TCONS_00054291 (transcript) - C. hemisphaerica

Overview
NameTCONS_00054291
Unique NameTCONS_00054291
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1202

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00054291 ID=TCONS_00054291|Name=TCONS_00054291|organism=Clytia hemisphaerica|type=transcript|length=1202bp
tacaAGCtaacttatataaaaaaacaaaaaatgtcaatAGAAATTGGTCC
ACCCCTTGAGGAGGCGCAACTCCCAATCTACGTTCCATTTGAAGAGAAAC
ATTTTGTTGTACCTGGAGATGTAATTACAGAAGACAGCGGCTTCATGAAA
GGCCATGGAACATTTGCAGATGGCATGGAAAGACTGGCAGCATCAGTGGC
AGGCACCGTTGAGAGAGTCAACAAACTAGTGTCAGTCAAACCTTTTAAAT
CAAGATATGCTGGAGAAGTGGGGGATGTCATTGTTGGCCGAATATCAGAA
GTTGCTCAAAAGAAATGGCGAGTTGATACTAACGCTAGAATGGATTCAGT
TTTGCTTTTATCTGGTGTCAATCTACCCGGTGGTGAACTTCGTAAACGGT
CGGCTGTGGACGAGTTATTGATGAGAGATTATTTAGTGGAAGGAGATTTA
ATCGTGGCAGAAGTGCAATCTGAGTTTCAGGACGGTTCATTATCACTGCA
CACTAGAAACTTGAAATATGGTAAATTACCTCAAGGAATAATGTTTAAAG
TACCAGCTTCATTGATAAAGCGTTGTAAAACACACATGCATAACTTGCAC
TGTGGTGCCACCATTATACTTGGAAATAACGGTTATGTGTGGATTGGTCC
TGTAATGCACGATATGGACTTGTCTTTACGGGAAGTTAAACGAGAGAAAA
TCAGTAAAGTTGATAGGGAATCAATAGCAAGGTTGAGGAATTGTATAAGT
GCCATGGCAAGTCATGGAGTGTTGTTATATGATACTAGTATTACATTCGC
TTTTGAAGCATCATTGAAATATGATATCAAAGACCTATTGAAGCCAGATA
TCCAAGTTGAACTGGTGGATGCAACGAGACGAAATCTTGCACAACATTTA
TGATTCTTTTCTTGGTATCAATCTTTTGAAATCACTATCACTATTACATT
GGATAAATGGATCTGTCTATTTAGTGTCTGTTTAATCATTTGGATAAAGT
ATTGTATTGATCTTGATAATTACCAAGAAATCGAACAGTTaccgaaaata
aaaaaagtgattTCTTTGTAAATAGATAATGTTAATGGAGTTCCCTTCAC
AATCAAATCTTCATAGGTTCCTTACTTCTTGCAAAAATTGGTTCTTGTCC
CTTGAAAGAACCTCTTGGTAGCTGGGTGACTCTTCTTACGTTTACCCTTG
AC
Run BLAST on NCBI

protein sequence of TCONS_00054291-protein

>TCONS_00054291-protein ID=TCONS_00054291-protein|Name=TCONS_00054291-protein|organism=Clytia hemisphaerica|type=polypeptide|length=300bp
YKLTYIKKQKMSIEIGPPLEEAQLPIYVPFEEKHFVVPGDVITEDSGFMK
GHGTFADGMERLAASVAGTVERVNKLVSVKPFKSRYAGEVGDVIVGRISE
VAQKKWRVDTNARMDSVLLLSGVNLPGGELRKRSAVDELLMRDYLVEGDL
IVAEVQSEFQDGSLSLHTRNLKYGKLPQGIMFKVPASLIKRCKTHMHNLH
CGATIILGNNGYVWIGPVMHDMDLSLREVKREKISKVDRESIARLRNCIS
AMASHGVLLYDTSITFAFEASLKYDIKDLLKPDIQVELVDATRRNLAQHL
Run BLAST on NCBI

transcript from alignment at scaffold_242:1699481..1700936+

Legend: exonCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00054291 ID=TCONS_00054291|Name=TCONS_00054291|organism=Clytia hemisphaerica|type=transcript|length=1456bp|location=Sequence derived from alignment at scaffold_242:1699481..1700936+ (Clytia hemisphaerica)
tacaAGCtaacttatataaaaaaacaaaaaatgtcaatAGAAATTGGTCC
ACCCCTTGAGGAGGCGCAACTCCCAATCTACGTTCCATTTGAAGAGAAAC
ATTTTGTTGTACCTGGAGATGTAATTACAGAAGACAGCGGCTTCATGAAA
GGCCATGGAACATTTGCAGATGGCATGGAAAGGTATTTATTTTGATTACA
ACAATTTGatttaagaattttgaaaacatttcttcgtattttttgtttca
aaggtTTCACTATAAATATTGGGCTGTAATCTTTGTTAGATCTACACACC
ATTTAGTCCTTAGCTCTTTTTTATGCTTGTATATTGTTTTCGATTTTCTT
GATTACATTTTTATAGACTGGCAGCATCAGTGGCAGGCACCGTTGAGAGA
GTCAACAAACTAGTGTCAGTCAAACCTTTTAAATCAAGATATGCTGGAGA
AGTGGGGGATGTCATTGTTGGCCGAATATCAGAAGTTGCTCAAAAGAAAT
GGCGAGTTGATACTAACGCTAGAATGGATTCAGTTTTGCTTTTATCTGGT
GTCAATCTACCCGGTGGTGAACTTCGTAAACGGTCGGCTGTGGACGAGTT
ATTGATGAGAGATTATTTAGTGGAAGGAGATTTAATCGTGGCAGAAGTGC
AATCTGAGTTTCAGGACGGTTCATTATCACTGCACACTAGAAACTTGAAA
TATGGTAAATTACCTCAAGGAATAATGTTTAAAGTACCAGCTTCATTGAT
AAAGCGTTGTAAAACACACATGCATAACTTGCACTGTGGTGCCACCATTA
TACTTGGAAATAACGGCTATGTGTGGATTGGTNACACACATGCATAACTT
GCACTGTGGTGCCACCATTATACTTGGAAATAACGGTTATGTGTGGATTG
GTCCTGTAATGCACGATATGGACTTGTCTTTACGGGAAGTTAAACGAGAG
AAAATCAGTAAAGTTGATAGGGAATCAATAGCAAGGTTGAGGAATTGTAT
AAGTGCCATGGCAAGTCATGGAGTGTTGTTATATGATACTAGTATTACAT
TCGCTTTTGAAGCATCATTGAAATATGATATCAAAGACCTATTGAAGCCA
GATATCCAAGTTGAACTGGTGGATGCAACGAGACGAAATCTTGCACAACA
TTTATGATTCTTTTCTTGGTATCAATCTTTTGAAATCACTATCACTATTA
CATTGGATAAATGGATCTGTCTATTTAGTGTCTGTTTAATCATTTGGATA
AAGTATTGTATTGATCTTGATAATTACCAAGAAATCGAACAGTTaccgaa
aataaaaaaagtgattTCTTTGTAAATAGATAATGTTAATGGAGTTCCCT
TCACAATCAAATCTTCATAGGTTCCTTACTTCTTGCAAAAATTGGTTCTT
GTCCCTTGAAAGAACCTCTTGGTAGCTGGGTGACTCTTCTTACGTTTACC
CTTGAC

Coding sequence (CDS) from alignment at scaffold_242:1699481..1700936+

>TCONS_00054291 ID=TCONS_00054291|Name=TCONS_00054291|organism=Clytia hemisphaerica|type=CDS|length=2709bp|location=Sequence derived from alignment at scaffold_242:1699481..1700936+ (Clytia hemisphaerica)
tacaAGCtaacttatataaaaaaacaaaaaatgtcaatAGAAATTGGTCC
ACCCCTTGAGGAGGCGCAACTCCCAATCTACGTTCCATTTGAAGAGAAAC
ATTTTGTTGTACCTGGAGATGTAATTACAGAAGACAGCGGCTTCATGAAA
GGCCATGGAACATTTGCAGATGGCATGGAAAGACTGGCAGCATCAGTGGC
AGGCACCGTTGAGAGAGTCAACAAACTAGTGTCAGTCAAACCTTTTAAAT
CAAGATATGCTGGAGAAGTGGGGGATGTCATTGTTGGCCGAATATCAGAA
GTTGCTCAAAAGAAATGGCGAGTTGATACTAACGCTAGAATGGATTCAGT
TTTGCTTTTATCTGGTGTCAATCTACCCGGTGGTGAACTTCGTAAACGGT
CGGCTGTGGACGAGTTATTGATGAGAGATTATTTAGTGGAAGGAGATTTA
ATCGTGGCAGAAGTGCAATCTGAGTTTCAGGACGGTTCATTATCACTGCA
CACTAGAAACTTGAAATATGGTAAATTACCTCAAGGAATAATGTTTAAAG
TACCAGCTTCATTGATAAAGCGTTGTAAAACACACATGCATAACTTGCAC
TGTGGTGCCACCATTATACTTGGAAATAACGGTTATGTGTGGATTGGTCC
TGTAATGCACGATATGGACTTGTCTTTACGGGAAGTTAAACGAGAGAAAA
TCAGTAAAGTTGATAGGGAATCAATAGCAAGGTTGAGGAATTGTATAAGT
GCCATGGCAAGTCATGGAGTGTTGTTATATGATACTAGTATTACATTCGC
TTTTGAAGCATCATTGAAATATGATATCAAAGACCTATTGAAGCCAGATA
TCCAAGTTGAACTGGTGGATGCAACGAGACGAAATCTTGCACAACATTTA
TGAtacaAGCtaacttatataaaaaaacaaaaaatgtcaatAGAAATTGG
TCCACCCCTTGAGGAGGCGCAACTCCCAATCTACGTTCCATTTGAAGAGA
AACATTTTGTTGTACCTGGAGATGTAATTACAGAAGACAGCGGCTTCATG
AAAGGCCATGGAACATTTGCAGATGGCATGGAAAGACTGGCAGCATCAGT
GGCAGGCACCGTTGAGAGAGTCAACAAACTAGTGTCAGTCAAACCTTTTA
AATCAAGATATGCTGGAGAAGTGGGGGATGTCATTGTTGGCCGAATATCA
GAAGTTGCTCAAAAGAAATGGCGAGTTGATACTAACGCTAGAATGGATTC
AGTTTTGCTTTTATCTGGTGTCAATCTACCCGGTGGTGAACTTCGTAAAC
GGTCGGCTGTGGACGAGTTATTGATGAGAGATTATTTAGTGGAAGGAGAT
TTAATCGTGGCAGAAGTGCAATCTGAGTTTCAGGACGGTTCATTATCACT
GCACACTAGAAACTTGAAATATGGTAAATTACCTCAAGGAATAATGTTTA
AAGTACCAGCTTCATTGATAAAGCGTTGTAAAACACACATGCATAACTTG
CACTGTGGTGCCACCATTATACTTGGAAATAACGGTTATGTGTGGATTGG
TCCTGTAATGCACGATATGGACTTGTCTTTACGGGAAGTTAAACGAGAGA
AAATCAGTAAAGTTGATAGGGAATCAATAGCAAGGTTGAGGAATTGTATA
AGTGCCATGGCAAGTCATGGAGTGTTGTTATATGATACTAGTATTACATT
CGCTTTTGAAGCATCATTGAAATATGATATCAAAGACCTATTGAAGCCAG
ATATCCAAGTTGAACTGGTGGATGCAACGAGACGAAATCTTGCACAACAT
TTATGAtacaAGCtaacttatataaaaaaacaaaaaatgtcaatAGAAAT
TGGTCCACCCCTTGAGGAGGCGCAACTCCCAATCTACGTTCCATTTGAAG
AGAAACATTTTGTTGTACCTGGAGATGTAATTACAGAAGACAGCGGCTTC
ATGAAAGGCCATGGAACATTTGCAGATGGCATGGAAAGACTGGCAGCATC
AGTGGCAGGCACCGTTGAGAGAGTCAACAAACTAGTGTCAGTCAAACCTT
TTAAATCAAGATATGCTGGAGAAGTGGGGGATGTCATTGTTGGCCGAATA
TCAGAAGTTGCTCAAAAGAAATGGCGAGTTGATACTAACGCTAGAATGGA
TTCAGTTTTGCTTTTATCTGGTGTCAATCTACCCGGTGGTGAACTTCGTA
AACGGTCGGCTGTGGACGAGTTATTGATGAGAGATTATTTAGTGGAAGGA
GATTTAATCGTGGCAGAAGTGCAATCTGAGTTTCAGGACGGTTCATTATC
ACTGCACACTAGAAACTTGAAATATGGTAAATTACCTCAAGGAATAATGT
TTAAAGTACCAGCTTCATTGATAAAGCGTTGTAAAACACACATGCATAAC
TTGCACTGTGGTGCCACCATTATACTTGGAAATAACGGTTATGTGTGGAT
TGGTCCTGTAATGCACGATATGGACTTGTCTTTACGGGAAGTTAAACGAG
AGAAAATCAGTAAAGTTGATAGGGAATCAATAGCAAGGTTGAGGAATTGT
ATAAGTGCCATGGCAAGTCATGGAGTGTTGTTATATGATACTAGTATTAC
ATTCGCTTTTGAAGCATCATTGAAATATGATATCAAAGACCTATTGAAGC
CAGATATCCAAGTTGAACTGGTGGATGCAACGAGACGAAATCTTGCACAA
CATTTATGA
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_034239XLOC_034239Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00054291-proteinTCONS_00054291-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00054291-exon-scaffold_242-1491911889:1699481..1699662TCONS_00054291-exon-scaffold_242-1491911889:1699481..1699662Clytia hemisphaericaexon
TCONS_00054291-exon-scaffold_242-1510915933:1699481..1699662TCONS_00054291-exon-scaffold_242-1510915933:1699481..1699662Clytia hemisphaericaexon
TCONS_00054291-exon-scaffold_242-1575043694:1699481..1699662TCONS_00054291-exon-scaffold_242-1575043694:1699481..1699662Clytia hemisphaericaexon
TCONS_00054291-exon-scaffold_242-1491911889:1699847..1700249TCONS_00054291-exon-scaffold_242-1491911889:1699847..1700249Clytia hemisphaericaexon
TCONS_00054291-exon-scaffold_242-1510915933:1699847..1700249TCONS_00054291-exon-scaffold_242-1510915933:1699847..1700249Clytia hemisphaericaexon
TCONS_00054291-exon-scaffold_242-1575043694:1699847..1700249TCONS_00054291-exon-scaffold_242-1575043694:1699847..1700249Clytia hemisphaericaexon
TCONS_00054291-exon-scaffold_242-1491911889:1700320..1700936TCONS_00054291-exon-scaffold_242-1491911889:1700320..1700936Clytia hemisphaericaexon
TCONS_00054291-exon-scaffold_242-1510915933:1700320..1700936TCONS_00054291-exon-scaffold_242-1510915933:1700320..1700936Clytia hemisphaericaexon
TCONS_00054291-exon-scaffold_242-1575043694:1700320..1700936TCONS_00054291-exon-scaffold_242-1575043694:1700320..1700936Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
scaffold_242supercontigscaffold_242:1699481..1700936 +
Expression

Hover the mouse over a column in the graph to view expression values in transcripts per million (tpm).
Sort Descending | Sort Ascending | Only Non-Zero Values | Tile/Chart | Reset | Show/Hide Values

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
53.949	49.9609	27.1843	20.3425	23.9941	17.5518	21.5429	23.2644	20.4428	22.4501	21.1391	15.1571	21.6229	22.7271	29.5791	32.5267	33.7941	34.0331	14.3562	12.5985	23.8006	22.7464	62.5123	50.9112	19.6017	18.5553	23.5152	23.3707	38.2275	41.9376
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR025721Exosome_cplx_N_dom
IPR004088KH_dom_type_1
IPR012340NA-bd_OB-fold
Vocabulary: Molecular Function
TermDefinition
GO:0003723RNA binding
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
Category Term Accession Term Name
molecular_function GO:0003723 RNA binding
Blast
[Close]
BLAST of TCONS_00054291 vs. Swiss-Prot (Human)
Match: EXOS2 (Exosome complex component RRP4 OS=Homo sapiens GN=EXOSC2 PE=1 SV=2)

HSP 1 Score: 332.413 bits (851), Expect = 2.131e-111
Identity = 160/270 (59.26%), Postives = 209/270 (77.41%), Query Frame = 1 
Query:   94 EKHFVVPGDVITEDSGFMKGHGTFADGMERLAASVAGTVERVNKLVSVKPFKSRYAGEVGDVIVGRISEVAQKKWRVDTNARMDSVLLLSGVNLPGGELRKRSAVDELLMRDYLVEGDLIVAEVQSEFQDGSLSLHTRNLKYGKLPQGIMFKVPASLIKRCKTHMHNLHCGATIILGNNGYVWIGPV--MHDMDLSLREVKREKISKVDRESIARLRNCISAMASHGVLLYDTSITFAFEASLKYDIKDLLKPDIQVELVDATRRNLAQH 897
            +KH VVPGD IT D+GFM+GHGT+  G E+L ASVAG+VERVNKL+ VK  K+RY GEVGD++VGRI+EV QK+W+V+TN+R+DSVLLLS +NLPGGELR+RSA DEL MR +L EGDLI AEVQ+ F DG++SLHTR+LKYGKL QG++ +V  SL+KR KTH H+L CGA++ILGNNG++WI P     + +        E +S  DRE I+RLRNCI ++ +  ++LYDTSI + +EASL + IKD+LKP+I  E+V  TR+ L + 
Sbjct:   23 KKHLVVPGDTITTDTGFMRGHGTYM-GEEKLIASVAGSVERVNKLICVKALKTRYIGEVGDIVVGRITEVQQKRWKVETNSRLDSVLLLSSMNLPGGELRRRSAEDELAMRGFLQEGDLISAEVQAVFSDGAVSLHTRSLKYGKLGQGVLVQVSPSLVKRQKTHFHDLPCGASVILGNNGFIWIYPTPEHKEEEAGGFIANLEPVSLADREVISRLRNCIISLVTQRMMLYDTSILYCYEASLPHQIKDILKPEIMEEIVMETRQRLLEQ 291
The following BLAST results are available for this feature:
BLAST of TCONS_00054291 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
EXOS22.131e-11159.26Exosome complex component RRP4 OS=Homo sapiens GN=... [more]
back to top