TCONS_00056049 (transcript) - C. hemisphaerica

Overview
NameTCONS_00056049
Unique NameTCONS_00056049
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1244

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00056049 ID=TCONS_00056049|Name=TCONS_00056049|organism=Clytia hemisphaerica|type=transcript|length=1244bp
tttttttttcatcaatttattTCAGCCAGCAAGTATCattgaaaagaata
aaaagactGAGATCACCATTATAAACAGATATATGATGACCTTGCAGCCA
GCCATAATTAAGTCAATCACATGACGTTTTCAAAAGATTAAAGTTTTATT
GATTAGTTCTATagaaaatggtaaataaatagtaATGGGTTGCTTAACAC
TCAGTAATTTTAAGCATTGCAAGAAGAGCTTTAAATGGAACATAAAATTA
GACAGGAAAAAAGggatttcaaaggaaaaagaaaattatgcaATAagtaa
aatgatagaatgatatcACTTCAGTTCAATCTGCTGAAGTTTATGCCCAA
ATTTGACACAAACTTTCTCAGCTATATTTGCATCCAAGCCACCGTGAAAC
TCCAAGAACAATTTCTCTACATTCTCTCCTATAATTTGATCAAGCATTGT
TTTACGATCTCCTAAAAACCACGCGATACTAATATGAAAAGAAGGTTCTG
TATAATATAGGGGTAAATTAAACTCTTTGAAGACTTGGTCAACTTTAGTA
ACAGCTTTCAATAGAGAATCAGAAGTATCAACTTTAAGGCTAACAAATGT
TCGACTTTCATCGTCATTGGTGTAAACTTCTAAACCACTTATGGAGAAAA
AGAATTTGGAATGTGAATCAAATTTCTCCTTGAGCAGCATATACATTGAA
TCCATCCAGTAATGTCGAACAGATACTGTACGAGATAATGTCAAATGACA
ATCTTTAGGTtgaaatgaatgtaatttaacgtTGATTCGACCATCAGTTT
TTAATAGCTTGATCACTTTTTCATATAAAAGTAATACGTTATTCGTCTCT
ATGAGAGGGATGAAGATATAAGACGCCCAATTTCCCTCCACGTGTTCAAA
CGTCCTTTTCCGTCCTTGATGCTTGGTCAcactgttttcattttcatttt
ttgaacctcCAAACATTCTACCAATCGATGATGGTAAAGGAAGAGTagat
ttctttttcactttcttgTGAGCAGTTTCGCTATTGGTTTCAGATTTTCT
TCGTTCTCTTGTGGTTTCATGTTCTTCCGATTCAGAACTAATTATGCCTC
TATCTTTTTGTTCTTCGGAATAactattgaattgtttttgttgtttttca
acaccattttgattttcatttgaaTTTATCTCGTCCTCATTTTCACTATC
TGAataattgaccaaatttgataacattattttaaatttttttt
Run BLAST on NCBI

protein sequence of TCONS_00056049-protein

>TCONS_00056049-protein ID=TCONS_00056049-protein|Name=TCONS_00056049-protein|organism=Clytia hemisphaerica|type=polypeptide|length=308bp
KKFKIMLSNLVNYSDSENEDEINSNENQNGVEKQQKQFNSYSEEQKDRGI
ISSESEEHETTRERRKSETNSETAHKKVKKKSTLPLPSSIGRMFGGSKNE
NENSVTKHQGRKRTFEHVEGNWASYIFIPLIETNNVLLLYEKVIKLLKTD
GRINVKLHSFQPKDCHLTLSRTVSVRHYWMDSMYMLLKEKFDSHSKFFFS
ISGLEVYTNDDESRTFVSLKVDTSDSLLKAVTKVDQVFKEFNLPLYYTEP
SFHISIAWFLGDRKTMLDQIIGENVEKLFLEFHGGLDANIAEKVCVKFGH
KLQQIELK
Run BLAST on NCBI

transcript from alignment at scaffold_266:465419..466662

Legend: exonfive_prime_UTRCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00056049 ID=TCONS_00056049|Name=TCONS_00056049|organism=Clytia hemisphaerica|type=transcript|length=1244bp|location=Sequence derived from alignment at scaffold_266:465419..466662 (Clytia hemisphaerica)
aaaaaaaatttaaaataatgttatcaaatttggtcaattatTCAGATAGT
GAAAATGAGGACGAGATAAAttcaaatgaaaatcaaaatggtgttgaaaa
acaacaaaaacaattcaatagtTATTCCGAAGAACAAAAAGATAGAGGCA
TAATTAGTTCTGAATCGGAAGAACATGAAACCACAAGAGAACGAAGAAAA
TCTGAAACCAATAGCGAAACTGCTCAcaagaaagtgaaaaagaaatctAC
TCTTCCTTTACCATCATCGATTGGTAGAATGTTTGgaggttcaaaaaatg
aaaatgaaaacagtgTGACCAAGCATCAAGGACGGAAAAGGACGTTTGAA
CACGTGGAGGGAAATTGGGCGTCTTATATCTTCATCCCTCTCATAGAGAC
GAATAACGTATTACTTTTATATGAAAAAGTGATCAAGCTATTAAAAACTG
ATGGTCGAATCAacgttaaattacattcatttcaACCTAAAGATTGTCAT
TTGACATTATCTCGTACAGTATCTGTTCGACATTACTGGATGGATTCAAT
GTATATGCTGCTCAAGGAGAAATTTGATTCACATTCCAAATTCTTTTTCT
CCATAAGTGGTTTAGAAGTTTACACCAATGACGATGAAAGTCGAACATTT
GTTAGCCTTAAAGTTGATACTTCTGATTCTCTATTGAAAGCTGTTACTAA
AGTTGACCAAGTCTTCAAAGAGTTTAATTTACCCCTATATTATACAGAAC
CTTCTTTTCATATTAGTATCGCGTGGTTTTTAGGAGATCGTAAAACAATG
CTTGATCAAATTATAGGAGAGAATGTAGAGAAATTGTTCTTGGAGTTTCA
CGGTGGCTTGGATGCAAATATAGCTGAGAAAGTTTGTGTCAAATTTGGGC
ATAAACTTCAGCAGATTGAACTGAAGTgatatcattctatcattttactT
ATtgcataattttctttttcctttgaaatccCTTTTTTCCTGTCTAATTT
TATGTTCCATTTAAAGCTCTTCTTGCAATGCTTAAAATTACTGAGTGTTA
AGCAACCCATtactatttatttaccattttctATAGAACTAATCAATAAA
ACTTTAATCTTTTGAAAACGTCATGTGATTGACTTAATTATGGCTGGCTG
CAAGGTCATCATATATCTGTTTATAATGGTGATCTCagtctttttattct
tttcaatGATACTTGCTGGCTGAaataaattgatgaaaaaaaaa

Coding sequence (CDS) from alignment at scaffold_266:465419..466662

>TCONS_00056049 ID=TCONS_00056049|Name=TCONS_00056049|organism=Clytia hemisphaerica|type=CDS|length=927bp|location=Sequence derived from alignment at scaffold_266:465419..466662 (Clytia hemisphaerica)
aaaaaatttaaaataatgttatcaaatttggtcaattatTCAGATAGTGA
AAATGAGGACGAGATAAAttcaaatgaaaatcaaaatggtgttgaaaaac
aacaaaaacaattcaatagtTATTCCGAAGAACAAAAAGATAGAGGCATA
ATTAGTTCTGAATCGGAAGAACATGAAACCACAAGAGAACGAAGAAAATC
TGAAACCAATAGCGAAACTGCTCAcaagaaagtgaaaaagaaatctACTC
TTCCTTTACCATCATCGATTGGTAGAATGTTTGgaggttcaaaaaatgaa
aatgaaaacagtgTGACCAAGCATCAAGGACGGAAAAGGACGTTTGAACA
CGTGGAGGGAAATTGGGCGTCTTATATCTTCATCCCTCTCATAGAGACGA
ATAACGTATTACTTTTATATGAAAAAGTGATCAAGCTATTAAAAACTGAT
GGTCGAATCAacgttaaattacattcatttcaACCTAAAGATTGTCATTT
GACATTATCTCGTACAGTATCTGTTCGACATTACTGGATGGATTCAATGT
ATATGCTGCTCAAGGAGAAATTTGATTCACATTCCAAATTCTTTTTCTCC
ATAAGTGGTTTAGAAGTTTACACCAATGACGATGAAAGTCGAACATTTGT
TAGCCTTAAAGTTGATACTTCTGATTCTCTATTGAAAGCTGTTACTAAAG
TTGACCAAGTCTTCAAAGAGTTTAATTTACCCCTATATTATACAGAACCT
TCTTTTCATATTAGTATCGCGTGGTTTTTAGGAGATCGTAAAACAATGCT
TGATCAAATTATAGGAGAGAATGTAGAGAAATTGTTCTTGGAGTTTCACG
GTGGCTTGGATGCAAATATAGCTGAGAAAGTTTGTGTCAAATTTGGGCAT
AAACTTCAGCAGATTGAACTGAAGTga
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_035273XLOC_035273Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00056049-proteinTCONS_00056049-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00056049-exon-scaffold_266-1491911889:465419..466662TCONS_00056049-exon-scaffold_266-1491911889:465419..466662Clytia hemisphaericaexon
TCONS_00056049-exon-scaffold_266-1510915933:465419..466662TCONS_00056049-exon-scaffold_266-1510915933:465419..466662Clytia hemisphaericaexon
TCONS_00056049-exon-scaffold_266-1575043694:465419..466662TCONS_00056049-exon-scaffold_266-1575043694:465419..466662Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
scaffold_266supercontigscaffold_266:465419..466662 .
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
8.32956	7.15326	7.29653	7.44228	1.47923	0.986263	1.63058	2.06288	0.635479	0.393572	0.902934	0.43375	0.615525	0.449828	0.992674	1.58749	1.10649	1.66162	0.364383	0.30504	0.86169	0.969928	7.97841	6.75329	0.883267	1.80651	1.17505	0.802588	4.75574	5.11669
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR027521Usb1
Vocabulary: Biological Process
TermDefinition
GO:0034477U6 snRNA 3'-end processing
Vocabulary: Molecular Function
TermDefinition
GO:0004518nuclease activity
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0034477 U6 snRNA 3'-end processing
molecular_function GO:0004518 nuclease activity
Blast
[Close]
BLAST of TCONS_00056049 vs. Swiss-Prot (Human)
Match: USB1 (U6 snRNA phosphodiesterase OS=Homo sapiens GN=USB1 PE=1 SV=1)

HSP 1 Score: 144.436 bits (363), Expect = 1.501e-39
Identity = 80/235 (34.04%), Postives = 136/235 (57.87%), Query Frame = -3 
Query:  319 KKSTLPLPSSIGRMFGGSKNENENSVTKHQGRKRTFEHVEGNWASYIFIPLIETNNVLLLYEKVIKLLKTDGRINVKLHSFQPKDCHLTLSRTVSVRHYWMDSMYMLLKEKFDSHSKFFFSISGLEVYTNDDESRTFVSLKVDTSDS-LLKAVTKVDQVFKEFNLPLYYTEPSFHISIAWFLGDRKTMLDQIIGENVEKLFLEFHGGLDANI-----AEKVCVKFGHKLQQIELK 1005
             +   P+P S+  MF G++   E+  TKH GR RTF H  GNWA+++++P       L L + ++   +T     V++  F     HL+LS++V +RH+W+      LK +  S  +FFF+ + +++YTN +++RTF+ L+V +  +  L  V++VD+V +EFNL  +Y +PSFH+S+AW +GD +  L+   G+ +++L     G  DA +      E+V  K G+K   + LK
Sbjct:   39 PRQRFPVPDSVLNMFPGTEEGPEDDSTKHGGRVRTFPHERGNWATHVYVPYEAKEEFLDLLDVLLPHAQTYVPRLVRMKVF-----HLSLSQSVVLRHHWILPFVQALKARMTSFHRFFFTANQVKIYTNQEKTRTFIGLEVTSGHAQFLDLVSEVDRVMEEFNLTTFYQDPSFHLSLAWCVGDARLQLE---GQCLQELQAIVDGFEDAEVLLRVHTEQVRCKSGNKFFSMPLK 265
The following BLAST results are available for this feature:
BLAST of TCONS_00056049 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
USB11.501e-3934.04U6 snRNA phosphodiesterase OS=Homo sapiens GN=USB1... [more]
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