TCONS_00071916 (transcript) - C. hemisphaerica

Overview
NameTCONS_00071916
Unique NameTCONS_00071916
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1338

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00071916 ID=TCONS_00071916|Name=TCONS_00071916|organism=Clytia hemisphaerica|type=transcript|length=1338bp
ACCAGATGAGACTTCTGCTGCATCATTGAACCCCATGGACCACGACGATT
ATTTTAACGTCAAATCTCTAGTTGATATGAAGGAGATGTTCGACGCAAGA
GTCCACTTGGGCCACCATGAAGGAACATGGGATCCACTGACACGCCCGTA
TATTCATGGAATGAGGAGTACTCAGTATATTATTGATTTGGAAAAGTCTG
TCGAATGTCTACAGTGCGCATTGAACGTGTTAAGTCACATCGTTTACCAA
AAGGGAATCGTTCTTTTCATCACAACGAATCCACGGTTCGATCACTTGAT
TCAAAAGACCGCGCGGAACAGTGGTGAATATTTCATCACTCGCGCATGGC
ACAAAGGATTATTCAACAACGCATCTACCATGTTAGGGACGGATCGATTA
CCTGATCTAATAATCTCTTTTAATAACTCACGCTTCGAACGTGTCCGAGA
AGCGATTACGGAAGCGGCCATGTGTAATATTCCGGTGATCGGCCTTATTG
ATACGGACTGTGATCCCCGGTTAGTCACTTATCCGGTACCTGGTAACGAT
GACACGCTAGACtcgatgaaatatttttgtaccaTCTTTGAGAAAACTAT
TTTGAACGCTAAGCAGAGATTAACCAAAGACGAAGGTGTTGAACAAGAAA
CCTCTGTTGATAAAACGAACGATGAAGTTGAACCACGTGAACGACACGAA
GGTCGATCCTAAGAATCGCTGAAGTAGATTATTCTGGAAATTAGTTTGTG
TATTCGAAAAATGATCTTTAAAGCTCAATTAGGAACTCAAAATGTTTCGA
AGGTTGACAAAAACTCCATACAGTACTATGTCTCCTCGTCAGACCACAAA
CTTACCCGAAAACGAGTGCTTTAATAATTCAGTTTGGATAACACATGGAT
TTTTTAATTCAGTTTCAAACAGCATGGTGTAGAAATACTGTATGCTTTTC
gataaattttcattcagtggttttgaaattatttttgtaaacaatctAAA
GATATAAATTGATGATATCTAGATAAGATAAGTAAAGCTCTCTCTAAAGA
TATGTGTTGTTACCCGAGTTAAGTTTTGTTGGAAATATTCGAGTTATGTT
TGTGGGggccttttgttttaaataaagggacataaaacagtacttgcgaa
atttgtaaacaaactgtatgcagcggatacaaaatcaaaacaaatgtcac
atgtcaaaataaaaaatcaaaccaaatatggctaattttgattgttcaat
tgttttacaattttgttttggacacgtgattttatttgttctctttaatg
acacgtggttagcgcaatgtttacattttactactttt
Run BLAST on NCBI

protein sequence of TCONS_00071916-protein

>TCONS_00071916-protein ID=TCONS_00071916-protein|Name=TCONS_00071916-protein|organism=Clytia hemisphaerica|type=polypeptide|length=236bp
PDETSAASLNPMDHDDYFNVKSLVDMKEMFDARVHLGHHEGTWDPLTRPY
IHGMRSTQYIIDLEKSVECLQCALNVLSHIVYQKGIVLFITTNPRFDHLI
QKTARNSGEYFITRAWHKGLFNNASTMLGTDRLPDLIISFNNSRFERVRE
AITEAAMCNIPVIGLIDTDCDPRLVTYPVPGNDDTLDSMKYFCTIFEKTI
LNAKQRLTKDEGVEQETSVDKTNDEVEPRERHEGRS
Run BLAST on NCBI

transcript from alignment at scaffold_65:78869..80716+

Legend: exonfive_prime_UTRCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00071916 ID=TCONS_00071916|Name=TCONS_00071916|organism=Clytia hemisphaerica|type=transcript|length=1848bp|location=Sequence derived from alignment at scaffold_65:78869..80716+ (Clytia hemisphaerica)
ACCAGATGAGACTTCTGCTGCATCATTGAACCCCATGGACCACGACGATT
ATTTTAACGTCAAATCTCTAGTTGATATGAAGGAGATGTTCGACGCAAGA
GTCCACTTGGGCCACCATGAAGGAACATGGGATCCACTGACACGCCCGTA
TATTCATGGAATGAGGAGTACTCAGTATATTATTGATTTGGAAAAGTCTG
TCGAATGTCTACAGGTGAGTTAGTTGACAAAGCAAACCCGGCCCTTTAAA
AGAATAGAATTCACACCCACTGGCCATCCCAGTGAAAACCCGTTCTGAAA
ATATCCAATTTTTCATCACACGTAAAAATACCTTTACCCCACTAGTATCT
TATTGCAAAAATTGTCCCAATTCAAGATAACGAAGCTTCCATACATGTTC
CATTCAAATTCCACCCTCTAAGATGTCAATACCCAGAGTTCTGTAGAGTC
AGTTATTTGGAGCATTTAGTATCTCATGAACCTCTGTTTTTGTTAAGGAA
TTTTTTGaactgaatttcatttttcttaggATGGTTCtcggtgaaatttt
ttttgataacagTGACAATTCTGCAATCAATTTTATTGGTCGTATGATTA
CTGATTGCTCaatgatatttttatttgtagACTTCTATTTTTACATATGT
CAAGGCTCAACCAAGGACTCTTTCATTTGTGTGTAGAACTTGTTTTAGCG
TAtccttttctcctttttttccaGTGCGCATTGAACGTGTTAAGTCACAT
CGTTTACCAAAAGGGAATCGTTCTTTTCATCACAACGAATCCACGGTTCG
ATCACTTGATTCAAAAGACCGCGCGGAACAGTGGTGAATATTTCATCACT
CGCGCATGGCACAAAGGATTATTCAACAACGCATCTACCATGTTAGGGAC
GGATCGATTACCTGATCTAATAATCTCTTTTAATAACTCACGCTTCGAAC
GTGTCCGAGAAGCGATTACGGAAGCGGCCATGTGTAATATTCCGGTGATC
GGCCTTATTGATACGGACTGTGATCCCCGGTTAGTCACTTATCCGGTACC
TGGTAACGATGACACGCTAGACtcgatgaaatatttttgtaccaTCTTTG
AGAAAACTATTTTGAACGCTAAGCAGAGATTAACCAAAGACGAAGGTGTT
GAACAAGAAACCTCTGTTGATAAAACGAACGATGAAGTTGAACCACGTGA
ACGACACGAAGGTCGATCCTAAGAATCGCTGAAGTAGATTATTCTGGAAA
TTAGTTTGTGTATTCGAAAAATGATCTTTAAAGCTCAATTAGGAACTCAA
AATGTTTCGAAGGTTGACAAAAACTCCATACAGTACTATGTCTCCTCGTC
AGACCACAAACTTACCCGAAAACGAGTGCTTTAATAATTCAGTTTGGATA
ACACATGGATTTTTTAATTCAGTTTCAAACAGCATGGTGTAGAAATACTG
TATGCTTTTCgataaattttcattcagtggttttgaaattatttttgtaa
acaatctAAAGATATAAATTGATGATATCTAGATAAGATAAGTAAAGCTC
TCTCTAAAGATATGTGTTGTTACCCGAGTTAAGTTTTGTTGGAAATATTC
GAGTTATGTTTGTGGGggccttttgttttaaataaagggacataaaacag
tacttgcgaaatttgtaaacaaactgtatgcagcggatacaaaatcaaaa
caaatgtcacatgtcaaaataaaaaatcaaaccaaatatggctaattttg
attgttcaattgttttacaattttgttttggacacgtgattttatttgtt
ctctttaatgacacgtggttagcgcaatgtttacattttactactttt

Coding sequence (CDS) from alignment at scaffold_65:78869..80716+

>TCONS_00071916 ID=TCONS_00071916|Name=TCONS_00071916|organism=Clytia hemisphaerica|type=CDS|length=1422bp|location=Sequence derived from alignment at scaffold_65:78869..80716+ (Clytia hemisphaerica)
CCAGATGAGACTTCTGCTGCATCATTGAACCCCATGGACCACGACGATTA
TTTTAACGTCAAATCTCTAGTTGATATGAAGGAGATGTTCGACGCAAGAG
TCCACTTGGGCCACCATGAAGGAACATGGGATCCACTGACACGCCCGTAT
ATTCATGGAATGAGGAGTACTCAGTATATTATTGATTTGGAAAAGTCTGT
CGAATGTCTACAGTGCGCATTGAACGTGTTAAGTCACATCGTTTACCAAA
AGGGAATCGTTCTTTTCATCACAACGAATCCACGGTTCGATCACTTGATT
CAAAAGACCGCGCGGAACAGTGGTGAATATTTCATCACTCGCGCATGGCA
CAAAGGATTATTCAACAACGCATCTACCATGTTAGGGACGGATCGATTAC
CTGATCTAATAATCTCTTTTAATAACTCACGCTTCGAACGTGTCCGAGAA
GCGATTACGGAAGCGGCCATGTGTAATATTCCGGTGATCGGCCTTATTGA
TACGGACTGTGATCCCCGGTTAGTCACTTATCCGGTACCTGGTAACGATG
ACACGCTAGACtcgatgaaatatttttgtaccaTCTTTGAGAAAACTATT
TTGAACGCTAAGCAGAGATTAACCAAAGACGAAGGTGTTGAACAAGAAAC
CTCTGTTGATAAAACGAACGATGAAGTTGAACCACGTGAACGACACGAAG
GTCGATCCTAACCAGATGAGACTTCTGCTGCATCATTGAACCCCATGGAC
CACGACGATTATTTTAACGTCAAATCTCTAGTTGATATGAAGGAGATGTT
CGACGCAAGAGTCCACTTGGGCCACCATGAAGGAACATGGGATCCACTGA
CACGCCCGTATATTCATGGAATGAGGAGTACTCAGTATATTATTGATTTG
GAAAAGTCTGTCGAATGTCTACAGTGCGCATTGAACGTGTTAAGTCACAT
CGTTTACCAAAAGGGAATCGTTCTTTTCATCACAACGAATCCACGGTTCG
ATCACTTGATTCAAAAGACCGCGCGGAACAGTGGTGAATATTTCATCACT
CGCGCATGGCACAAAGGATTATTCAACAACGCATCTACCATGTTAGGGAC
GGATCGATTACCTGATCTAATAATCTCTTTTAATAACTCACGCTTCGAAC
GTGTCCGAGAAGCGATTACGGAAGCGGCCATGTGTAATATTCCGGTGATC
GGCCTTATTGATACGGACTGTGATCCCCGGTTAGTCACTTATCCGGTACC
TGGTAACGATGACACGCTAGACtcgatgaaatatttttgtaccaTCTTTG
AGAAAACTATTTTGAACGCTAAGCAGAGATTAACCAAAGACGAAGGTGTT
GAACAAGAAACCTCTGTTGATAAAACGAACGATGAAGTTGAACCACGTGA
ACGACACGAAGGTCGATCCTAA
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_044654XLOC_044654Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00071916-proteinTCONS_00071916-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00071916-exon-scaffold_65-1491911889:78869..79082TCONS_00071916-exon-scaffold_65-1491911889:78869..79082Clytia hemisphaericaexon
TCONS_00071916-exon-scaffold_65-1510915933:78869..79082TCONS_00071916-exon-scaffold_65-1510915933:78869..79082Clytia hemisphaericaexon
TCONS_00071916-exon-scaffold_65-1575043694:78869..79082TCONS_00071916-exon-scaffold_65-1575043694:78869..79082Clytia hemisphaericaexon
TCONS_00071916-exon-scaffold_65-1491911889:79593..80716TCONS_00071916-exon-scaffold_65-1491911889:79593..80716Clytia hemisphaericaexon
TCONS_00071916-exon-scaffold_65-1510915933:79593..80716TCONS_00071916-exon-scaffold_65-1510915933:79593..80716Clytia hemisphaericaexon
TCONS_00071916-exon-scaffold_65-1575043694:79593..80716TCONS_00071916-exon-scaffold_65-1575043694:79593..80716Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
scaffold_65supercontigscaffold_65:78869..80716 +
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
59.1352	50.0051	20.2102	19.6504	25.9018	21.4184	19.4393	20.6681	18.1517	17.0801	18.0643	18.4644	22.3132	27.8453	28.8639	28.4344	38.7787	41.5641	11.865	12.1236	22.6026	22.693	49.1397	42.1056	23.0755	24.9305	10.4142	12.7013	26.699	31.431
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR001865Ribosomal_S2
IPR005706Ribosomal_S2_bac/mit/plastid
IPR018130Ribosomal_S2_CS
IPR023591Ribosomal_S2_flav_dom
Vocabulary: Cellular Component
TermDefinition
GO:0005840ribosome
GO:0005622intracellular
GO:0015935small ribosomal subunit
Vocabulary: Biological Process
TermDefinition
GO:0006412translation
Vocabulary: Molecular Function
TermDefinition
GO:0003735structural constituent of ribosome
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
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BLAST of TCONS_00071916 vs. Swiss-Prot (Human)
Match: RT02 (28S ribosomal protein S2, mitochondrial OS=Homo sapiens GN=MRPS2 PE=1 SV=1)

HSP 1 Score: 187.963 bits (476), Expect = 4.017e-55
Identity = 95/218 (43.58%), Postives = 137/218 (62.84%), Query Frame = 2 
Query:   32 PMDHDDYFNVKSLVDMKEMFDARVHLGHHEGTWDPLTRPYIHGMRSTQYIIDLEKSVECLQCALNVLSHIVYQKGIVLFITTNPRFDHLIQKTARNSGEYFITRAWHKGLFNNASTMLG-TDRLPDLIISFN--NSRFERVREAITEAAMCNIPVIGLIDTDCDPRLVTYPVPGNDDTLDSMKYFCTIFEKTILNAKQRLTKDEGVEQETSVDKTNDE 676
            P+ H D+FNVK L  ++ +FDARVHLGH  G       PYI G R    IIDLE++   LQ ALN  +H+ Y+KGI+LFI+ N +F +LI+  AR+ GEY  TR +  G+  NA  + G T RLPDLII  +  N+ FE    A+ +AA  NIP +G++DT+C+P L+TYPVPGNDD+  ++  +C +F+  I  AK++  + E + +     +  D+
Sbjct:   66 PLKHSDFFNVKELFSVRSLFDARVHLGHKAGCRHRFMEPYIFGSRLDHDIIDLEQTATHLQLALNFTAHMAYRKGIILFISRNRQFSYLIENMARDCGEYAHTRYFRGGMLTNARLLFGPTVRLPDLIIFLHTLNNIFE-PHVAVRDAAKMNIPTVGIVDTNCNPCLITYPVPGNDDSPLAVHLYCRLFQTAITRAKEKRQQVEALYRLQGQKEPGDQ 282
The following BLAST results are available for this feature:
BLAST of TCONS_00071916 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
RT024.017e-5543.5828S ribosomal protein S2, mitochondrial OS=Homo sa... [more]
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