAATTAAGCAAATTACTTACAAGAAC
AAAAACATTGAGAGGAAATCATTAACCCTTCTCTACAATCAACCCCAATT
TTCAATATTGTAAAATGTCGTTATCTAGGTCCATTATAGCAAAGGGAAAT
ATGAATGAAGAATACGAAGTTAAGACTTTCATTTGTTTTTTTATCTTCAG
GTCAAAATTTGGTTCCAAAATCGACGCACAAAGGTCAAACAACAAGGCAA
AGAAAAATCTGAAATCGACGTTGTTAGTTAGACAACCAAAAATCAACACT
GCAACATGACGCAGCCCTTTTGCGAAGCTCTTTATTAAAAATCTATTCAT
ATTTTCTACACTTTAATTTTTTTTACTGTTTTCTGAACTAACTTGTATAT
ATTTCAAAGAATTTTTAGATATGATGATATACCTCATGTAATTATACTGT
ACAATTTTTTGAATTTTTATAAACACAAATATTTAAAACATGCAATGAAA
ATATAAACAAATTAAAGAATTATAAGAA

Coding sequence (CDS) from alignment at scaffold_213:810723..812150-

>TCONS_00052369 ID=TCONS_00052369|Name=TCONS_00052369|organism=Clytia hemisphaerica|type=CDS|length=2169bp|location=Sequence derived from alignment at scaffold_213:810723..812150- (Clytia hemisphaerica)
GTCAAAATTTGGTTCCAAAATCGACGCACAAAGGTCAAACAACAAGGCAA
AGAAAAATCTGAAATCGACGTTGTTAGTTAGACTTTCCAGACTTCTCCAT
AAAGAAGAGACATCGAACTATCTTTACACCAAGCCAATTAAGAAAACTGG
AAGAGAAATTTATCGAGTGTAACTTTATCGTTGGAGTGGATCGATCAGCG
CTGGCAAAACAACTCAAACTTAAAGAACACCAGGTCAGCCCTGGTGACAG
ACAACATCAGGTTTCAGTCATCAAAACATCAACAATTGATTATCCACCAC
GACCAATGAAACGCGCCAATTCAGTATCCAGTGTTGACCAACATTCAACT
GATTCACAATCTGAAAGAAGTTTTGACAGTCGAAGTCCACCACCTGTTTC
ACCCTCATTTACGCATACCCATGATGCAAAAGAAACCTCTCGAAACTACC
ACGATGAATTCTACCGCACTTTACAATCACCACCACGACGTGAAAGACTT
CGTGTTCTCCAGACTGAACATCATAACCAACACTCATCATTATTCGATGG
TAGCAGACATGAATATCACGATATTCCATCCCCAAACTACCCACATACTC
CGATTCCATCACCTTTCAACCATCCACACCATCCAAGATTACCTGAACAT
CACCATCATCATCCTCATTTCACATTCGGACCTTATTTAGACGCCAACTT
AACACTTAGACATAAATTTGCAGGTCAAAATTTGGTTCCAAAATCGACGC
ACAAAGGTCAAACAACAAGGCAAAGAAAAATCTGAAATCGACGTTGTTAG
TTAGACTTTCCAGACTTCTCCATAAAGAAGAGACATCGAACTATCTTTAC
ACCAAGCCAATTAAGAAAACTGGAAGAGAAATTTATCGAGTGTAACTTTA
TCGTTGGAGTGGATCGATCAGCGCTGGCAAAACAACTCAAACTTAAAGAA
CACCAGGTCAGCCCTGGTGACAGACAACATCAGGTTTCAGTCATCAAAAC
ATCAACAATTGATTATCCACCACGACCAATGAAACGCGCCAATTCAGTAT
CCAGTGTTGACCAACATTCAACTGATTCACAATCTGAAAGAAGTTTTGAC
AGTCGAAGTCCACCACCTGTTTCACCCTCATTTACGCATACCCATGATGC
AAAAGAAACCTCTCGAAACTACCACGATGAATTCTACCGCACTTTACAAT
CACCACCACGACGTGAAAGACTTCGTGTTCTCCAGACTGAACATCATAAC
CAACACTCATCATTATTCGATGGTAGCAGACATGAATATCACGATATTCC
ATCCCCAAACTACCCACATACTCCGATTCCATCACCTTTCAACCATCCAC
ACCATCCAAGATTACCTGAACATCACCATCATCATCCTCATTTCACATTC
GGACCTTATTTAGACGCCAACTTAACACTTAGACATAAATTTGCAGGTCA
AAATTTGGTTCCAAAATCGACGCACAAAGGTCAAACAACAAGGCAAAGAA
AAATCTGAAATCGACGTTGTTAGTTAGACTTTCCAGACTTCTCCATAAAG
AAGAGACATCGAACTATCTTTACACCAAGCCAATTAAGAAAACTGGAAGA
GAAATTTATCGAGTGTAACTTTATCGTTGGAGTGGATCGATCAGCGCTGG
CAAAACAACTCAAACTTAAAGAACACCAGGTCAGCCCTGGTGACAGACAA
CATCAGGTTTCAGTCATCAAAACATCAACAATTGATTATCCACCACGACC
AATGAAACGCGCCAATTCAGTATCCAGTGTTGACCAACATTCAACTGATT
CACAATCTGAAAGAAGTTTTGACAGTCGAAGTCCACCACCTGTTTCACCC
TCATTTACGCATACCCATGATGCAAAAGAAACCTCTCGAAACTACCACGA
TGAATTCTACCGCACTTTACAATCACCACCACGACGTGAAAGACTTCGTG
TTCTCCAGACTGAACATCATAACCAACACTCATCATTATTCGATGGTAGC
AGACATGAATATCACGATATTCCATCCCCAAACTACCCACATACTCCGAT
TCCATCACCTTTCAACCATCCACACCATCCAAGATTACCTGAACATCACC
ATCATCATCCTCATTTCACATTCGGACCTTATTTAGACGCCAACTTAACA
CTTAGACATAAATTTGCAG
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_033108XLOC_033108Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
Antp family homeodomain transcription factor protein HD01TCONS_00052369-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00052369-exon-scaffold_213-1575043694:811661..812150TCONS_00052369-exon-scaffold_213-1575043694:811661..812150Clytia hemisphaericaexon
TCONS_00052369-exon-scaffold_213-1575043694:811384..811535TCONS_00052369-exon-scaffold_213-1575043694:811384..811535Clytia hemisphaericaexon
TCONS_00052369-exon-scaffold_213-1575043694:810723..811050TCONS_00052369-exon-scaffold_213-1575043694:810723..811050Clytia hemisphaericaexon
TCONS_00052369-exon-scaffold_213-1510915933:811661..812150TCONS_00052369-exon-scaffold_213-1510915933:811661..812150Clytia hemisphaericaexon
TCONS_00052369-exon-scaffold_213-1510915933:811384..811535TCONS_00052369-exon-scaffold_213-1510915933:811384..811535Clytia hemisphaericaexon
TCONS_00052369-exon-scaffold_213-1510915933:810723..811050TCONS_00052369-exon-scaffold_213-1510915933:810723..811050Clytia hemisphaericaexon
TCONS_00052369-exon-scaffold_213-1491911889:811661..812150TCONS_00052369-exon-scaffold_213-1491911889:811661..812150Clytia hemisphaericaexon
TCONS_00052369-exon-scaffold_213-1491911889:811384..811535TCONS_00052369-exon-scaffold_213-1491911889:811384..811535Clytia hemisphaericaexon
TCONS_00052369-exon-scaffold_213-1491911889:810723..811050TCONS_00052369-exon-scaffold_213-1491911889:810723..811050Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
scaffold_213supercontigscaffold_213:810723..812150 -
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	0.251478	0.0496804	0	0.0561125	0.0785714	0.0486617	0	1.05565	28.9591	21.3804	31.5021	50.8518	1.11992	2.3675	0.148674	0.46673	0	0	0	0	0.150161	0.268031	0	0	0.0517445	0
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR001356Homeobox_dom
IPR017970Homeobox_CS
IPR009057Homeobox-like
Vocabulary: Molecular Function
TermDefinition
GO:0003677DNA binding
GO:0043565sequence-specific DNA 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:0003677 DNA binding
molecular_function GO:0043565 sequence-specific DNA binding
Blast
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BLAST of TCONS_00052369 vs. Swiss-Prot (Human)
Match: VAX1 (Ventral anterior homeobox 1 OS=Homo sapiens GN=VAX1 PE=1 SV=1)

HSP 1 Score: 77.7962 bits (190), Expect = 3.249e-16
Identity = 41/78 (52.56%), Postives = 51/78 (65.38%), Query Frame = 1 
Query:  499 DFSIKKRHRTIFTPSQLRKLEEKFIECNFIVGVDRSALAKQLKLKEHQVKIWFQNRRTKVKQ-QGKEKSEIDVVS*TT 729
            D    KR RT FT  QL +LE +F  C ++VG +R+ LA+QL L E QVK+WFQNRRTK K+ QGK+     VVS T 
Sbjct:   96 DLDRPKRTRTSFTAEQLYRLEMEFQRCQYVVGRERTELARQLNLSETQVKVWFQNRRTKQKKDQGKDSELRSVVSETA 173
The following BLAST results are available for this feature:
BLAST of TCONS_00052369 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
VAX13.249e-1652.56Ventral anterior homeobox 1 OS=Homo sapiens GN=VAX... [more]
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