TCONS_00001283 (transcript) - C. hemisphaerica

Overview
NameTCONS_00001283
Unique NameTCONS_00001283
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1110

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00001283 ID=TCONS_00001283|Name=TCONS_00001283|organism=Clytia hemisphaerica|type=transcript|length=1110bp
GCTTCCTGTCAAGCTTCTATATTTTCCCAAGGTATCATAACTTGTTCCTA
ATGCTCACCAACAAGtatatttattaaattttatcttttctgttgttttt
atagaaataaaaaaatggatCAGGAAGATAAAAAAGTGCCAACCATAACG
AAAATAGGCGATAAGTATTTTTTATGGAATGAAGAGGATGTATTGAAATT
GAGAAAAACTCACCGTATATGTGGTGTGACTGTTGGTTCACTACCAAGGA
AACCATGGCAGAATAATGTGCTGTCACTCCCTGTTCTCCTCATGTCTGTT
GAAGTATCGTTGTGTTTATCAAGAAATTTAGCatgtttgaaaacaataga
tagGTCGAGGAAACGTAAAGTAGATGTTGAACAGTTGAATGATTTTCGTT
CTCGACAAGAGGATGAACAAATAAGGATTTTCAAGAAAGAGAAACAAATG
AAAAGTCAAATGTTTTATGGtcataaaaagcaaaagaaagcGGAAAGGAA
ATGGCAAGAAATGGTGGATGAAGACGTCGCTCGTTTTCGTCAACAATATA
AAAAGGATGAATCTGTGACAACAGAAGCTGTTAGTGGAAACACTGGTGTG
GAAGATTCTGTTGAACATAAACAAGTGATAGAAATTACAGAGAACGATCG
GAAATATTACAACCATTCTATTCGAGTACACATCCCAACACAAATGACTG
ACCAGCAAATACTTTCTAAATGTATCTTTGACTTTCCTTCCAACAAGAAA
GATGAAGTTTTATGTCAAGTATTCACTGACTTATGGGAGAAAGGATATTA
CATCACGTCAGCGGAGAAATTTGGTGGTGATTTCCTTGTTTACCCCGGTG
ATCCAATGCGATATCACTCGAAATTTATTGTTTCTGTTGTCATGGATACA
AATAATCAAATGACTGCTCAGGAACTAGTTATTTACGGTCGACTTGGGTC
GGCAGTCAAGAAAACTGTTGTTTTAGCTAGTGTGGCTGAACAAAATACTG
TTCAATATGTCTCACTATCATGGAAAAACTTATAAACTGtactatttttc
ttttattgtattCACCATTACTGTATACAATTTCTAATGGTTTGTCATTA
ACTTGAGAAT
Run BLAST on NCBI

protein sequence of TCONS_00001283-protein

>TCONS_00001283-protein ID=TCONS_00001283-protein|Name=TCONS_00001283-protein|organism=Clytia hemisphaerica|type=polypeptide|length=306bp
MDQEDKKVPTITKIGDKYFLWNEEDVLKLRKTHRICGVTVGSLPRKPWQN
NVLSLPVLLMSVEVSLCLSRNLACLKTIDRSRKRKVDVEQLNDFRSRQED
EQIRIFKKEKQMKSQMFYGHKKQKKAERKWQEMVDEDVARFRQQYKKDES
VTTEAVSGNTGVEDSVEHKQVIEITENDRKYYNHSIRVHIPTQMTDQQIL
SKCIFDFPSNKKDEVLCQVFTDLWEKGYYITSAEKFGGDFLVYPGDPMRY
HSKFIVSVVMDTNNQMTAQELVIYGRLGSAVKKTVVLASVAEQNTVQYVS
LSWKNL
Run BLAST on NCBI

transcript from alignment at sc0000007:689044..690153

Legend: exonthree_prime_UTRCDSfive_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00001283 ID=TCONS_00001283|Name=TCONS_00001283|organism=Clytia hemisphaerica|type=transcript|length=1110bp|location=Sequence derived from alignment at sc0000007:689044..690153 (Clytia hemisphaerica)
ATTCTCAAGTTAATGACAAACCATTAGAAATTGTATACAGTAATGGTGaa tacaataaaagaaaaatagtaCAGTTTATAAGTTTTTCCATGATAGTGAG ACATATTGAACAGTATTTTGTTCAGCCACACTAGCTAAAACAACAGTTTT CTTGACTGCCGACCCAAGTCGACCGTAAATAACTAGTTCCTGAGCAGTCA TTTGATTATTTGTATCCATGACAACAGAAACAATAAATTTCGAGTGATAT CGCATTGGATCACCGGGGTAAACAAGGAAATCACCACCAAATTTCTCCGC TGACGTGATGTAATATCCTTTCTCCCATAAGTCAGTGAATACTTGACATA AAACTTCATCTTTCTTGTTGGAAGGAAAGTCAAAGATACATTTAGAAAGT ATTTGCTGGTCAGTCATTTGTGTTGGGATGTGTACTCGAATAGAATGGTT GTAATATTTCCGATCGTTCTCTGTAATTTCTATCACTTGTTTATGTTCAA CAGAATCTTCCACACCAGTGTTTCCACTAACAGCTTCTGTTGTCACAGAT TCATCCTTTTTATATTGTTGACGAAAACGAGCGACGTCTTCATCCACCAT TTCTTGCCATTTCCTTTCCgctttcttttgctttttatgaCCATAAAACA TTTGACTTTTCATTTGTTTCTCTTTCTTGAAAATCCTTATTTGTTCATCC TCTTGTCGAGAACGAAAATCATTCAACTGTTCAACATCTACTTTACGTTT CCTCGACctatctattgttttcaaacatGCTAAATTTCTTGATAAACACA ACGATACTTCAACAGACATGAGGAGAACAGGGAGTGACAGCACATTATTC TGCCATGGTTTCCTTGGTAGTGAACCAACAGTCACACCACATATACGGTG AGTTTTTCTCAATTTCAATACATCCTCTTCATTCCATAAAAAATACTTAT CGCCTATTTTCGTTATGGTTGGCACTTTTTTATCTTCCTGatccattttt ttatttctataaaaacaacagaaaagataaaatttaataaatataCTTGT TGGTGAGCATTAGGAACAAGTTATGATACCTTGGGAAAATATAGAAGCTT GACAGGAAGC

Coding sequence (CDS) from alignment at sc0000007:689044..690153

>TCONS_00001283 ID=TCONS_00001283|Name=TCONS_00001283|organism=Clytia hemisphaerica|type=CDS|length=921bp|location=Sequence derived from alignment at sc0000007:689044..690153 (Clytia hemisphaerica)
TTATAAGTTTTTCCATGATAGTGAGACATATTGAACAGTATTTTGTTCAG
CCACACTAGCTAAAACAACAGTTTTCTTGACTGCCGACCCAAGTCGACCG
TAAATAACTAGTTCCTGAGCAGTCATTTGATTATTTGTATCCATGACAAC
AGAAACAATAAATTTCGAGTGATATCGCATTGGATCACCGGGGTAAACAA
GGAAATCACCACCAAATTTCTCCGCTGACGTGATGTAATATCCTTTCTCC
CATAAGTCAGTGAATACTTGACATAAAACTTCATCTTTCTTGTTGGAAGG
AAAGTCAAAGATACATTTAGAAAGTATTTGCTGGTCAGTCATTTGTGTTG
GGATGTGTACTCGAATAGAATGGTTGTAATATTTCCGATCGTTCTCTGTA
ATTTCTATCACTTGTTTATGTTCAACAGAATCTTCCACACCAGTGTTTCC
ACTAACAGCTTCTGTTGTCACAGATTCATCCTTTTTATATTGTTGACGAA
AACGAGCGACGTCTTCATCCACCATTTCTTGCCATTTCCTTTCCgctttc
ttttgctttttatgaCCATAAAACATTTGACTTTTCATTTGTTTCTCTTT
CTTGAAAATCCTTATTTGTTCATCCTCTTGTCGAGAACGAAAATCATTCA
ACTGTTCAACATCTACTTTACGTTTCCTCGACctatctattgttttcaaa
catGCTAAATTTCTTGATAAACACAACGATACTTCAACAGACATGAGGAG
AACAGGGAGTGACAGCACATTATTCTGCCATGGTTTCCTTGGTAGTGAAC
CAACAGTCACACCACATATACGGTGAGTTTTTCTCAATTTCAATACATCC
TCTTCATTCCATAAAAAATACTTATCGCCTATTTTCGTTATGGTTGGCAC
TTTTTTATCTTCCTGatccat
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_000687XLOC_000687Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00001283-proteinTCONS_00001283-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00001283-exon-sc0000007-1491911889:689044..690153TCONS_00001283-exon-sc0000007-1491911889:689044..690153Clytia hemisphaericaexon
TCONS_00001283-exon-sc0000007-1510915933:689044..690153TCONS_00001283-exon-sc0000007-1510915933:689044..690153Clytia hemisphaericaexon
TCONS_00001283-exon-sc0000007-1575043694:689044..690153TCONS_00001283-exon-sc0000007-1575043694:689044..690153Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0000007supercontigsc0000007:689044..690153 .
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
34.2965 31.563 12.528 9.37787 5.52247 3.98628 6.83424 8.67303 6.00583 6.53498 7.26055 5.69065 8.7467 10.6609 10.7547 8.03819 8.01059 10.3617 5.86005 3.24127 6.05328 6.01657 41.8068 33.165 11.1186 11.8474 5.18326 6.7994 18.8365 25.3808
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR016690tRNA_splic_SEN34
IPR006677tRNA_intron_Endonuc_cat-like
Vocabulary: Cellular Component
TermDefinition
GO:0000214tRNA-intron endonuclease complex
Vocabulary: Biological Process
TermDefinition
GO:0000379tRNA-type intron splice site recognition and cleavage
GO:0006388tRNA splicing, via endonucleolytic cleavage and ligation
Vocabulary: Molecular Function
TermDefinition
GO:0000213tRNA-intron endonuclease activity
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006388 tRNA splicing, via endonucleolytic cleavage and ligation
biological_process GO:0000379 tRNA-type intron splice site recognition and cleavage
cellular_component GO:0000214 tRNA-intron endonuclease complex
molecular_function GO:0000213 tRNA-intron endonuclease activity
Blast
BLAST of TCONS_00001283 vs. Swiss-Prot (Human)
Match: SEN34 (tRNA-splicing endonuclease subunit Sen34 OS=Homo sapiens GN=TSEN34 PE=1 SV=1)

HSP 1 Score: 132.88 bits (333), Expect = 3.666e-35
Identity = 92/308 (29.87%), Postives = 148/308 (48.05%), Query Frame = 1
Query:  163 KYFLWNEEDVLKLRKTHRICGVTVGSLPRKPWQNNVLSLPVLLMSVEVSLCLSRNLACLKTIDRSRKRKVDVEQLNDFRSRQED---EQIRIFKKEKQMKSQMFY-----GHKKQKKAERKWQEMVDEDVARFRQQYKKDESVTTEAVSGNTGVEDSVEHKQVIEITENDRKYYNHSIRVHIPT--------QMTDQQILSKCIFDFPSNKKD--EVLCQVFTDLWEKGYYITSAEKFGGDFLVYPGDPMRYHSKFIVSVVMDTNNQMTAQELVIYGRLGSAVKKTVVLASVAEQNTVQYVSLSWKNL 1032
            +  +W  E V  LR+   + G TVG+LPR P QN+ L LP+LLM  E  L        L +  R   R   +  L  F+ +QE+   EQ  +  + ++ + Q        G   +K+   +         A   Q  K+DE+   +A SG    E++         +         ++ V + T        +  D ++ SK   D+P   +   E+   ++ DLWE+G+++++A KFGGDFLVYPGDP+R+H+ +I        + +  Q+LV  GRLG++V+KT++L S      V Y SL W +L
Sbjct:   10 RSLVWGAEAVQALRERLGVGGRTVGALPRGPRQNSRLGLPLLLMPEEARLLAEIGAVTLVSAPRPDSRHHSLA-LTSFKRQQEESFQEQSALAAEARETRRQELLEKITEGQAAKKQKLEQASGASSSQEAGSSQAAKEDETSDGQA-SGEQ--EEAGPSSSQAGPSNGVAPLPRSALLVQLATARPRPVKARPLDWRVQSK---DWPHAGRPAHELRYSIYRDLWERGFFLSAAGKFGGDFLVYPGDPLRFHAHYIAQ-CWAPEDTIPLQDLVAAGRLGTSVRKTLLLCSPQPDGKVVYTSLQWASL 309          
The following BLAST results are available for this feature:
BLAST of TCONS_00001283 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
SEN343.666e-3529.87tRNA-splicing endonuclease subunit Sen34 OS=Homo s... [more]
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