TCONS_00023742 (transcript) - C. hemisphaerica

Overview
NameTCONS_00023742
Unique NameTCONS_00023742
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1374

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00023742 ID=TCONS_00023742|Name=TCONS_00023742|organism=Clytia hemisphaerica|type=transcript|length=1374bp
AATGGGGAAAAGTAACTTTTAAGGtttcaatttatttattgtAAGATTGA
GTAtaaaaaaattagtaaaataAAAGCAACATCCATAACCCCTATTTATT
ACGAAATCTTCTATTTTTACTAAACCTCCTCTTTTTTCTTGCAGAAGGAT
CTTTTTTCCCAATAAAAATCTCTTTCATTTCttcttttgcttttttggaG
TAAATAGCTTTTTCCCATTCTTTTCTGTACAACTTGAAGATTTTCATAGT
TGCTTTGGCATCAATAACACTGCTGTGTTCTCCTGATTGGATCTCTTCGT
GGAGAATTTTAGCAACAAGTTTCCGTAGAGCAGGTCGCTTTGTTTGCATT
agtttatgaaaaggtttataTTTTGAAGTATCTCTGATTTGTCTTTTTGA
ATGACCTAACATCAAACATTTCAGATCATTATGCAACGCATGTCCAACTA
AAATACGGTCCTTTAAAATATCTGAAACTTCTTTTTGTACTAGCTCATAA
CTAGGAGCATCCTTCACATCAGAAGGTCGAATACCACTCACATGTGTTCT
ATAATCGACCACTTTTTCTGCTGGTTTCACAAATTTATCATAAATGCATT
CACAATTACTATTGACAAGAGAAACTCTTGCTAACGCATTTTCCTCACCA
TTAAGGCCAACACCCACCATCTCACAATCAAGTGCTAcatattttgtcat
tttctctGGGTCATCAACCACAGTCTCATCTTTCAAATGCGAGGTAGAGG
ATATTGAGACATTTTCCACTGTAGAATCTCTCTTAGATGTTGTTTCTTTG
TTCAACTTGACACCACACTCTTGCTCAAGTAGCAGTGGATCTACATCATC
AAGCCACGCTGCATCATTTGTTTCCTTTTGTGgttctttctttgaaaatg
acttTCTCGGTctttttttaacaacttttttatcaatattcttTTGCTca
gccaaaaactttttccaattGGAATCAGGCAATTGAACTTTAGAAGTTTG
ATTGATCTTGTCCTTTGTTTTGATTACCTTCCCATTTTTGACACCCTTTC
CTTTTcctcttttatctttatttACATTCTTTTTCTTGGTTTCTTTTTTA
GCCTCTTTCATTGTTATGTCATGAGAAGCCTTATTATATCAACTGATCTG
ATAAAAGCAAGGGCAATAAACAATGAATTTCTACATTCTAAAGTTAAGTC
ACAACAATATTTTACTTACAAATTCCACAACATAAGTTAATTATATTACA
AACCTAGTATTATTAACAACAATACCTTAACTTGACATTAATTAAACAAA
GGTTTGAATTGTAAAGAATACTGTTTTGAATATTTGGATGGTGAATGATG
AGGACCTGGACcaggggggtcagt
Run BLAST on NCBI

protein sequence of TCONS_00023742-protein

>TCONS_00023742-protein ID=TCONS_00023742-protein|Name=TCONS_00023742-protein|organism=Clytia hemisphaerica|type=polypeptide|length=339bp
MKEAKKETKKKNVNKDKRGKGKGVKNGKVIKTKDKINQTSKVQLPDSNWK
KFLAEQKNIDKKVVKKRPRKSFSKKEPQKETNDAAWLDDVDPLLLEQECG
VKLNKETTSKRDSTVENVSISSTSHLKDETVVDDPEKMTKYVALDCEMVG
VGLNGEENALARVSLVNSNCECIYDKFVKPAEKVVDYRTHVSGIRPSDVK
DAPSYELVQKEVSDILKDRILVGHALHNDLKCLMLGHSKRQIRDTSKYKP
FHKLMQTKRPALRKLVAKILHEEIQSGEHSSVIDAKATMKIFKLYRKEWE
KAIYSKKAKEEMKEIFIGKKDPSARKKRRFSKNRRFRNK
Run BLAST on NCBI

transcript from alignment at sc0000460:178110..179483

Legend: exonfive_prime_UTRCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00023742 ID=TCONS_00023742|Name=TCONS_00023742|organism=Clytia hemisphaerica|type=transcript|length=1374bp|location=Sequence derived from alignment at sc0000460:178110..179483 (Clytia hemisphaerica)
actgacccccctgGTCCAGGTCCTCATCATTCACCATCCAAATATTCAAA
ACAGTATTCTTTACAATTCAAACCTTTGTTTAATTAATGTCAAGTTAAGG
TATTGTTGTTAATAATACTAGGTTTGTAATATAATTAACTTATGTTGTGG
AATTTGTAAGTAAAATATTGTTGTGACTTAACTTTAGAATGTAGAAATTC
ATTGTTTATTGCCCTTGCTTTTATCAGATCAGTTGATATAATAAGGCTTC
TCATGACATAACAATGAAAGAGGCTAAAAAAGAAACCAAGAAAAAGAATG
TaaataaagataaaagaggAAAAGGAAAGGGTGTCAAAAATGGGAAGGTA
ATCAAAACAAAGGACAAGATCAATCAAACTTCTAAAGTTCAATTGCCTGA
TTCCaattggaaaaagtttttggctgAGCAAaagaatattgataaaaaag
ttgttaaaaaaagACCGAGAaagtcattttcaaagaaagaacCACAAAAG
GAAACAAATGATGCAGCGTGGCTTGATGATGTAGATCCACTGCTACTTGA
GCAAGAGTGTGGTGTCAAGTTGAACAAAGAAACAACATCTAAGAGAGATT
CTACAGTGGAAAATGTCTCAATATCCTCTACCTCGCATTTGAAAGATGAG
ACTGTGGTTGATGACCCagagaaaatgacaaaatatgTAGCACTTGATTG
TGAGATGGTGGGTGTTGGCCTTAATGGTGAGGAAAATGCGTTAGCAAGAG
TTTCTCTTGTCAATAGTAATTGTGAATGCATTTATGATAAATTTGTGAAA
CCAGCAGAAAAAGTGGTCGATTATAGAACACATGTGAGTGGTATTCGACC
TTCTGATGTGAAGGATGCTCCTAGTTATGAGCTAGTACAAAAAGAAGTTT
CAGATATTTTAAAGGACCGTATTTTAGTTGGACATGCGTTGCATAATGAT
CTGAAATGTTTGATGTTAGGTCATTCAAAAAGACAAATCAGAGATACTTC
AAAAtataaaccttttcataaactAATGCAAACAAAGCGACCTGCTCTAC
GGAAACTTGTTGCTAAAATTCTCCACGAAGAGATCCAATCAGGAGAACAC
AGCAGTGTTATTGATGCCAAAGCAACTATGAAAATCTTCAAGTTGTACAG
AAAAGAATGGGAAAAAGCTATTTACtccaaaaaagcaaaagaaGAAATGA
AAGAGATTTTTATTGGGAAAAAAGATCCTTCTGCAAGAAAAAAGAGGAGG
TTTAGTAAAAATAGAAGATTTCGTAATAAATAGGGGTTATGGATGTTGCT
TTtattttactaatttttttaTACTCAATCTTacaataaataaattgaaa
CCTTAAAAGTTACTTTTCCCCATT

Coding sequence (CDS) from alignment at sc0000460:178110..179483

>TCONS_00023742 ID=TCONS_00023742|Name=TCONS_00023742|organism=Clytia hemisphaerica|type=CDS|length=1020bp|location=Sequence derived from alignment at sc0000460:178110..179483 (Clytia hemisphaerica)
ATGAAAGAGGCTAAAAAAGAAACCAAGAAAAAGAATGTaaataaagataa
aagaggAAAAGGAAAGGGTGTCAAAAATGGGAAGGTAATCAAAACAAAGG
ACAAGATCAATCAAACTTCTAAAGTTCAATTGCCTGATTCCaattggaaa
aagtttttggctgAGCAAaagaatattgataaaaaagttgttaaaaaaag
ACCGAGAaagtcattttcaaagaaagaacCACAAAAGGAAACAAATGATG
CAGCGTGGCTTGATGATGTAGATCCACTGCTACTTGAGCAAGAGTGTGGT
GTCAAGTTGAACAAAGAAACAACATCTAAGAGAGATTCTACAGTGGAAAA
TGTCTCAATATCCTCTACCTCGCATTTGAAAGATGAGACTGTGGTTGATG
ACCCagagaaaatgacaaaatatgTAGCACTTGATTGTGAGATGGTGGGT
GTTGGCCTTAATGGTGAGGAAAATGCGTTAGCAAGAGTTTCTCTTGTCAA
TAGTAATTGTGAATGCATTTATGATAAATTTGTGAAACCAGCAGAAAAAG
TGGTCGATTATAGAACACATGTGAGTGGTATTCGACCTTCTGATGTGAAG
GATGCTCCTAGTTATGAGCTAGTACAAAAAGAAGTTTCAGATATTTTAAA
GGACCGTATTTTAGTTGGACATGCGTTGCATAATGATCTGAAATGTTTGA
TGTTAGGTCATTCAAAAAGACAAATCAGAGATACTTCAAAAtataaacct
tttcataaactAATGCAAACAAAGCGACCTGCTCTACGGAAACTTGTTGC
TAAAATTCTCCACGAAGAGATCCAATCAGGAGAACACAGCAGTGTTATTG
ATGCCAAAGCAACTATGAAAATCTTCAAGTTGTACAGAAAAGAATGGGAA
AAAGCTATTTACtccaaaaaagcaaaagaaGAAATGAAAGAGATTTTTAT
TGGGAAAAAAGATCCTTCTGCAAGAAAAAAGAGGAGGTTTAGTAAAAATA
GAAGATTTCGTAATAAATAG
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_013337XLOC_013337Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00023742-proteinTCONS_00023742-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00023742-exon-sc0000460-1491911889:178110..179483TCONS_00023742-exon-sc0000460-1491911889:178110..179483Clytia hemisphaericaexon
TCONS_00023742-exon-sc0000460-1510915933:178110..179483TCONS_00023742-exon-sc0000460-1510915933:178110..179483Clytia hemisphaericaexon
TCONS_00023742-exon-sc0000460-1575043694:178110..179483TCONS_00023742-exon-sc0000460-1575043694:178110..179483Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0000460supercontigsc0000460:178110..179483 .
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
17.0232	17.4912	18.8953	23.31	29.5687	24.047	21.6903	22.3221	15.0893	12.1425	11.2922	9.47147	8.93172	8.83398	12.485	11.1529	13.8995	13.2155	4.82346	5.01353	12.5136	11.5467	42.1795	35.3633	8.79523	13.102	5.80424	5.16946	27.0404	31.9923
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR013520Exonuclease_RNaseT/DNA_pol3
IPR012337RNaseH-like_dom
Vocabulary: Molecular Function
TermDefinition
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
Blast
[Close]
BLAST of TCONS_00023742 vs. Swiss-Prot (Human)
Match: REXO4 (RNA exonuclease 4 OS=Homo sapiens GN=REXO4 PE=1 SV=2)

HSP 1 Score: 219.164 bits (557), Expect = 2.333e-65
Identity = 110/224 (49.11%), Postives = 146/224 (65.18%), Query Frame = -3 
Query:  212 PQKETNDAAWLDDVDPLLLEQECGVKLNKETTSKRDSTVENVSISSTSHLKDETVVDDPEKMTKYVALDCEMVGVGLNGEENALARVSLVNSNCECIYDKFVKPAEKVVDYRTHVSGIRPSDVKDAPSYELVQKEVSDILKDRILVGHALHNDLKCLMLGHSKRQIRDTSKYKPFHKLMQTKRPALRKLVAKILHEEIQSGEHSSVIDAKATMKIFKLYRKEWE 883
            P   T +  W DDVDP  +E   G +  K    +   +  +VS+S    L  E        +T+ +ALDCEMVGVG  GEE+  ARVS+VN   +C+YDK+VKP E V DYRT VSGIRP ++K     E+VQKEV+++LK RILVGHALHNDLK L L H K++IRDT KYKPF   +++ RP+LR L  KIL  ++Q  EH S+ DA+A M+++ + +KEWE
Sbjct:  186 PAPPTEEDIWFDDVDPADIEAAIGPEAAKIARKQLGQSEGSVSLS----LVKEQAFGG---LTRALALDCEMVGVGPKGEESMAARVSIVNQYGKCVYDKYVKPTEPVTDYRTAVSGIRPENLKQGEELEVVQKEVAEMLKGRILVGHALHNDLKVLFLDHPKKKIRDTQKYKPFKSQVKSGRPSLRLLSEKILGLQVQQAEHCSIQDAQAAMRLYVMVKKEWE 402
The following BLAST results are available for this feature:
BLAST of TCONS_00023742 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
REXO42.333e-6549.11RNA exonuclease 4 OS=Homo sapiens GN=REXO4 PE=1 SV... [more]
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