TCONS_00058009 (transcript) - C. hemisphaerica

Overview
NameTCONS_00058009
Unique NameTCONS_00058009
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length932

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00058009 ID=TCONS_00058009|Name=TCONS_00058009|organism=Clytia hemisphaerica|type=transcript|length=932bp
TTTAGGCATTCGGTAAAATATCGCTTTCACGATTCCGTATAATGGCGGAA
TAATTCCTTCCACTTTCTTTTTAGTAGTTGGGTCAATTTTGTACGAAAAA
GGAGCAACCATGTCTCTCGTACTTCCCGAAAAGTTCCAACATATCCTTCG
TGTTATGAACACGAATATCGATGGCAAAACCAAAATTATGTATGCCATGA
CAAGCATCAAAGGTGTTGGTCGACGTTTCTCAAATATCTGCTTGAAGAAA
GCTGATATTGACATGAACAAGAGAGCTGGAGAATTATCCGATGAAGAGGT
TGAAAGACTCATCACCATTATGCAGAACCCACGTCAATACAAAATCCCAG
ATTATTTCTTGAACAGAAAGAAGGATATCAAAGATGGAAAATACTCTCAA
GTAAGTATATTTAATGCAACCTTAATATCATGACTACAATTCTCATTGTT
GACAGAGTTGGATGGCAATACGTATAAGGAATATTATTATGCATTTGTAT
ACATTAAGCAGCAGTTAATGGTTAACTATTTGTTTGAGAAAGCAAGAGTT
ACATAAAAATGGAGAAGCTGATAATCCCTTAGCTACAAAAACTGTTTCAG
AGCTGGTGAAATGATGTTTATGATGATTCGTGGATGTGACTGAATTTATG
ATATGGACAAATAACATTATTATTTCTTTTTCCATGGAAAGATTATTCAT
TACCTAAGCTGTGTGGAAGTGGAAATAGAAATATTTGGAGAGTTGTCTCA
AGACAAAGTTACTTGATGTTGAAATTAAGCTTTGATCAATGAATAAATTT
TGCGATCAAACTGGTTAGAAATGAGATGAGAAGTGTTATTCTTTACAGAG
ATTTCATCTGGCATGTGAATGATTGTGGCATTTTATCTGTGTCCCTTGGA
AAGTTGAATTATGCAAATTCCATATTGATATT
Run BLAST on NCBI

protein sequence of TCONS_00058009-protein

>TCONS_00058009-protein ID=TCONS_00058009-protein|Name=TCONS_00058009-protein|organism=Clytia hemisphaerica|type=polypeptide|length=107bp
MSLVLPEKFQHILRVMNTNIDGKTKIMYAMTSIKGVGRRFSNICLKKADI
DMNKRAGELSDEEVERLITIMQNPRQYKIPDYFLNRKKDIKDGKYSQVSI
FNATLIS
Run BLAST on NCBI

transcript from alignment at scaffold_303:33879..34979+

Legend: exonfive_prime_UTRCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00058009 ID=TCONS_00058009|Name=TCONS_00058009|organism=Clytia hemisphaerica|type=transcript|length=1101bp|location=Sequence derived from alignment at scaffold_303:33879..34979+ (Clytia hemisphaerica)
TTTAGGCATTCGGTAAAATATCGCTTTCACGATTCCGTATAATGGCGGAA
TAATTCCTTCCACTTTCTTTTTAGTAGTTGGGTCAATTTTGTACGAAAAA
GGAGCAACCATGGTTAGTTTTATTCTAAGTTTATCCACTCCATCAGCGAA
TACTGTACTTCTTAACCTATCCACAAATTGAGACCTATCTTTCTTCTATA
TCAGAGTCACACAATTTTTGGGCGAAACTTTCTAGACCTACTTGATATTT
TAATGTTTCGTACCATACTATCCCATTTCAGTCTCTCGTACTTCCCGAAA
AGTTCCAACATATCCTTCGTGTTATGAACACGAATATCGATGGCAAAACC
AAAATTATGTATGCCATGACAAGCATCAAAGGTGTTGGTCGACGTTTCTC
AAATATCTGCTTGAAGAAAGCTGATATTGACATGAACAAGAGAGCTGGAG
AATTATCCGATGAAGAGGTTGAAAGACTCATCACCATTATGCAGAACCCA
CGTCAATACAAAATCCCAGATTATTTCTTGAACAGAAAGAAGGATATCAA
AGATGGAAAATACTCTCAAGTAAGTATATTTAATGCAACCTTAATATCAT
GACTACAATTCTCATTGTTGACAGAGTTGGATGGCAATACGTATAAGGAA
TATTATTATGCATTTGTATACATTAAGCAGCAGTTAATGGTTAACTATTT
GTTTGAGAAAGCAAGAGTTACATAAAAATGGAGAAGCTGATAATCCCTTA
GCTACAAAAACTGTTTCAGAGCTGGTGAAATGATGTTTATGATGATTCGT
GGATGTGACTGAATTTATGATATGGACAAATAACATTATTATTTCTTTTT
CCATGGAAAGATTATTCATTACCTAAGCTGTGTGGAAGTGGAAATAGAAA
TATTTGGAGAGTTGTCTCAAGACAAAGTTACTTGATGTTGAAATTAAGCT
TTGATCAATGAATAAATTTTGCGATCAAACTGGTTAGAAATGAGATGAGA
AGTGTTATTCTTTACAGAGATTTCATCTGGCATGTGAATGATTGTGGCAT
TTTATCTGTGTCCCTTGGAAAGTTGAATTATGCAAATTCCATATTGATAT
T

Coding sequence (CDS) from alignment at scaffold_303:33879..34979+

>TCONS_00058009 ID=TCONS_00058009|Name=TCONS_00058009|organism=Clytia hemisphaerica|type=CDS|length=648bp|location=Sequence derived from alignment at scaffold_303:33879..34979+ (Clytia hemisphaerica)
ATGTCTCTCGTACTTCCCGAAAAGTTCCAACATATCCTTCGTGTTATGAA
CACGAATATCGATGGCAAAACCAAAATTATGTATGCCATGACAAGCATCA
AAGGTGTTGGTCGACGTTTCTCAAATATCTGCTTGAAGAAAGCTGATATT
GACATGAACAAGAGAGCTGGAGAATTATCCGATGAAGAGGTTGAAAGACT
CATCACCATTATGCAGAACCCACGTCAATACAAAATCCCAGATTATTTCT
TGAACAGAAAGAAGGATATCAAAGATGGAAAATACTCTCAAGTAAGTATA
TTTAATGCAACCTTAATATCATGAATGTCTCTCGTACTTCCCGAAAAGTT
CCAACATATCCTTCGTGTTATGAACACGAATATCGATGGCAAAACCAAAA
TTATGTATGCCATGACAAGCATCAAAGGTGTTGGTCGACGTTTCTCAAAT
ATCTGCTTGAAGAAAGCTGATATTGACATGAACAAGAGAGCTGGAGAATT
ATCCGATGAAGAGGTTGAAAGACTCATCACCATTATGCAGAACCCACGTC
AATACAAAATCCCAGATTATTTCTTGAACAGAAAGAAGGATATCAAAGAT
GGAAAATACTCTCAAGTAAGTATATTTAATGCAACCTTAATATCATGA
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_036565XLOC_036565Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00058009-proteinTCONS_00058009-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00058009-exon-scaffold_303-1491911889:33879..33990TCONS_00058009-exon-scaffold_303-1491911889:33879..33990Clytia hemisphaericaexon
TCONS_00058009-exon-scaffold_303-1510915933:33879..33990TCONS_00058009-exon-scaffold_303-1510915933:33879..33990Clytia hemisphaericaexon
TCONS_00058009-exon-scaffold_303-1575043694:33879..33990TCONS_00058009-exon-scaffold_303-1575043694:33879..33990Clytia hemisphaericaexon
TCONS_00058009-exon-scaffold_303-1491911889:34160..34979TCONS_00058009-exon-scaffold_303-1491911889:34160..34979Clytia hemisphaericaexon
TCONS_00058009-exon-scaffold_303-1510915933:34160..34979TCONS_00058009-exon-scaffold_303-1510915933:34160..34979Clytia hemisphaericaexon
TCONS_00058009-exon-scaffold_303-1575043694:34160..34979TCONS_00058009-exon-scaffold_303-1575043694:34160..34979Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
scaffold_303supercontigscaffold_303:33879..34979 +
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
225.423	229.441	248.546	252.923	49.7345	44.3688	39.2238	51.2591	411.356	339.608	374.471	520.083	546.318	467.077	693.425	680.637	658.532	766.186	347.816	434.971	417.368	389.671	303.378	321.018	77.2549	76.0029	324.12	342.068	269.671	265.437
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR001892Ribosomal_S13
IPR010979Ribosomal_S13-like_H2TH
Vocabulary: Biological Process
TermDefinition
GO:0006412translation
Vocabulary: Molecular Function
TermDefinition
GO:0003723RNA binding
GO:0003735structural constituent of ribosome
GO:0003676nucleic acid binding
Vocabulary: Cellular Component
TermDefinition
GO:0005840ribosome
GO:0005622intracellular
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006412 translation
cellular_component GO:0005622 intracellular
cellular_component GO:0005840 ribosome
molecular_function GO:0003676 nucleic acid binding
molecular_function GO:0003723 RNA binding
molecular_function GO:0003735 structural constituent of ribosome
Blast
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BLAST of TCONS_00058009 vs. Swiss-Prot (Human)
Match: RS18 (40S ribosomal protein S18 OS=Homo sapiens GN=RPS18 PE=1 SV=3)

HSP 1 Score: 172.17 bits (435), Expect = 2.390e-52
Identity = 75/98 (76.53%), Postives = 94/98 (95.92%), Query Frame = 2 
Query:  110 MSLVLPEKFQHILRVMNTNIDGKTKIMYAMTSIKGVGRRFSNICLKKADIDMNKRAGELSDEEVERLITIMQNPRQYKIPDYFLNRKKDIKDGKYSQV 403
            MSLV+PEKFQHILRV+NTNIDG+ KI +A+T+IKGVGRR++++ L+KADID+ KRAGEL+++EVER+ITIMQNPRQYKIPD+FLNR+KD+KDGKYSQV
Sbjct:    1 MSLVIPEKFQHILRVLNTNIDGRRKIAFAITAIKGVGRRYAHVVLRKADIDLTKRAGELTEDEVERVITIMQNPRQYKIPDWFLNRQKDVKDGKYSQV 98
The following BLAST results are available for this feature:
BLAST of TCONS_00058009 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
RS182.390e-5276.5340S ribosomal protein S18 OS=Homo sapiens GN=RPS18... [more]
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