TCONS_00048454 (transcript) - C. hemisphaerica

Overview
NameTCONS_00048454
Unique NameTCONS_00048454
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1044

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00048454 ID=TCONS_00048454|Name=TCONS_00048454|organism=Clytia hemisphaerica|type=transcript|length=1044bp
TTTTAGTGAATATGAAAAAGTAATAAATGAACATGTCACTTTTACCGGCT
GTACGAAGCTTGGTGCGTGTACCTCTTTTAACACGAACATTtcaaaatgg
tttcaaatcaattcaagcTTCATCCATCCATCATTGTGCTAGAAAGGGAC
TCAGCACTAGTTTGACTTCGACTGTCGTTAAATCAGGACTTTTATCAAAG
GTGCATCAGCCAGCGTTAGCATCTTCGCTTACCGTACAAGCGAAACGTTT
TCTACCAACTTTAAATCAAGTGCGGCGCCACAATCCACGTACGAAACGGA
AGAGGTCCAAGCCTATCATTCCCGCAAGTCGACGTATCCTACTCGGACCA
CAACGTAAAGGTGTTTGCGTTAAGAACGTTGTTAGAACACCGCGTAAGCC
GAACTCTGCGCAACGAAAGTGTGCTGTTTTACGTTTGAACGATGGTCGAT
TAATTACGGCGTATATACCTGGTGAAAAGGCTAATCTTCAAGAGCACGGT
GTTGTGTTATTCAGAGGTGGTCGTGTTCAAGATTGCCCTGGTTTGAAATA
TAAAATTATAAGAGGCGTTTACGATATGAATTGATCTGTAATTTCTTgag
tgttttttatttttatgataggtaaaacttatttttgaagatttaaatat
tcaattagataatgttttaaaaaattcgTAAACTAAAATTCAGATCAGCC
TTTGTCAGCTAGTTTTCAATAGAACTTTTCATCTAATCTAATTTTGTTGC
TGAACTTTAACCTTGATTTTCAACGATGCAATATTTTTATTGTCTAATTA
GAATGAGGTTGCAAAATTggaatcaaaattatttaattACCATCTGTGTC
CCTGTGTCGAAATAGCATTATAATAATGGCATGTTCTAGAGAACTTTCTT
AGAAGTACTTTCTAAGGAAAATACCATATTCTATAAGTATACAATAATGA
TTATTACAATATTCCCAAATAATGCCCCTTTTAAATGTAGAAAAATTTAC
TTTAAGTCAGGTTTGTGGAAAgtacaaaataaaagttttgatgT
Run BLAST on NCBI

protein sequence of TCONS_00048454-protein

>TCONS_00048454-protein ID=TCONS_00048454-protein|Name=TCONS_00048454-protein|organism=Clytia hemisphaerica|type=polypeptide|length=185bp
MNMSLLPAVRSLVRVPLLTRTFQNGFKSIQASSIHHCARKGLSTSLTSTV
VKSGLLSKVHQPALASSLTVQAKRFLPTLNQVRRHNPRTKRKRSKPIIPA
SRRILLGPQRKGVCVKNVVRTPRKPNSAQRKCAVLRLNDGRLITAYIPGE
KANLQEHGVVLFRGGRVQDCPGLKYKIIRGVYDMN
Run BLAST on NCBI

transcript from alignment at scaffold_142:125319..126362

Legend: exonthree_prime_UTRCDSfive_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00048454 ID=TCONS_00048454|Name=TCONS_00048454|organism=Clytia hemisphaerica|type=transcript|length=1044bp|location=Sequence derived from alignment at scaffold_142:125319..126362 (Clytia hemisphaerica)
AcatcaaaacttttattttgtacTTTCCACAAACCTGACTTAAAGTAAAT
TTTTCTACATTTAAAAGGGGCATTATTTGGGAATATTGTAATAATCATTA
TTGTATACTTATAGAATATGGTATTTTCCTTAGAAAGTACTTCTAAGAAA
GTTCTCTAGAACATGCCATTATTATAATGCTATTTCGACACAGGGACACA
GATGGTaattaaataattttgattccAATTTTGCAACCTCATTCTAATTA
GACAATAAAAATATTGCATCGTTGAAAATCAAGGTTAAAGTTCAGCAACA
AAATTAGATTAGATGAAAAGTTCTATTGAAAACTAGCTGACAAAGGCTGA
TCTGAATTTTAGTTTAcgaattttttaaaacattatctaattgaatattt
aaatcttcaaaaataagttttacctatcataaaaataaaaaacactcAAG
AAATTACAGATCAATTCATATCGTAAACGCCTCTTATAATTTTATATTTC
AAACCAGGGCAATCTTGAACACGACCACCTCTGAATAACACAACACCGTG
CTCTTGAAGATTAGCCTTTTCACCAGGTATATACGCCGTAATTAATCGAC
CATCGTTCAAACGTAAAACAGCACACTTTCGTTGCGCAGAGTTCGGCTTA
CGCGGTGTTCTAACAACGTTCTTAACGCAAACACCTTTACGTTGTGGTCC
GAGTAGGATACGTCGACTTGCGGGAATGATAGGCTTGGACCTCTTCCGTT
TCGTACGTGGATTGTGGCGCCGCACTTGATTTAAAGTTGGTAGAAAACGT
TTCGCTTGTACGGTAAGCGAAGATGCTAACGCTGGCTGATGCACCTTTGA
TAAAAGTCCTGATTTAACGACAGTCGAAGTCAAACTAGTGCTGAGTCCCT
TTCTAGCACAATGATGGATGGATGAAgcttgaattgatttgaaaccattt
tgaAATGTTCGTGTTAAAAGAGGTACACGCACCAAGCTTCGTACAGCCGG
TAAAAGTGACATGTTCATTTATTACTTTTTCATATTCACTAAAA

Coding sequence (CDS) from alignment at scaffold_142:125319..126362

>TCONS_00048454 ID=TCONS_00048454|Name=TCONS_00048454|organism=Clytia hemisphaerica|type=CDS|length=558bp|location=Sequence derived from alignment at scaffold_142:125319..126362 (Clytia hemisphaerica)
TCAATTCATATCGTAAACGCCTCTTATAATTTTATATTTCAAACCAGGGC
AATCTTGAACACGACCACCTCTGAATAACACAACACCGTGCTCTTGAAGA
TTAGCCTTTTCACCAGGTATATACGCCGTAATTAATCGACCATCGTTCAA
ACGTAAAACAGCACACTTTCGTTGCGCAGAGTTCGGCTTACGCGGTGTTC
TAACAACGTTCTTAACGCAAACACCTTTACGTTGTGGTCCGAGTAGGATA
CGTCGACTTGCGGGAATGATAGGCTTGGACCTCTTCCGTTTCGTACGTGG
ATTGTGGCGCCGCACTTGATTTAAAGTTGGTAGAAAACGTTTCGCTTGTA
CGGTAAGCGAAGATGCTAACGCTGGCTGATGCACCTTTGATAAAAGTCCT
GATTTAACGACAGTCGAAGTCAAACTAGTGCTGAGTCCCTTTCTAGCACA
ATGATGGATGGATGAAgcttgaattgatttgaaaccattttgaAATGTTC
GTGTTAAAAGAGGTACACGCACCAAGCTTCGTACAGCCGGTAAAAGTGAC
ATGTTCAT
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_030808XLOC_030808Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00048454-proteinTCONS_00048454-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00048454-exon-scaffold_142-1491911889:125319..126362TCONS_00048454-exon-scaffold_142-1491911889:125319..126362Clytia hemisphaericaexon
TCONS_00048454-exon-scaffold_142-1510915933:125319..126362TCONS_00048454-exon-scaffold_142-1510915933:125319..126362Clytia hemisphaericaexon
TCONS_00048454-exon-scaffold_142-1575043694:125319..126362TCONS_00048454-exon-scaffold_142-1575043694:125319..126362Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
scaffold_142supercontigscaffold_142:125319..126362 .
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
84.7217	80.131	35.7919	30.4515	22.117	18.1563	27.422	27.462	37.0214	32.3749	28.4106	25.6937	22.3235	23.3593	29.0963	30.0338	59.1986	51.3594	9.39453	12.3356	34.2197	27.0505	67.6669	55.8942	35.1713	32.9774	19.6336	17.1607	28.5782	32.0956
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR006032Ribosomal_S12/S23
IPR005679Ribosomal_S12_bac
IPR012340NA-bd_OB-fold
Vocabulary: Biological Process
TermDefinition
GO:0006412translation
Vocabulary: Molecular Function
TermDefinition
GO:0003735structural constituent of ribosome
Vocabulary: Cellular Component
TermDefinition
GO:0005840ribosome
GO:0005622intracellular
GO:0015935small ribosomal subunit
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
cellular_component GO:0015935 small ribosomal subunit
molecular_function GO:0003735 structural constituent of ribosome
Blast
[Close]
BLAST of TCONS_00048454 vs. Swiss-Prot (Human)
Match: RT12 (28S ribosomal protein S12, mitochondrial OS=Homo sapiens GN=MRPS12 PE=1 SV=1)

HSP 1 Score: 91.6633 bits (226), Expect = 2.842e-22
Identity = 55/122 (45.08%), Postives = 68/122 (55.74%), Query Frame = 3 
Query:  210 PALASSLTVQAKRFLPTLNQVRRHNPRTKRKRSKPIIPASRRILLGPQRKGVCVKNVVRTPRKPNSAQRKCAVLRLNDGRLITAYIPGEKANLQEHGVVLFRGGRVQDCPGLKYKIIRGVYD 575
            PAL   L   A   + TLNQ+ R  P  +  R   + P   R    PQ KGV +    R P+KPNSA RKC  +RL+ GR    +IPGE   LQEH +VL  GGR QD PG+K  ++RG YD
Sbjct:   18 PALVPRL--WATCSMATLNQMHRLGPPKRPPRK--LGPTEGR----PQLKGVVLCTFTRKPKKPNSANRKCCRVRLSTGREAVCFIPGEGHTLQEHQIVLVEGGRTQDLPGVKLTVVRGKYD 131
The following BLAST results are available for this feature:
BLAST of TCONS_00048454 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
RT122.842e-2245.0828S ribosomal protein S12, mitochondrial OS=Homo s... [more]
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