TCONS_00072054 (transcript) - C. hemisphaerica

Overview
NameTCONS_00072054
Unique NameTCONS_00072054
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length334

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00072054 ID=TCONS_00072054|Name=TCONS_00072054|organism=Clytia hemisphaerica|type=transcript|length=334bp
GTTTACGCATATCCCCTTAATTTCTGGGTCAGTGTTAACAAGAAGGGCTA
TGATCTCAGAATACAGAACGTACAAAAGTGGGGAGAGGGGACATCCTTGC
CTGACCCCCCTTTctaataaaaaacttttacttgtcACGCCGTTAATTTT
GACGTTAGAAGATATGTTAGTATAAAGTAATTTTATCCATCTAATAAATT
TGGATCCAAATTTCATCTTATGAAgcagtttgaacaaaaaattcCAAGAT
ACCCTATCAAAAGCCTTGGTTTGGTCTAAAGAAATCATAAAAGCATCCAA
GTCCTCCCGCTGGGCGATTTCGACGCAATCCCGC
Run BLAST on NCBI

protein sequence of TCONS_00072054-protein

>TCONS_00072054-protein ID=TCONS_00072054-protein|Name=TCONS_00072054-protein|organism=Clytia hemisphaerica|type=polypeptide|length=111bp
RDCVEIAQREDLDAFMISLDQTKAFDRVSWNFLFKLLHKMKFGSKFIRWI
KLLYTNISSNVKINGVTSKSFLLERGVRQGCPLSPLLYVLYSEIIALLVN
TDPEIKGICVN
Run BLAST on NCBI

transcript from alignment at scaffold_7:73684..74017

Legend: exonfive_prime_UTRCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00072054 ID=TCONS_00072054|Name=TCONS_00072054|organism=Clytia hemisphaerica|type=transcript|length=334bp|location=Sequence derived from alignment at scaffold_7:73684..74017 (Clytia hemisphaerica)
GCGGGATTGCGTCGAAATCGCCCAGCGGGAGGACTTGGATGCTTTTATGA
TTTCTTTAGACCAAACCAAGGCTTTTGATAGGGTATCTTGgaattttttg
ttcaaactgcTTCATAAGATGAAATTTGGATCCAAATTTATTAGATGGAT
AAAATTACTTTATACTAACATATCTTCTAACGTCAAAATTAACGGCGTga
caagtaaaagttttttattagAAAGGGGGGTCAGGCAAGGATGTCCCCTC
TCCCCACTTTTGTACGTTCTGTATTCTGAGATCATAGCCCTTCTTGTTAA
CACTGACCCAGAAATTAAGGGGATATGCGTAAAC

Coding sequence (CDS) from alignment at scaffold_7:73684..74017

>TCONS_00072054 ID=TCONS_00072054|Name=TCONS_00072054|organism=Clytia hemisphaerica|type=CDS|length=333bp|location=Sequence derived from alignment at scaffold_7:73684..74017 (Clytia hemisphaerica)
CGGGATTGCGTCGAAATCGCCCAGCGGGAGGACTTGGATGCTTTTATGAT
TTCTTTAGACCAAACCAAGGCTTTTGATAGGGTATCTTGgaattttttgt
tcaaactgcTTCATAAGATGAAATTTGGATCCAAATTTATTAGATGGATA
AAATTACTTTATACTAACATATCTTCTAACGTCAAAATTAACGGCGTgac
aagtaaaagttttttattagAAAGGGGGGTCAGGCAAGGATGTCCCCTCT
CCCCACTTTTGTACGTTCTGTATTCTGAGATCATAGCCCTTCTTGTTAAC
ACTGACCCAGAAATTAAGGGGATATGCGTAAAC
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_044750XLOC_044750Clytia hemisphaericagene
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00072054-exon-scaffold_7-1491911889:73684..74017TCONS_00072054-exon-scaffold_7-1491911889:73684..74017Clytia hemisphaericaexon
TCONS_00072054-exon-scaffold_7-1510915933:73684..74017TCONS_00072054-exon-scaffold_7-1510915933:73684..74017Clytia hemisphaericaexon
TCONS_00072054-exon-scaffold_7-1575043694:73684..74017TCONS_00072054-exon-scaffold_7-1575043694:73684..74017Clytia hemisphaericaexon
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00072054-proteinTCONS_00072054-proteinClytia hemisphaericapolypeptide
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
scaffold_7supercontigscaffold_7:73684..74017 .
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
2.83817	2.4909	1.60676	0.628786	1.14823	0.302449	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1.62709	0.887559	0	0	0	0	0.315015	0
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR000477RT_dom
Blast
[Close]
BLAST of TCONS_00072054 vs. Swiss-Prot (Human)
Match: LORF2 (LINE-1 retrotransposable element ORF2 protein OS=Homo sapiens PE=1 SV=1)

HSP 1 Score: 81.6481 bits (200), Expect = 1.846e-18
Identity = 38/104 (36.54%), Postives = 66/104 (63.46%), Query Frame = -2 
Query:   10 EIAQREDLDAFMISLDQTKAFDRVSWNFLFKLLHKMKFGSKFIRWIKLLYTNISSNVKINGVTSKSFLLERGVRQGCPLSPLLYVLYSEIIALLVNTDPEIKGI 321
             I + +D +  +IS+D  KAFD++   F+ K L+K+     +++ I+ +Y   ++N+ +NG   ++F L+ G RQGCPLSPLL+ +  E++A  +  + EIKGI
Sbjct:  585 HINRAKDKNHVIISIDAEKAFDKIQQPFMLKTLNKLGIDGMYLKIIRAIYDKPTANIILNGQKLEAFPLKTGTRQGCPLSPLLFNIVLEVLARAIRQEKEIKGI 688
The following BLAST results are available for this feature:
BLAST of TCONS_00072054 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
LORF21.846e-1836.54LINE-1 retrotransposable element ORF2 protein OS=H... [more]
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