TCONS_00010350 (transcript) - C. hemisphaerica

Overview
NameTCONS_00010350
Unique NameTCONS_00010350
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length739

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00010350 ID=TCONS_00010350|Name=TCONS_00010350|organism=Clytia hemisphaerica|type=transcript|length=739bp
TCGTGGTTAGGCTACCTGCCTTATGATAGTACAATTTATTATTATTTgta
tccaaaaaactttttaaatttctacAGTATAtaactcttttttttcaaaa
taagatcAAAATGAGACCCTTAACAGAAGAAGAAACAAAGGttgtctttg
aaaaattgactaaatACATTGGAGAGAATGTGAAATGTCTAATCGACAGA
CCAGATGGGCTATACTGCTTTCGGTTGCACAAAGATAGAATATATTATGT
CAAAGAAGATATTATGAAGAAAGCTACTAATATAGGACGACCAAATTTGA
TATCTCTTGGTACCTGTTTTGGTAAATACACTAAAGCTGGTAATTTCAAG
CTTTTAATCACAGCATTAGACTTTCTTGCTCCCTACGCTAAATATAAGGT
ATGGGTGAAGCCAAGCTCTGAGCAATCCTATTTATATGGAcataatgttt
tgaaaagtggACTTGGTCGTATCACTGATAATACACCACAGTATCAAGGA
GTTGTTATATATTCAATGGGTGATATTCCACTTGGGTTTGGGGCAACCGC
AAGAAGTACGCAACAATGCCGACATGCAGATGCTTCAGATGTTGTTTGCT
TTCACCAAACAGATATTGGAGAATATTTACGTAGTGAAAATACTCTTTTG
TAACAATTTCTTCTGTGTACAATGGAATTTCATCTTTacgcaaaaaataa
aaacaagaaaaagccatgatgtgtttttttattgtcttt
Run BLAST on NCBI

protein sequence of TCONS_00010350-protein

>TCONS_00010350-protein ID=TCONS_00010350-protein|Name=TCONS_00010350-protein|organism=Clytia hemisphaerica|type=polypeptide|length=180bp
MRPLTEEETKVVFEKLTKYIGENVKCLIDRPDGLYCFRLHKDRIYYVKED
IMKKATNIGRPNLISLGTCFGKYTKAGNFKLLITALDFLAPYAKYKVWVK
PSSEQSYLYGHNVLKSGLGRITDNTPQYQGVVIYSMGDIPLGFGATARST
QQCRHADASDVVCFHQTDIGEYLRSENTLL
Run BLAST on NCBI

transcript from alignment at sc0000104:216817..217555

Legend: exonthree_prime_UTRCDSfive_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00010350 ID=TCONS_00010350|Name=TCONS_00010350|organism=Clytia hemisphaerica|type=transcript|length=739bp|location=Sequence derived from alignment at sc0000104:216817..217555 (Clytia hemisphaerica)
aaagacaataaaaaaacacatcatggctttttcttgtttttattttttgc
gtAAAGATGAAATTCCATTGTACACAGAAGAAATTGTTACAAAAGAGTAT
TTTCACTACGTAAATATTCTCCAATATCTGTTTGGTGAAAGCAAACAACA
TCTGAAGCATCTGCATGTCGGCATTGTTGCGTACTTCTTGCGGTTGCCCC
AAACCCAAGTGGAATATCACCCATTGAATATATAACAACTCCTTGATACT
GTGGTGTATTATCAGTGATACGACCAAGTccacttttcaaaacattatgT
CCATATAAATAGGATTGCTCAGAGCTTGGCTTCACCCATACCTTATATTT
AGCGTAGGGAGCAAGAAAGTCTAATGCTGTGATTAAAAGCTTGAAATTAC
CAGCTTTAGTGTATTTACCAAAACAGGTACCAAGAGATATCAAATTTGGT
CGTCCTATATTAGTAGCTTTCTTCATAATATCTTCTTTGACATAATATAT
TCTATCTTTGTGCAACCGAAAGCAGTATAGCCCATCTGGTCTGTCGATTA
GACATTTCACATTCTCTCCAATGTatttagtcaatttttcaaagacaaCC
TTTGTTTCTTCTTCTGTTAAGGGTCTCATTTTgatcttattttgaaaaaa
aagagttaTATACTgtagaaatttaaaaagttttttggatacAAATAATA
ATAAATTGTACTATCATAAGGCAGGTAGCCTAACCACGA

Coding sequence (CDS) from alignment at sc0000104:216817..217555

>TCONS_00010350 ID=TCONS_00010350|Name=TCONS_00010350|organism=Clytia hemisphaerica|type=CDS|length=543bp|location=Sequence derived from alignment at sc0000104:216817..217555 (Clytia hemisphaerica)
TTACAAAAGAGTATTTTCACTACGTAAATATTCTCCAATATCTGTTTGGT
GAAAGCAAACAACATCTGAAGCATCTGCATGTCGGCATTGTTGCGTACTT
CTTGCGGTTGCCCCAAACCCAAGTGGAATATCACCCATTGAATATATAAC
AACTCCTTGATACTGTGGTGTATTATCAGTGATACGACCAAGTccacttt
tcaaaacattatgTCCATATAAATAGGATTGCTCAGAGCTTGGCTTCACC
CATACCTTATATTTAGCGTAGGGAGCAAGAAAGTCTAATGCTGTGATTAA
AAGCTTGAAATTACCAGCTTTAGTGTATTTACCAAAACAGGTACCAAGAG
ATATCAAATTTGGTCGTCCTATATTAGTAGCTTTCTTCATAATATCTTCT
TTGACATAATATATTCTATCTTTGTGCAACCGAAAGCAGTATAGCCCATC
TGGTCTGTCGATTAGACATTTCACATTCTCTCCAATGTatttagtcaatt
tttcaaagacaaCCTTTGTTTCTTCTTCTGTTAAGGGTCTCAT
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_005809XLOC_005809Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00010350-proteinTCONS_00010350-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00010350-exon-sc0000104-1491911889:216817..217555TCONS_00010350-exon-sc0000104-1491911889:216817..217555Clytia hemisphaericaexon
TCONS_00010350-exon-sc0000104-1510915933:216817..217555TCONS_00010350-exon-sc0000104-1510915933:216817..217555Clytia hemisphaericaexon
TCONS_00010350-exon-sc0000104-1575043694:216817..217555TCONS_00010350-exon-sc0000104-1575043694:216817..217555Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0000104supercontigsc0000104:216817..217555 .
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
70.5539	57.3778	54.7976	52.721	64.1828	50.7181	52.0668	56.6401	72.5975	52.9621	67.6827	67.3175	71.4977	83.4515	77.693	68.4878	59.6981	65.3091	36.077	32.9864	79.7357	73.0178	144.062	131.392	69.2104	81.9092	49.6567	49.6644	70.5824	78.4979
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR002478PUA
IPR016686Ribosomal_synth_fac_NIP7
IPR015947PUA-like_domain
Vocabulary: Molecular Function
TermDefinition
GO:0003723RNA binding
Vocabulary: Biological Process
TermDefinition
GO:0042255ribosome assembly
Vocabulary: Cellular Component
TermDefinition
GO:0005634nucleus
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0042255 ribosome assembly
cellular_component GO:0005634 nucleus
molecular_function GO:0003723 RNA binding
Blast
[Close]
BLAST of TCONS_00010350 vs. Swiss-Prot (Human)
Match: NIP7 (60S ribosome subunit biogenesis protein NIP7 homolog OS=Homo sapiens GN=NIP7 PE=1 SV=1)

HSP 1 Score: 280.411 bits (716), Expect = 4.850e-95
Identity = 126/179 (70.39%), Postives = 148/179 (82.68%), Query Frame = 3 
Query:  111 MRPLTEEETKVVFEKLTKYIGENVKCLIDRPDGLYCFRLHKDRIYYVKEDIMKKATNIGRPNLISLGTCFGKYTKAGNFKLLITALDFLAPYAKYKVWVKPSSEQSYLYGHNVLKSGLGRITDNTPQYQGVVIYSMGDIPLGFGATARSTQQCRHADASDVVCFHQTDIGEYLRSENTL 647
            MRPLTEEET+V+FEK+ KYIGEN++ L+DRPDG YCFRLH DR+YYV E IMK A NI    L+SLGTCFGK+TK   F+L +TALD+LAPYAKYKVW+KP +EQS+LYG++VLKSGLGRIT+NT QYQGVV+YSM DIPLGFG  A+STQ CR  D   +V FHQ DIGEY+R E TL
Sbjct:    1 MRPLTEEETRVMFEKIAKYIGENLQLLVDRPDGTYCFRLHNDRVYYVSEKIMKLAANISGDKLVSLGTCFGKFTKTHKFRLHVTALDYLAPYAKYKVWIKPGAEQSFLYGNHVLKSGLGRITENTSQYQGVVVYSMADIPLGFGVAAKSTQDCRKVDPMAIVVFHQADIGEYVRHEETL 179
The following BLAST results are available for this feature:
BLAST of TCONS_00010350 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
NIP74.850e-9570.3960S ribosome subunit biogenesis protein NIP7 homol... [more]
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