TCONS_00052169 (transcript) - C. hemisphaerica

Overview
NameTCONS_00052169
Unique NameTCONS_00052169
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1154

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00052169 ID=TCONS_00052169|Name=TCONS_00052169|organism=Clytia hemisphaerica|type=transcript|length=1154bp
GCAAAATatatattcttccaagaagaaaaataaataagagcTTATGTCAT
CAAAAGAATCACAAATGCAAAAATGGTACCTTAACTTTATATTGCAATTT
ACATTAAACAAAACTTATttacaatttgaaaaagaaataactcAAGATTC
AAACAACGAACTTACTGGATATATGGAGAATATCTACAAAAACAActttg
taaaaaagaaaaaccaataaatcctatcaatataaaaaaaatctcatttc
gAATTCAAATAGGAACTTGTTTACACATCGAAATTGGTTAACTTCTTGGC
AACAAATTTGCAACATATAGAAATCACGAAATATATTTTAGACATACATC
AACAAGCCATTAAAAATCACATATCAATAATAATCGACCTGTCATCCCAG
TAAATCACGAATAAGACTTTCATAAAGGGTTGATCTCAGTTTAGCATAAT
AGTCCAAAGTCCCATAACTGCATCAAATTCATCCAATGCAATAAATTTAC
GTTGGAATTTTAATACCAATTTCTTCATCAGTTTCAACACCAGTTTCGTC
GATAAGATGTTTCTTGGTTTTCGGATAACCTTCCAATATGCAATCCATCA
TGTCGGTTGTCATGCGTTTTCTTTTCTTCCAGTGTGTCACCATTTTACCT
GTATGAACTTTAATCTTTTGTCGATCTTCTTTAGAAATTAAACAACGtcc
atttttaattttgttgattttagatGTCAACTCCATATTCCTTTCTTTCA
ATGTTTTACATGCATTATCAAGTTCTTGTGttgtcatttgttttgaaaat
gaagagatTTCACTGTCTTGGGCATGAACTTCTGATTTCAGTTTGGATAA
CTTTTCTTGCAAATCAGCTGCTTTGGTGTCAAGAGCTTTCAGCTCTTCAG
GTTTGATATCCCCAAATTTCTCCTGGCATGGCCCATAGACCTTTTGTTTG
CCATAAGTTTTCTCAATCACTTTCCTTTGCTCTGCCAGTGATTCAAGAGC
CTTGACAACTGCAGTCTTACCAAACTCTTTGtgcagattttgaaaaatat
cagtAGCACTGTATggtctgttttgtttttcaagaTACTCTTGAATAGTT
TTATTTGGGTCTCGTTTAgaagtcattttcttttttatgttgCTAGAATg
gaac
Run BLAST on NCBI

protein sequence of TCONS_00052169-protein

>TCONS_00052169-protein ID=TCONS_00052169-protein|Name=TCONS_00052169-protein|organism=Clytia hemisphaerica|type=polypeptide|length=218bp
FHSSNIKKKMTSKRDPNKTIQEYLEKQNRPYSATDIFQNLHKEFGKTAVV
KALESLAEQRKVIEKTYGKQKVYGPCQEKFGDIKPEELKALDTKAADLQE
KLSKLKSEVHAQDSEISSFSKQMTTQELDNACKTLKERNMELTSKINKIK
NGRCLISKEDRQKIKVHTGKMVTHWKKRKRMTTDMMDCILEGYPKTKKHL
IDETGVETDEEIGIKIPT
Run BLAST on NCBI

transcript from alignment at scaffold_211:14269..15422

Legend: exonfive_prime_UTRCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00052169 ID=TCONS_00052169|Name=TCONS_00052169|organism=Clytia hemisphaerica|type=transcript|length=1154bp|location=Sequence derived from alignment at scaffold_211:14269..15422 (Clytia hemisphaerica)
gttccATTCTAGcaacataaaaaagaaaatgacttcTAAACGAGACCCAA
ATAAAACTATTCAAGAGTAtcttgaaaaacaaaacagaccATACAGTGCT
actgatatttttcaaaatctgcaCAAAGAGTTTGGTAAGACTGCAGTTGT
CAAGGCTCTTGAATCACTGGCAGAGCAAAGGAAAGTGATTGAGAAAACTT
ATGGCAAACAAAAGGTCTATGGGCCATGCCAGGAGAAATTTGGGGATATC
AAACCTGAAGAGCTGAAAGCTCTTGACACCAAAGCAGCTGATTTGCAAGA
AAAGTTATCCAAACTGAAATCAGAAGTTCATGCCCAAGACAGTGAAatct
cttcattttcaaaacaaatgacaaCACAAGAACTTGATAATGCATGTAAA
ACATTGAAAGAAAGGAATATGGAGTTGACatctaaaatcaacaaaattaa
aaatggaCGTTGTTTAATTTCTAAAGAAGATCGACAAAAGATTAAAGTTC
ATACAGGTAAAATGGTGACACACTGGAAGAAAAGAAAACGCATGACAACC
GACATGATGGATTGCATATTGGAAGGTTATCCGAAAACCAAGAAACATCT
TATCGACGAAACTGGTGTTGAAACTGATGAAGAAATTGGTATTAAAATTC
CAACGTAAATTTATTGCATTGGATGAATTTGATGCAGTTATGGGACTTTG
GACTATTATGCTAAACTGAGATCAACCCTTTATGAAAGTCTTATTCGTGA
TTTACTGGGATGACAGGTCGATTATTATTGATATGTGATTTTTAATGGCT
TGTTGATGTATGTCTAAAATATATTTCGTGATTTCTATATGTTGCAAATT
TGTTGCCAAGAAGTTAACCAATTTCGATGTGTAAACAAGTTCCTATTTGA
ATTcgaaatgagattttttttatattgataggatttattggtttttcttt
tttacaaagTTGTTTTTGTAGATATTCTCCATATATCCAGTAAGTTCGTT
GTTTGAATCTTgagttatttctttttcaaattgtaaATAAGTTTTGTTTA
ATGTAAATTGCAATATAAAGTTAAGGTACCATTTTTGCATTTGTGATTCT
TTTGATGACATAAgctcttatttatttttcttcttggaagaatatatATT
TTGC

Coding sequence (CDS) from alignment at scaffold_211:14269..15422

>TCONS_00052169 ID=TCONS_00052169|Name=TCONS_00052169|organism=Clytia hemisphaerica|type=CDS|length=657bp|location=Sequence derived from alignment at scaffold_211:14269..15422 (Clytia hemisphaerica)
ttccATTCTAGcaacataaaaaagaaaatgacttcTAAACGAGACCCAAA
TAAAACTATTCAAGAGTAtcttgaaaaacaaaacagaccATACAGTGCTa
ctgatatttttcaaaatctgcaCAAAGAGTTTGGTAAGACTGCAGTTGTC
AAGGCTCTTGAATCACTGGCAGAGCAAAGGAAAGTGATTGAGAAAACTTA
TGGCAAACAAAAGGTCTATGGGCCATGCCAGGAGAAATTTGGGGATATCA
AACCTGAAGAGCTGAAAGCTCTTGACACCAAAGCAGCTGATTTGCAAGAA
AAGTTATCCAAACTGAAATCAGAAGTTCATGCCCAAGACAGTGAAatctc
ttcattttcaaaacaaatgacaaCACAAGAACTTGATAATGCATGTAAAA
CATTGAAAGAAAGGAATATGGAGTTGACatctaaaatcaacaaaattaaa
aatggaCGTTGTTTAATTTCTAAAGAAGATCGACAAAAGATTAAAGTTCA
TACAGGTAAAATGGTGACACACTGGAAGAAAAGAAAACGCATGACAACCG
ACATGATGGATTGCATATTGGAAGGTTATCCGAAAACCAAGAAACATCTT
ATCGACGAAACTGGTGTTGAAACTGATGAAGAAATTGGTATTAAAATTCC
AACGTAA
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_033034XLOC_033034Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00052169-proteinTCONS_00052169-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00052169-exon-scaffold_211-1491911889:14269..15422TCONS_00052169-exon-scaffold_211-1491911889:14269..15422Clytia hemisphaericaexon
TCONS_00052169-exon-scaffold_211-1510915933:14269..15422TCONS_00052169-exon-scaffold_211-1510915933:14269..15422Clytia hemisphaericaexon
TCONS_00052169-exon-scaffold_211-1575043694:14269..15422TCONS_00052169-exon-scaffold_211-1575043694:14269..15422Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
scaffold_211supercontigscaffold_211:14269..15422 .
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
34.9897	31.9971	17.8107	15.4288	2.73393	2.28041	2.79948	3.20827	3.10037	2.6647	2.28214	1.77522	1.04867	1.19278	2.53683	2.92831	4.05836	3.95748	0.838081	0.668184	3.19425	3.08068	7.74821	8.49223	7.53756	7.37462	1.64731	0.824086	4.00026	4.2879
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR010776Hop2
IPR011991WHTH_DNA-bd_dom
Vocabulary: Biological Process
TermDefinition
GO:0007131reciprocal meiotic recombination
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0007131 reciprocal meiotic recombination
Blast
[Close]
BLAST of TCONS_00052169 vs. Swiss-Prot (Human)
Match: HOP2 (Homologous-pairing protein 2 homolog OS=Homo sapiens GN=PSMC3IP PE=1 SV=1)

HSP 1 Score: 149.828 bits (377), Expect = 3.500e-42
Identity = 76/197 (38.58%), Postives = 116/197 (58.88%), Query Frame = -2 
Query:  503 YLEKQNRPYSATDIFQNLHKE--FGKTAVVKALESLAEQRKVIEKTYGKQKVYGPCQEKFGDIKPEELKALDTKAADLQEKLSKLKSEVHAQDSEISSFSKQMTTQELDNACKTLKERNMELTSKINKIKNGRCLISKEDRQKIKVHTGKMVTHWKKRKRMTTDMMDCILEGYPKTKKHLIDETGVETDEEIGIKIP 1087
            YL++QNRPYS+ D+F NL +E   GK  VVK LE LA+Q K+ EK YGKQK+Y   Q++F  +   +L+ LD K   L  K+  L+      ++E+   S  +TT E+    + LK+       ++  IK     ++ E+++++     K    W+KRKRM T++ D ILEGYPK+KK   +E G+ETDE+  + +P
Sbjct:   19 YLQEQNRPYSSQDVFGNLQREHGLGKAVVVKTLEQLAQQGKIKEKMYGKQKIYFADQDQFDMVSDADLQVLDGKIVALTAKVQSLQQSCRYMEAELKELSSALTTPEMQKEIQELKKECAGYRERLKNIKAATNHVTPEEKEQVYRERQKYCKEWRKRKRMATELSDAILEGYPKSKKQFFEEVGIETDEDYNVTLP 215
The following BLAST results are available for this feature:
BLAST of TCONS_00052169 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
HOP23.500e-4238.58Homologous-pairing protein 2 homolog OS=Homo sapie... [more]
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