TCONS_00002489 (transcript) - C. hemisphaerica

Overview
NameTCONS_00002489
Unique NameTCONS_00002489
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length677

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00002489 ID=TCONS_00002489|Name=TCONS_00002489|organism=Clytia hemisphaerica|type=transcript|length=677bp
TTACCTATCAACAATATTAGGGTAGTAGGATTGCATGTGGAATACACACA
AAACAAGCAggtctttgtttttctttgaatgaTTCGACAGCTCTTGTGAG
ACATTCCCAAGTAAAAATTCCAACTCATTAGCCTCCTGATGTTCTTGATA
ATAATTCAACGCCAAGCCACACACTTCGGCGGCAGTGGCGTACACTTCTT
TATATTTGAAATGTAAACAGTTTGTTAAGTTTGTGAAAAATTCATGTTTC
GATAACCCGGCACTAGACTGTGGCGCAAAAGGTGAAAAGTCGGCTTTGAT
GACTAGCCCTAGAAGCTGTAATCCTGTCGAACTGTCTTTTTTCTCCGAAT
CTTGGTTATTGAAAAATGTGTGAATCAACTGATACGGGATCTGTAGTCTA
TCTTTCCATACTTGTAATAAAGTTTTGATGACTTGAAGGTTATTCTTTAG
AACTGATCGATTGGTGTGGTGAGTATACTTGATCAAATATTCTAACAAAC
TGCTACACATGTTCCGTGAGACCACGGTATCGGGCGGGATATTGGTTTTA
GACCAAGATAACATGACCACGACTAGATCGATGGTGAAGTAGTTAATTGG
TGGACCGGGGATGTGGGAACTGAGGATGAGATCGACTAATGAAGGATACC
AGTAGGTCCCATATGGTTCAAATATCT
Run BLAST on NCBI

transcript from alignment at sc0000020:146904..147644-

Legend: exon
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00002489 ID=TCONS_00002489|Name=TCONS_00002489|organism=Clytia hemisphaerica|type=transcript|length=741bp|location=Sequence derived from alignment at sc0000020:146904..147644- (Clytia hemisphaerica)
TTACCTATCAACAATATTAGGGTAGTAGGATTGCATGTGGAATACACACA
AAACAAGCAGGTCTTTGTTTTTCTTTGAATGATTCGACAGCTCTTGTGAG
ACATTCCCAAGTAAAAATTCCAACTCATTAGCCTCCTGATGTTCTTGATA
ATAATTCAACGCCAAGCCACACACTTCGGCGGCAGTGGCGTACACTTCTT
TATATTTGAAATGTAAACAGTTTGTTAAGTTTGTGAAAAATTCATGTTTC
GATAACCCGGCACTAGACTGTGGCGCAAAAGGTGAAAAGTCGGCTTTGAT
GACTAGCCCTAGAAGCTGTAATCCTGTCGAACTGTCTTTTTTCTCCGAAT
CTTGGTTATTGAAAAATGTGTGAATCAACTGATACGGGATCTGTAGTCTA
TCTTTCCATACTTGTAATAAAGTTTTGATGACTTGAAGGTTATTCTTTAG
AACTGATCGATTGGTGTGGTGAGTATACTTGATCAAATATTCTAACAAAC
TGCTACACATGTTCCGTGAGACCACGGTATCGGGCGGGATATTGGTTTTA
GACCAAGATAACATGACCACGACTAGATCGATGGTGAAGTAGTTAATTGG
TGGACCGGGGATGTGGGAACTGAGGATGAGATCGACTAATGAAGGATACC
AGTAGGTCCCATATGNGACCGGGGATGTGGGAACTAAGGATGAGATCGAT
CAGTGAAGGATACCAGTAGGTCCCATATGGTTCAAATATCT
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_001331XLOC_001331Clytia hemisphaericagene
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00002489-exon-sc0000020-1575043694:146990..147644TCONS_00002489-exon-sc0000020-1575043694:146990..147644Clytia hemisphaericaexon
TCONS_00002489-exon-sc0000020-1575043694:146904..146925TCONS_00002489-exon-sc0000020-1575043694:146904..146925Clytia hemisphaericaexon
TCONS_00002489-exon-sc0000020-1510915933:146990..147644TCONS_00002489-exon-sc0000020-1510915933:146990..147644Clytia hemisphaericaexon
TCONS_00002489-exon-sc0000020-1510915933:146904..146925TCONS_00002489-exon-sc0000020-1510915933:146904..146925Clytia hemisphaericaexon
TCONS_00002489-exon-sc0000020-1491911889:146990..147644TCONS_00002489-exon-sc0000020-1491911889:146990..147644Clytia hemisphaericaexon
TCONS_00002489-exon-sc0000020-1491911889:146904..146925TCONS_00002489-exon-sc0000020-1491911889:146904..146925Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0000020supercontigsc0000020:146904..147644 -
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
0.138085	0	0.348549	0	0	0	0	0	0	0	0	0	0.926148	0	0.98145	0.325514	0.364546	1.06348	0	0.271936	1.14708	0.558186	0.546226	0.479218	0	0	0.237992	0.299907	0.436952	0.16347
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR011989ARM-like
IPR012582NUC194
IPR016024ARM-type_fold
Vocabulary: Cellular Component
TermDefinition
GO:0005634nucleus
Vocabulary: Molecular Function
TermDefinition
GO:0004677DNA-dependent protein kinase activity
GO:0005524ATP binding
GO:0003677DNA binding
GO:0005488binding
Vocabulary: Biological Process
TermDefinition
GO:0006303double-strand break repair via nonhomologous end joining
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006303 double-strand break repair via nonhomologous end joining
cellular_component GO:0005634 nucleus
molecular_function GO:0005524 ATP binding
molecular_function GO:0005488 binding
molecular_function GO:0003677 DNA binding
molecular_function GO:0004677 DNA-dependent protein kinase activity
Blast
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BLAST of TCONS_00002489 vs. Swiss-Prot (Human)
Match: PRKDC (DNA-dependent protein kinase catalytic subunit OS=Homo sapiens GN=PRKDC PE=1 SV=3)

HSP 1 Score: 164.081 bits (414), Expect = 4.470e-45
Identity = 87/229 (37.99%), Postives = 134/229 (58.52%), Query Frame = -3 
Query:    4 IFEPYGTYWYPSLVDLILSSHIPGPPINYFTIDLVVVMLSWSK----TNIPPDTVVSRNMCSSLLEYLIKYTHHTNRSVLKNNLQVIKTLLQVWKDRLQIPYQLIHTFFNNQDSEKKDSSTGLQLLGLVIKADFSPFAPQSSAGLSKHEFFTNLTNCLHF-KYKEVYATAAEVCGLALNYYQEHQEANELEFLLGNVSQELSNHSKKNKDLLVLCVFHMQSYYPNIVDR 675
            +F PY  +W   L+ L  S +  G  I+Y  +++V  +LSW+     T +P D V++    + LL +L+K+  H  R+V ++NL++IKTL++ WKD L IPY+LI   F+ +D   KD+S G+QLLG+V+  D  P+ PQ   G+   E+F  L N + F +YKEVYA AAEV GL L Y  E +   E E L   V+++L  H    +D  ++C+  +   +P + DR
Sbjct: 2156 VFRPYAKHWLSPLLQLAASENNGGEGIHYMVVEIVATILSWTGLATPTGVPKDEVLA----NRLLNFLMKHVFHPKRAVFRHNLEIIKTLVECWKDCLSIPYRLIFEKFSGKDPNSKDNSVGIQLLGIVMANDLPPYDPQ--CGIQSSEYFQALVNNMSFVRYKEVYAAAAEVLGLILRYVMERKNILE-ESLCELVAKQLKQHQNTMEDKFIVCLNKVTKSFPPLADR 2377
The following BLAST results are available for this feature:
BLAST of TCONS_00002489 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
PRKDC4.470e-4537.99DNA-dependent protein kinase catalytic subunit OS=... [more]
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