TCONS_00040197 (transcript) - C. hemisphaerica

Overview
NameTCONS_00040197
Unique NameTCONS_00040197
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1500

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00040197 ID=TCONS_00040197|Name=TCONS_00040197|organism=Clytia hemisphaerica|type=transcript|length=1500bp
ATTTAAAGTGTGTTCTAAAGATCTTTAGCTATAGCGTTATTGATTACATC
gatatacagttgactctctctaattcgatttttgaAGGGCAGATAATCTT
CTTCGAATTTAAGAagtattcgaattacagagagtattttatatcattgt
ccagttgaggggaccaatatttcaGTTCCAAATACGGAAAGATACGAATT
gcagaagttcgaattagttAGTGAGAGATTTGACGGTATTTAACCTCCAT
GATTCAACTACACAGGGACGCCTTCCAATTTCTCTGATCATTTGTTTTGA
GACATGTTCACCTCCTCGCCATTATCTTTGTGTCCTCTTCGACGTCTCAA
AAAGATAGCCAACCCAACCAATCCAATCAAAACTAATATCGCCAACACCA
CCATTAAGATGATGAAACCAGTATCTGGAGTTGATAATTGACATTGTTGA
CCATGATAACCTTCTTTGCATTGACATGTATATCCCATTGAAACGTTACT
TATCTGACTGAATTGGTCAACAACTTGACATGTTGCATTGTTTTGGCATT
CATTGACAAAGCAGGAACTAcaatttaatttgttcttgCGGTAGAAATCT
TCCAATCTTCCAATACCATTGCACCAACCCCAAACTGTTCCATCATGGTA
ACTTTCAAAATAAGTAATTGTATAATGCATAACACAATCGCATATCAATG
GGTTGTTCTCGAGTCTCAATAGTCTGAATATTTCAGGAACAGCTGAACCA
AACCAATCTCTTCGTGCTGTTGTTATCTTattgaactgcaagtatatccA
ACTCAAAGACGGAAGATCACCAAAGACTCCAGTTTCAACAGTCGTTATAT
CATTACCAGCTAAGAATAATCGTCGTAACTTAGCTAATCCGGTAAACGTA
CCCTTTCGTAAAGTCGTCAATTTATTACCTCCTGCGTACAGATATTCTAG
TTTTGAAAGATTCTGAAAAACACGAGGTTCCAAATTTTCAATACCATTTC
TTTGAAGGAATATAGATATGATAGAATCGTACCCTTCAAAGTCcttttgt
ttaattttattaatattattgtCTTCTACATCGAGAATGGTGATGCTTGG
TATATAAAGTGATATGTTTGCAGGCAATCTGGTCAGTTGGTTTTTGTTCA
ATGTGATTCGATCAAGTTTagtgaaattaacaaaaagttcaGCTTGAAAT
TCGGTGATCAGATTACTGCTGAGACTTAAATGCACAGTTTTTTTTGTATC
CAATTGGGATGCAATATCTAGAATATCTTTGTTGGtgatattttggtttg
tacaaaACACATCGACGGCACTATGACCACGTTCCCAATAACACTTACAT
TTTGTTGGACAAGTTGTTGAACTTGATGCAAAACTGGAAACAATGCAAGC
CAATAAAATGAGAAGATGGTGGAATAGcatattcataattttgattgtca
gttatttttctttaggtttttcctgaaaatgaaaataaagtcgTTTTTAT
Run BLAST on NCBI

transcript from alignment at sc0002350:2489..3988+

Legend: exon
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00040197 ID=TCONS_00040197|Name=TCONS_00040197|organism=Clytia hemisphaerica|type=transcript|length=1500bp|location=Sequence derived from alignment at sc0002350:2489..3988+ (Clytia hemisphaerica)
ATTTAAAGTGTGTTCTAAAGATCTTTAGCTATAGCGTTATTGATTACATC
gatatacagttgactctctctaattcgatttttgaAGGGCAGATAATCTT
CTTCGAATTTAAGAagtattcgaattacagagagtattttatatcattgt
ccagttgaggggaccaatatttcaGTTCCAAATACGGAAAGATACGAATT
gcagaagttcgaattagttAGTGAGAGATTTGACGGTATTTAACCTCCAT
GATTCAACTACACAGGGACGCCTTCCAATTTCTCTGATCATTTGTTTTGA
GACATGTTCACCTCCTCGCCATTATCTTTGTGTCCTCTTCGACGTCTCAA
AAAGATAGCCAACCCAACCAATCCAATCAAAACTAATATCGCCAACACCA
CCATTAAGATGATGAAACCAGTATCTGGAGTTGATAATTGACATTGTTGA
CCATGATAACCTTCTTTGCATTGACATGTATATCCCATTGAAACGTTACT
TATCTGACTGAATTGGTCAACAACTTGACATGTTGCATTGTTTTGGCATT
CATTGACAAAGCAGGAACTAcaatttaatttgttcttgCGGTAGAAATCT
TCCAATCTTCCAATACCATTGCACCAACCCCAAACTGTTCCATCATGGTA
ACTTTCAAAATAAGTAATTGTATAATGCATAACACAATCGCATATCAATG
GGTTGTTCTCGAGTCTCAATAGTCTGAATATTTCAGGAACAGCTGAACCA
AACCAATCTCTTCGTGCTGTTGTTATCTTattgaactgcaagtatatccA
ACTCAAAGACGGAAGATCACCAAAGACTCCAGTTTCAACAGTCGTTATAT
CATTACCAGCTAAGAATAATCGTCGTAACTTAGCTAATCCGGTAAACGTA
CCCTTTCGTAAAGTCGTCAATTTATTACCTCCTGCGTACAGATATTCTAG
TTTTGAAAGATTCTGAAAAACACGAGGTTCCAAATTTTCAATACCATTTC
TTTGAAGGAATATAGATATGATAGAATCGTACCCTTCAAAGTCcttttgt
ttaattttattaatattattgtCTTCTACATCGAGAATGGTGATGCTTGG
TATATAAAGTGATATGTTTGCAGGCAATCTGGTCAGTTGGTTTTTGTTCA
ATGTGATTCGATCAAGTTTagtgaaattaacaaaaagttcaGCTTGAAAT
TCGGTGATCAGATTACTGCTGAGACTTAAATGCACAGTTTTTTTTGTATC
CAATTGGGATGCAATATCTAGAATATCTTTGTTGGtgatattttggtttg
tacaaaACACATCGACGGCACTATGACCACGTTCCCAATAACACTTACAT
TTTGTTGGACAAGTTGTTGAACTTGATGCAAAACTGGAAACAATGCAAGC
CAATAAAATGAGAAGATGGTGGAATAGcatattcataattttgattgtca
gttatttttctttaggtttttcctgaaaatgaaaataaagtcgTTTTTAT
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_024393XLOC_024393Clytia hemisphaericagene
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00040197-exon-sc0002350-1491911889:2489..3988TCONS_00040197-exon-sc0002350-1491911889:2489..3988Clytia hemisphaericaexon
TCONS_00040197-exon-sc0002350-1510915933:2489..3988TCONS_00040197-exon-sc0002350-1510915933:2489..3988Clytia hemisphaericaexon
TCONS_00040197-exon-sc0002350-1575043694:2489..3988TCONS_00040197-exon-sc0002350-1575043694:2489..3988Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0002350supercontigsc0002350:2489..3988 +
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
0.535621	0.880543	0.400961	0.358586	1.9293	1.32459	4.54982	3.22127	1.9877	0.868688	0.841832	0.989405	0.440781	0.717219	2.30005	3.61434	0	1.19901	0	0	0.16669	0	0.300938	0.30999	0	0	4.00466	0.419249	0.250763	0.618108
Blast
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BLAST of TCONS_00040197 vs. Swiss-Prot (Human)
Match: RTN4R (Reticulon-4 receptor OS=Homo sapiens GN=RTN4R PE=1 SV=1)

HSP 1 Score: 90.1225 bits (222), Expect = 3.740e-19
Identity = 72/265 (27.17%), Postives = 107/265 (40.38%), Query Frame = -2 
Query:  648 STTCPTKCKCYWERGHSAVDVFCTNQNITNKDI-LDIASQLDTKKTVHLSLSSNLITEFQAELFVNFTKLDRITLNKNQLTRLPANISLYIPSITILDVEDN-NINKIKQKDFEGYDSIISIFLQRNGIENLEPRVFQNLSKLEYLYAGGNKLTTLRKGTFTGLAKLRRLFLAGNDITTVETGVFGDLPSLSWIYLQFNKITTARRDWFG---------------SAVP-------EIFRLLRLENNPLICDCVMHYTITYFESY 1370
            +  CP  C CY E     V   C  Q +    + +  ASQ        + L  N I+   A  F     L  + L+ N L R+ A     +  +  LD+ DN  +  +    F G   + ++ L R G++ L P +F+ L+ L+YLY   N L  L   TF  L  L  LFL GN I++V    F  L SL  + L  N++       F                SA+P          + LRL +NP +CDC       + + +
Sbjct:   24 AAPCPGACVCYNE---PKVTTSCPQQGLQAVPVGIPAASQ-------RIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNPWVCDCRARPLWAWLQKF 278
The following BLAST results are available for this feature:
BLAST of TCONS_00040197 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
RTN4R3.740e-1927.17Reticulon-4 receptor OS=Homo sapiens GN=RTN4R PE=1... [more]
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