TCONS_00062993 (transcript) - C. hemisphaerica

Overview
NameTCONS_00062993
Unique NameTCONS_00062993
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1076

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00062993 ID=TCONS_00062993|Name=TCONS_00062993|organism=Clytia hemisphaerica|type=transcript|length=1076bp
CTGAGTTTATAATTATTAAATCTGATTTATAAGATAGTATaccaaaaatt
cctttttattatTTAAAGGTTATAAAAACTTGCACAAGCACTCAATTGTC
AAGATCACTTTgaataataaaatatatatattattaCAGTATCATATTTT
TGTAATACATATCAATTTTTCCTTCATATTTTACTTCCTTACTGCTACTT
ATTTCAAACCCCTCCAGAGGATGGCATATCATGTTTATTCAAGGGGCATA
TTATTTAGGGCCGatttttttgagtttcttttCTCACAAAAAAGGAGCAT
TTAAATTCTAGAAAGCTTTTAAAAGAAGGGAGTGTCTATTTAAAGTATAT
ACAATTATTATAATACTTGTAAAAAAGATTTCTGtgtttcaattttctga
aacaaagCTACAAGTCATGTAGAAAGGGACATAAGAATATGCAGAATTAT
TTATACTATCCATACAAAATTTTTGGCAATAGAATATAACCAGACATAAC
AATGATCAattgttatctttttttctacgctgttcaaattttttactGTA
TGGTCCAACTAAAAGAGCGTCAGCTTCGCACAGAGTGATATGTCTTGGAT
CCCCAAGAAATGCACCAGTCATTTCAAATTTACGTAGTAAAATACGCACA
AGTGATCCTTTCCTATAAAAATTGGCTTTCTCCTCAGGTCTTTTTAAAAC
AGCTTCAAACTTCCCACCAAAGTCAATGTATAAATCATCATTACAAACAT
CAGTGATTTTACCAACCAAACATTTATTATCAGGTCTTCCAAATTTCATT
ATTGGAGATTCATCTAGAAGTTCTTGAAACGTTTTACTTTGTGAATGCTC
ACTCACATTACTCGAAGCTTGTGTTGTACATGATctatttaaaaataaac
ttGAATTGGCAAACAAGTATCCtctattttgaagaaaaagtctTTGTATT
TGTTTATTCATTCTGATACTATTTATTATTATGAcctctgaaagaaaaaa
agaaattaaataatCACAGATCTGGTATCCATCACGAGGTGACAGACTCA
CTATCTTTGGGCAAACAGggctccga
Run BLAST on NCBI

protein sequence of TCONS_00062993-protein

>TCONS_00062993-protein ID=TCONS_00062993-protein|Name=TCONS_00062993-protein|organism=Clytia hemisphaerica|type=polypeptide|length=189bp
RSPVCPKIVSLSPRDGYQICDYLISFFLSEVIIINSIRMNKQIQRLFLQN
RGYLFANSSLFLNRSCTTQASSNVSEHSQSKTFQELLDESPIMKFGRPDN
KCLVGKITDVCNDDLYIDFGGKFEAVLKRPEEKANFYRKGSLVRILLRKF
EMTGAFLGDPRHITLCEADALLVGPYSKKFEQRRKKDNN
Run BLAST on NCBI

transcript from alignment at scaffold_375:27083..28158

Legend: exonfive_prime_UTRCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00062993 ID=TCONS_00062993|Name=TCONS_00062993|organism=Clytia hemisphaerica|type=transcript|length=1076bp|location=Sequence derived from alignment at scaffold_375:27083..28158 (Clytia hemisphaerica)
tcggagccCTGTTTGCCCAAAGATAGTGAGTCTGTCACCTCGTGATGGAT
ACCAGATCTGTGattatttaatttctttttttctttcagaggTCATAATA
ATAAATAGTATCAGAATGAATAAACAAATACAAagactttttcttcaaaa
tagaGGATACTTGTTTGCCAATTCaagtttatttttaaatagATCATGTA
CAACACAAGCTTCGAGTAATGTGAGTGAGCATTCACAAAGTAAAACGTTT
CAAGAACTTCTAGATGAATCTCCAATAATGAAATTTGGAAGACCTGATAA
TAAATGTTTGGTTGGTAAAATCACTGATGTTTGTAATGATGATTTATACA
TTGACTTTGGTGGGAAGTTTGAAGCTGTTTTAAAAAGACCTGAGGAGAAA
GCCAATTTTTATAGGAAAGGATCACTTGTGCGTATTTTACTACGTAAATT
TGAAATGACTGGTGCATTTCTTGGGGATCCAAGACATATCACTCTGTGCG
AAGCTGACGCTCTTTTAGTTGGACCATACagtaaaaaatttgaacagcgt
agaaaaaaagataacaatTGATCATTGTTATGTCTGGTTATATTCTATTG
CCAAAAATTTTGTATGGATAGTATAAATAATTCTGCATATTCTTATGTCC
CTTTCTACATGACTTGTAGctttgtttcagaaaattgaaacaCAGAAATC
TTTTTTACAAGTATTATAATAATTGTATATACTTTAAATAGACACTCCCT
TCTTTTAAAAGCTTTCTAGAATTTAAATGCTCCTTTTTTGTGAGaaaaga
aactcaaaaaaatCGGCCCTAAATAATATGCCCCTTGAATAAACATGATA
TGCCATCCTCTGGAGGGGTTTGAAATAAGTAGCAGTAAGGAAGTAAAATA
TGAAGGAAAAATTGATATGTATTACAAAAATATGATACTGtaataatata
tatattttattattcAAAGTGATCTTGACAATTGAGTGCTTGTGCAAGTT
TTTATAACCTTTAAataataaaaaggaatttttggtATACTATCTTATAA
ATCAGATTTAATAATTATAAACTCAG

Coding sequence (CDS) from alignment at scaffold_375:27083..28158

>TCONS_00062993 ID=TCONS_00062993|Name=TCONS_00062993|organism=Clytia hemisphaerica|type=CDS|length=570bp|location=Sequence derived from alignment at scaffold_375:27083..28158 (Clytia hemisphaerica)
cggagccCTGTTTGCCCAAAGATAGTGAGTCTGTCACCTCGTGATGGATA
CCAGATCTGTGattatttaatttctttttttctttcagaggTCATAATAA
TAAATAGTATCAGAATGAATAAACAAATACAAagactttttcttcaaaat
agaGGATACTTGTTTGCCAATTCaagtttatttttaaatagATCATGTAC
AACACAAGCTTCGAGTAATGTGAGTGAGCATTCACAAAGTAAAACGTTTC
AAGAACTTCTAGATGAATCTCCAATAATGAAATTTGGAAGACCTGATAAT
AAATGTTTGGTTGGTAAAATCACTGATGTTTGTAATGATGATTTATACAT
TGACTTTGGTGGGAAGTTTGAAGCTGTTTTAAAAAGACCTGAGGAGAAAG
CCAATTTTTATAGGAAAGGATCACTTGTGCGTATTTTACTACGTAAATTT
GAAATGACTGGTGCATTTCTTGGGGATCCAAGACATATCACTCTGTGCGA
AGCTGACGCTCTTTTAGTTGGACCATACagtaaaaaatttgaacagcgta
gaaaaaaagataacaatTGA
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_039453XLOC_039453Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00062993-proteinTCONS_00062993-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00062993-exon-scaffold_375-1491911889:27083..28158TCONS_00062993-exon-scaffold_375-1491911889:27083..28158Clytia hemisphaericaexon
TCONS_00062993-exon-scaffold_375-1510915933:27083..28158TCONS_00062993-exon-scaffold_375-1510915933:27083..28158Clytia hemisphaericaexon
TCONS_00062993-exon-scaffold_375-1575043694:27083..28158TCONS_00062993-exon-scaffold_375-1575043694:27083..28158Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
scaffold_375supercontigscaffold_375:27083..28158 .
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
14.4448	14.8042	5.2355	3.94358	14.9546	9.46259	9.6275	11.6235	5.96549	5.89429	4.1043	3.89712	2.93919	2.31754	5.08864	4.96218	10.1986	8.59556	2.13145	2.36697	8.86231	8.27879	28.667	26.745	4.96456	8.54781	5.77929	4.85042	14.8517	18.417
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR019375Ribosomal_S28_mit
Blast
[Close]
BLAST of TCONS_00062993 vs. Swiss-Prot (Human)
Match: RT28 (28S ribosomal protein S28, mitochondrial OS=Homo sapiens GN=MRPS28 PE=1 SV=1)

HSP 1 Score: 83.5741 bits (205), Expect = 6.550e-19
Identity = 42/109 (38.53%), Postives = 67/109 (61.47%), Query Frame = -2 
Query:  509 KTFQELLDESPIMKFGRPDNKCLVGKITDVCNDDLYIDFGGKFEAVLKRPEEKANFYRKGSLVRILLRKFEMTGAFLGDPRHITLCEADALLVGPYSKKFEQRRKKDNN 835
            ++F  +L  SP+ + G   +K ++G+I  +  +DLYIDFGGKF  V +RPE     Y+KG+ VR+ L   E+T  FLG     T+ EA+A+L+G    K + R K++++
Sbjct:   78 ESFASMLRHSPLTQMGPAKDKLVIGRIFHIVENDLYIDFGGKFHCVCRRPEVDGEKYQKGTRVRLRLLDLELTSRFLGATTDTTVLEANAVLLGIQESK-DSRSKEEHH 185
The following BLAST results are available for this feature:
BLAST of TCONS_00062993 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
RT286.550e-1938.5328S ribosomal protein S28, mitochondrial OS=Homo s... [more]
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