TCONS_00005971 (transcript) - C. hemisphaerica

Overview
NameTCONS_00005971
Unique NameTCONS_00005971
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length743

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00005971 ID=TCONS_00005971|Name=TCONS_00005971|organism=Clytia hemisphaerica|type=transcript|length=743bp
CTCTCGATCTAAATAATCTCCCTCCAATTACGAAAGTCTACGATGAATCT
TTAGAAATCCCATCTGGAATTATAACCAAAGACGAACTTGATTCTGCTAT
TGATCaaatgaaaattggaaaagcgCCAGGTTTAGATGGACTCCCTCCTG
AATTCTGGAAAATGAAGAATGTTCGCCACATCCTCCTTAAATTCTGTATC
GAAACTTTTCTTGGCGATCGCCCTGATGAGTGGGGAATTTCGACTCTTAT
TCCAATACCAAAGAAAGGTGATCTTACAAAACCTGATAATTATCGTGGTA
TCGCCCTCTCGCAAATTGCCTCTAAAGTATATAATCGTATTATACTGAAT
CGCATTCGTCCTGTTGTTGACAAGCTTTTACGCCCAAATCAAAATGGATT
CCGTGAAGGTCGATCTACCTCTGCCCATGTGCTTGCTTTACGTAGGATCG
TAGAAGAacttaaaaatcacaaaaaagagGCAGTCATTTCGTTCATCGAT
TTTTGCAAAGCATTTGACTCTATCAATCGTGACCGTATGTTCCAAATTCT
CCAAGCCTATGGTATTCCTGAAACTGTAGTCAATGCCATTAAAGTAATGT
ACCGAAATACTTCTGCCACGGTTACAACCCCAGAAGGACAAACTGATCCT
TTCGTAATCAGTACTGGCGTTCTTCAAGGAGACCCTTTAGCACCTTTTCT
CTTTATAATCGTTCTGGACTACGCTCTTCAATCCTCAATCACC
Run BLAST on NCBI

protein sequence of TCONS_00005971-protein

>TCONS_00005971-protein ID=TCONS_00005971-protein|Name=TCONS_00005971-protein|organism=Clytia hemisphaerica|type=polypeptide|length=247bp
LDLNNLPPITKVYDESLEIPSGIITKDELDSAIDQMKIGKAPGLDGLPPE
FWKMKNVRHILLKFCIETFLGDRPDEWGISTLIPIPKKGDLTKPDNYRGI
ALSQIASKVYNRIILNRIRPVVDKLLRPNQNGFREGRSTSAHVLALRRIV
EELKNHKKEAVISFIDFCKAFDSINRDRMFQILQAYGIPETVVNAIKVMY
RNTSATVTTPEGQTDPFVISTGVLQGDPLAPFLFIIVLDYALQSSIT
Run BLAST on NCBI

transcript from alignment at sc0000061:466523..467265

Legend: exonCDSfive_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00005971 ID=TCONS_00005971|Name=TCONS_00005971|organism=Clytia hemisphaerica|type=transcript|length=743bp|location=Sequence derived from alignment at sc0000061:466523..467265 (Clytia hemisphaerica)
GGTGATTGAGGATTGAAGAGCGTAGTCCAGAACGATTATAAAGAGAAAAG
GTGCTAAAGGGTCTCCTTGAAGAACGCCAGTACTGATTACGAAAGGATCA
GTTTGTCCTTCTGGGGTTGTAACCGTGGCAGAAGTATTTCGGTACATTAC
TTTAATGGCATTGACTACAGTTTCAGGAATACCATAGGCTTGGAGAATTT
GGAACATACGGTCACGATTGATAGAGTCAAATGCTTTGCAAAAATCGATG
AACGAAATGACTGCctcttttttgtgatttttaagtTCTTCTACGATCCT
ACGTAAAGCAAGCACATGGGCAGAGGTAGATCGACCTTCACGGAATCCAT
TTTGATTTGGGCGTAAAAGCTTGTCAACAACAGGACGAATGCGATTCAGT
ATAATACGATTATATACTTTAGAGGCAATTTGCGAGAGGGCGATACCACG
ATAATTATCAGGTTTTGTAAGATCACCTTTCTTTGGTATTGGAATAAGAG
TCGAAATTCCCCACTCATCAGGGCGATCGCCAAGAAAAGTTTCGATACAG
AATTTAAGGAGGATGTGGCGAACATTCTTCATTTTCCAGAATTCAGGAGG
GAGTCCATCTAAACCTGGcgcttttccaattttcatttGATCAATAGCAG
AATCAAGTTCGTCTTTGGTTATAATTCCAGATGGGATTTCTAAAGATTCA
TCGTAGACTTTCGTAATTGGAGGGAGATTATTTAGATCGAGAG

Coding sequence (CDS) from alignment at sc0000061:466523..467265

>TCONS_00005971 ID=TCONS_00005971|Name=TCONS_00005971|organism=Clytia hemisphaerica|type=CDS|length=741bp|location=Sequence derived from alignment at sc0000061:466523..467265 (Clytia hemisphaerica)
GGTGATTGAGGATTGAAGAGCGTAGTCCAGAACGATTATAAAGAGAAAAG
GTGCTAAAGGGTCTCCTTGAAGAACGCCAGTACTGATTACGAAAGGATCA
GTTTGTCCTTCTGGGGTTGTAACCGTGGCAGAAGTATTTCGGTACATTAC
TTTAATGGCATTGACTACAGTTTCAGGAATACCATAGGCTTGGAGAATTT
GGAACATACGGTCACGATTGATAGAGTCAAATGCTTTGCAAAAATCGATG
AACGAAATGACTGCctcttttttgtgatttttaagtTCTTCTACGATCCT
ACGTAAAGCAAGCACATGGGCAGAGGTAGATCGACCTTCACGGAATCCAT
TTTGATTTGGGCGTAAAAGCTTGTCAACAACAGGACGAATGCGATTCAGT
ATAATACGATTATATACTTTAGAGGCAATTTGCGAGAGGGCGATACCACG
ATAATTATCAGGTTTTGTAAGATCACCTTTCTTTGGTATTGGAATAAGAG
TCGAAATTCCCCACTCATCAGGGCGATCGCCAAGAAAAGTTTCGATACAG
AATTTAAGGAGGATGTGGCGAACATTCTTCATTTTCCAGAATTCAGGAGG
GAGTCCATCTAAACCTGGcgcttttccaattttcatttGATCAATAGCAG
AATCAAGTTCGTCTTTGGTTATAATTCCAGATGGGATTTCTAAAGATTCA
TCGTAGACTTTCGTAATTGGAGGGAGATTATTTAGATCGAG
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_003404XLOC_003404Clytia hemisphaericagene
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00005971-exon-sc0000061-1491911889:466523..467265TCONS_00005971-exon-sc0000061-1491911889:466523..467265Clytia hemisphaericaexon
TCONS_00005971-exon-sc0000061-1510915933:466523..467265TCONS_00005971-exon-sc0000061-1510915933:466523..467265Clytia hemisphaericaexon
TCONS_00005971-exon-sc0000061-1575043694:466523..467265TCONS_00005971-exon-sc0000061-1575043694:466523..467265Clytia hemisphaericaexon
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00005971-proteinTCONS_00005971-proteinClytia hemisphaericapolypeptide
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0000061supercontigsc0000061:466523..467265 .
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
1.39519	1.49011	2.33195	2.42864	0.17919	0.495594	0.427081	0.71969	0.559858	0.624127	0.673103	0.398224	0.839527	0.458872	0.414981	0.76922	0.448871	0.869037	0.706248	1.25636	0.899301	0.751967	0.609409	0.554042	0.285325	0.509291	1.27539	1.45835	0.368703	0.525911
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR000477RT_dom
Blast
[Close]
BLAST of TCONS_00005971 vs. Swiss-Prot (Human)
Match: LORF2 (LINE-1 retrotransposable element ORF2 protein OS=Homo sapiens PE=1 SV=1)

HSP 1 Score: 107.071 bits (266), Expect = 1.496e-25
Identity = 80/246 (32.52%), Postives = 127/246 (51.63%), Query Frame = 3 
Query:    3 LDLNNLPPITKVYDESLEIPSGIITKDELDSAIDQMKIGKAPGLDGLPPEFWKMKNVRHILLKFCIETFL-----GDRPDEWGISTLIPIPKKG-DLTKPDNYRGIALSQIASKVYNRIILNRIRPVVDKLLRPNQNGFREGRSTSAHVLALRRIVEELKNHK-KEAVISFIDFCKAFDSINRDRMFQILQAYGIPETVVNAIKVMYRNTSATVTTPEGQTDPFVISTGVLQGDPLAPFLFIIVLD 719
            LD   LP + +   ESL  P   IT  E+ + I+ +   K+PG DG   EF++    +  L+ F ++ F      G  P+ +  +++I IPK G D TK +N+R I+L  I +K+ N+I+ NRI+  + KL+  +Q GF  G     ++     +++ +   K K  VI  ID  KAFD I +  M + L   GI    +  I+ +Y   +A +     + + F + TG  QG PL+P LF IVL+
Sbjct:  433 LDTYTLPRLNQEEVESLNRP---ITGSEIVAIINSLPTKKSPGPDGFTAEFYQ--RYKEELVPFLLKLFQSIEKEGILPNSFYEASIILIPKPGRDTTKKENFRPISLMNIDAKILNKILANRIQQHIKKLIHHDQVGFIPGMQGWFNIRKSINVIQHINRAKDKNHVIISIDAEKAFDKIQQPFMLKTLNKLGIDGMYLKIIRAIYDKPTANIILNGQKLEAFPLKTGTRQGCPLSPLLFNIVLE 673
The following BLAST results are available for this feature:
BLAST of TCONS_00005971 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
LORF21.496e-2532.52LINE-1 retrotransposable element ORF2 protein OS=H... [more]
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