TCONS_00024028 (transcript) - C. hemisphaerica

Overview
NameTCONS_00024028
Unique NameTCONS_00024028
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1261

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00024028 ID=TCONS_00024028|Name=TCONS_00024028|organism=Clytia hemisphaerica|type=transcript|length=1261bp
CAAACTTCGACCTACCCCCACCTTTTGACGGGTGCCGTTGTATAGTGGCA
GTCAACCTCGGCTTCCGTGCAGGCGGCCAGGGTTcaattcccactcacgg
cagttcacttggcaagtgaacgttccttcgtccgggtcaacccatgccat
gtgaggggaattgggtagtcagttcaaggtgctgacaggacgctcattag
taaagGTGGTAGTAAAAGGTGCCGTGGTATAttggtagtcgaccttggct
tctgtgcaggaggccagggttcgattcccactcacggcagttcacttggc
aagtgaacgttccttcgcccgggtcaacccatgccaNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNaattgggtagtcag
ttcaaggtgctgacgggacgctcattagtaagcgtctatagttgcgagaa
taggcctctaaagcctcctgcaactcaaccaaatagaattGTAACAAATT
AACATTATTATTGATTTATCTCATTTTTCTTTCAGCGATTAATATTTTAG
GTTTAAAGACAACCTGATATGACATGTCAACTAAAGTTTTTTTGCTAGca
gctttctttttttctcacatATTCACTGGAGTTCATTTATCTAAACCTTG
TCCAAAACAATGTTCTTGTCACTCTTCATGGCTTCGTGGTGTTTCCAGTG
TAGTTGTTGACTGCTCAAAACGTGGTTTGACTTCAATTCCAACAAAAGGC
GTTTCTAGATACGTCACTTCTTTagtTTTGAATGACAATTTGATAACAAA
AATTCCAAGAAATGCTTTCAAAAGATATAGATATTTGCGAGAAATATATC
TATACAAAAACTTTATTGCTTCTATTCATCCCCAAGCATTTAGAGGACTA
AGAAGACTCAAAGAACTttCCTTGCATTCGAACCAATTATCAGTTATAGA
AAATGGAACTTTTGCAGGCCTTAGAAGACTTGATAGATTGTACTTATTTA
CTAATTTACTTCAAGGAATAAATAATGGTGTCTTTCAAGGGCTCGCCAAT
CTAAAAACATTGTATTTACATGAGAACTTGTTACGCTCAATTCCTCCaca
atctttcaaagaattgaagaaacTTAATTTACTAACATTACATAGAAACC
ACATACAAGTGCTTCATACTGGATCAATGGAAGGATTACATTCCGTCACA
TCAATATTTCTACATCAGAACAAAATTCGTAAAGTGGAGAATAATGCATT
TGCTGGTTGTA
Run BLAST on NCBI

transcript from alignment at sc0000471:25441..31389+

Legend: exon
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00024028 ID=TCONS_00024028|Name=TCONS_00024028|organism=Clytia hemisphaerica|type=transcript|length=5949bp|location=Sequence derived from alignment at sc0000471:25441..31389+ (Clytia hemisphaerica)
CAAACTTCGACCTACCCCCACCTTTTGACGGGTGCCGTTGTATAGTGGCA
GTCAACCTCGGCTTCCGTGCAGGCGGCCAGGGTTcaattcccactcacgg
cagttcacttggcaagtgaacgttccttcgtccgggtcaacccatgccat
gtgaggggaattgggtagtcagttcaaggtgctgacaggacgctcattag
taaagGTGGTAGTAAAAGGTGCCGTGGTATAttggtagtcgaccttggct
tctgtgcaggaggccagggttcgattcccactcacggcagttcacttggc
aagtgaacgttccttcgcccgggtcaacccatgccaNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNaattgggtagtcag
ttcaaggtgctgacgggacgctcattagtaagcgtctatagttgcgagaa
taggcctctaaagcctcctgcaactcaaccaaatagaattGTAACAAATT
AACATTATTATTGATTTATCTCATTTTTCTTTCAGCGATTAATATTTTAG
GTTTAAAGACAACCTGATATGACATGTCAACTAAAGTTTTTTTGCTAGca
gctttctttttttctcacatATTCACTGGAGTTCATTTATCTAAACCTTG
TCCAAAACAATGTTCTTGTCACTCTTCATGGCTTCGTGGTGTTTCCAGTG
TAGTTGTTGACTGCTCAAAACGTGGTTTGACTTCAATTCCAACAAAAGGC
GTTTCTAGATACGTCACTTCTTTGTAAGTACAACACTGAcgactaaaaaa
attaaaaatcattatTAATATTAACTTAATTATTTTACTTCTTtcctctt
ttttattttagagtTTTGAATGACAATTTGATAACAAAAATTCCAAGAAA
TGCTTTCAAAAGATATAGATATTTGCGAGAAATGTAAGGGAATATTTAGG
AATCTTACAATTCGGCAAAGATTACCTTTAAAGTTGATTTGCTTGTAATA
TCATGGTACCTATattaaaacctgatctggataCTTTTTGTTTCTGTTAG
GTTGAACCgaaacttaggcaaaaatagtgGTTTGTTCATTCTTTGATCAT
GTGATCGAATGTGTAATAAACCAAAtgcaatgaaataaaaattgaagggt
cacatgatcaaaaactgagcataaagatttttaaattttgtttaaaaagt
taCAACAATTGAATACCTGGATCAGAATCTTCATGTTTTGAATTTGGTGT
ATTATCTCAACTTACCAGGATAAAATGAAATAGATTATAGAGATTTCTTT
ATGCAACAATTAGAAATCTTTTCTATTAAATATTTAtgaatcaaaaaaaa
ctttcttgccATATCCGTTTTCATTATCTTATTTTCAGATATCTATACAA
AAACTTTATTGCTTCTATTCATCCCCAAGCATTTAGAGGACTAAGAAGAC
TCAAAGAACTGTAAGAATGGGCTGTTTCATTTAATTTCTATTCAAGGGAG
GAGATGGACAaaccttttcaaataaaaaaataatacttaATTTGTATACC
CCctagaaaaataacaaaattttcaaaaaactgttagaaaaaatattttt
cctcttggaaaattctttctcatactttaaaaatgagaatggacaaaatc
ttataaaattAACAAACTTTTCATTGCACCTGTGGAAAAAGGGGTATTTC
TTTGTCATTCTTTGTCACCTAAACATGACTCAAACCAAAAATGCATCCCT
GACTGATCCTAGACTTCTCGAAAATTCTCTTTCGATTACCTCCACTTGTT
TAGCTGATAtgtaatgaatgaaaataaagattttaatCTTTGATCTCATT
TCGTCATCTCTTTTCATATCGTGACTATTAGTTGACGTGCAAATATAACT
ATTTAGTGTATAATTTTAGATATTATTACTACTAAGTTTTATTGAtttga
atatgtttttctttttctagttCCTTGCATTCGAACCAATTATCAGTTAT
AGAAAATGGAACTTTTGCAGGCCTTAGAAGACTTGATAGATTGTAAGTGA
AAATAGCTATAATTTTACATTAAATTCATACCTACGTGTGcttctttttc
aaataaaatcttaataagacacaaaaatatatttttaaaacccaaagaaa
atttccttttaaatttagaaaatatttttctttattgtaGGTCATATCCT
ACTGTATGCTTTATTTTGCATAATCACTTGTGTGAAAATGATATagcaca
attattgaagaagaattttcttcttcttcattttcaatctttattttccg
atcttttttgagttttttctttatgcAAATATCCcactcctgtttgtttt
ttcaacgagcacaaaattattgaattattattattacttaatttaaattc
tatcaaaagttattgaggtttgaaaaaatactgCCACCTAATTTGAAATA
TAGACTTTAATAGACATCACATGTAGGTAGAGCAAATTAGTTCTACCCAA
ACCTGGTCATACCAAAGAGTTCAAAAAATGATCCTTGATGTATCTCTGCT
TGATACTTTGTACTTAAAGAGAAGGGTTTAGGTTTATTGTTGAAATCCAG
GTAAAGGAGTAGTACCCTCCTCTATGTCGAGTAGAaatctgagaaaaaaa
aggttttcattTGACTGCAGTAGCCAAACAAACTTACTGATAGACAGGAC
TCTAGTAATGATCCAAATTTTATTATATTCTTCTAGGTACTTATTTACTA
ATTTACTTCAAGGAATAAATAATGGTGTCTTTCAAGGGCTCGCCAATCTA
AAAACATTGTAAGTTTTATAAACTTTATACTTTCtggtaaatatttttct
aaactcTAAATGtagtttttttgataaaaaaacacaagaaaTGTTTCTTT
AATGTTTGATAGCCTAACAATAAAGCTCATCActatacagtggaacctct
gaTAAGAGACCGATTAATTTCCGTTAATCAGAGTTGTTCTCTTTGATGGG
TTTTGAATTTATGGTCTCAAACTTGGGAATTTAATCATTCTATATAATGA
GGCCCccagtcacctttcaaagcAAGCAATCAgtcaataaaaatttccaa
atcacgttatcacgagttataattttctttttctaacgATCACGTTGGTT
CCTCCGATCATGCAATCACGCACTTTAAGGTCTTATATCACAAAATCACG
AACTTGAAAAATCGGCAATAACACCATCACGAAAACTGCTGGGGGGCTCA
TATATTGCAAATATAAGAGTACGGTTTTAGGCAATTTCTTCAAAACACAG
GGAAAAGACACGAGAAAGAAATTCCTTTCAATGCATCAAACCATACTGTA
TAttgttaaaaaagtttaaaaacaactaaaaataTGGCCCAGAAAAGCTA
TTTGACTGGGCAAAGGATAAGCTGATGATTTTTGAAGTACTTTtggaaaa
gcaaaacaaaaagtcAAGAATTGATGGTTTAAAAAGAGACATAACTGTAT
TTTTATATCAGAATGTAATTTAACCTTCGATGTCCGCTAattaaaggaaa
aaattaaaggggtttaattatttttttgcaaatataTTTGCCCTTAAATG
GAGGTGTCTATTAATATAATGTCATTATTTGACTAGAATACGGCAGGGAA
GAAATATATTGTGTTTGCTAAATAAAGGCCTATTAATAAGGTGTCTACTA
ATTGAGATTTTACTGTGATATTATACATGTTATACTTTAACTTGCTGTAT
TTCAATAACATTGAAACCTATTCTTTCAGGTATTTACATGAGAACTTGTT
ACGCTCAATTCCTCCacaatctttcaaagaattgaagaaacTTAATTTAC
TGTAAGTTCTTCCCCAAGTGTTACCTGGAAATTCCCTATTTGGTTGTACC
TTTGAAAGAAGTTAATTAGAGTTAATAAAGTTGATGGCCAGAAAGGATTT
TTcaaagggaatttaatttgacagaTAACTTGTCTGAATCGTAGACTTCT
TTAGATATACTTCCTTTTTAATGAGCAATGGttttaaggaattttttaaa
gaataattAACTAGTTTTAAGGCACGAAATAGCACGAACTGTGTAAATTT
GGtggaattaaatttggcggctGGTGATCAAAAGTTTCGATTGTAAGTGT
AATATTGTGATTTGGGGAATAATAATCATTGTACAGTATTCATAATTTgg
aaaaaacaggtttttaacCTTCAACTCAACTTAAGCTGTTGGTTCTGATA
TTCTCCTGTTTTTTTATCCATAGAACATTACATAGAAACCACATACAAGT
GCTTCATACTGGATCAATGGAAGGATTACATTCCGTCACATCAATGTATG
TAAACATCCATATTTTTGTTTCCCTATTTCGTAAAGATTGTGAAAACTTT
GGGAAAACCTAAATTTCCGGAATCCGAAGTGTTGTCtacttttttcttaa
aatcgtaTGATTCCGCCCTGGTTGTGTTATGCATACAACCATTGGGCACT
CTTGGTGAATTGATACATGTGTGTCACTAGCCTTATGACCTCAATTTTCC
GCATAACCTAAATTTTGAAACATCATCAttgtataaagaaaaaaacacaa
ttttgcTTTAAAGAGTTTCAGCTTCATGTTTTCTCATGCTAGTTAGCTTC
ATAATTTAACAGTCTCAACATTTTACTAAACTAGAAACTTAATCTCTACA
CCTACCCACTGACCTCTTTAAAAACCTGGATTAAGCTTTATCTGCCATCT
CTGATAAGactttttttgctcaaatttagtGAGGTATCTCATGTGACATG
TATTTTTGGGAGAGAGGGTAAATATTTTGCTACCTGTTGgtattgtgtat
tttacagactggccCAAAATTGCATTTCTTTGCCCTAGGATACTGTTTCT
AGTGATTggaaaatgctattgacttgaaattttgacaaatgTTAGTAGGT
ATTGATGATACAAGCTAGCAGCAAAAATTTCATGCTGAAAATGAGCATTT
CAGGTAAaaacagaccggtctgtaaaataccaacctcTCACGtgactaat
ttgaaattttgtacgCTGTCTCAGATGGTCAATATCtatcactggtgaaa
atttcaagtaaaaaattccAGAGACCCTGAGTTCCGGCAGGTGATCAaca
tgtattttacagaccggtctgcatagtaccaaatactcatgggagcgatt
tttttctgttactagtctcttttatttgacaagtcagccttcaggaacaa
atttcagtttacattctggtctgtaaaataccaaccagaccaaaattttg
taaatcattttcaattatTCATTTCTacctggtcaaaatttcaaggtcat
agcacttgtcaatcttAAGATTTTAAGGAAGGCCTTTAGGGCCTCGACCC
CCCCAAGATGCTTCCCCTAGTAAACAAACAGGAAGCTGCTCGAAGGGTTA
AGAAACTGCATTTTAACGACAAAGCACATTAGCACATAAATTACAGTGAC
CATACAATGTTGCATAAcatttatcgaccgccggaggcggtttctttcat
agtggtacgctaatctcgtttgccctggctcattactttgtccaCCATTt
atattcgtttttttttactagattacccaggtgtttttctttcttttttc
cttgaatgtcttttatttggaattgaataatcgagacatgaaaaatgact
atattataatctaaaatgtactggagatgagaTGTAGGcattaataatgt
gcgcgcgctcttttgcgagcgtgatgcgtgatggaaggcggtcgtttcag
tgtggtttacatccacactgtgacctagtattaCAATTGATATATGTAAA
ActaattgaattaaaaaatttctcaCCTGATTTCCTCTCCTAGATTTCTA
CATCAGAACAAAATTCGTAAAGTGGAGAATAATGCATTTGCTGGTTGTA
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_013502XLOC_013502Clytia hemisphaericagene
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00024028-exon-sc0000471-1491911889:25441..26213TCONS_00024028-exon-sc0000471-1491911889:25441..26213Clytia hemisphaericaexon
TCONS_00024028-exon-sc0000471-1510915933:25441..26213TCONS_00024028-exon-sc0000471-1510915933:25441..26213Clytia hemisphaericaexon
TCONS_00024028-exon-sc0000471-1575043694:25441..26213TCONS_00024028-exon-sc0000471-1575043694:25441..26213Clytia hemisphaericaexon
TCONS_00024028-exon-sc0000471-1491911889:26302..26373TCONS_00024028-exon-sc0000471-1491911889:26302..26373Clytia hemisphaericaexon
TCONS_00024028-exon-sc0000471-1510915933:26302..26373TCONS_00024028-exon-sc0000471-1510915933:26302..26373Clytia hemisphaericaexon
TCONS_00024028-exon-sc0000471-1575043694:26302..26373TCONS_00024028-exon-sc0000471-1575043694:26302..26373Clytia hemisphaericaexon
TCONS_00024028-exon-sc0000471-1491911889:26829..26900TCONS_00024028-exon-sc0000471-1491911889:26829..26900Clytia hemisphaericaexon
TCONS_00024028-exon-sc0000471-1510915933:26829..26900TCONS_00024028-exon-sc0000471-1510915933:26829..26900Clytia hemisphaericaexon
TCONS_00024028-exon-sc0000471-1575043694:26829..26900TCONS_00024028-exon-sc0000471-1575043694:26829..26900Clytia hemisphaericaexon
TCONS_00024028-exon-sc0000471-1491911889:27411..27482TCONS_00024028-exon-sc0000471-1491911889:27411..27482Clytia hemisphaericaexon
TCONS_00024028-exon-sc0000471-1510915933:27411..27482TCONS_00024028-exon-sc0000471-1510915933:27411..27482Clytia hemisphaericaexon
TCONS_00024028-exon-sc0000471-1575043694:27411..27482TCONS_00024028-exon-sc0000471-1575043694:27411..27482Clytia hemisphaericaexon
TCONS_00024028-exon-sc0000471-1491911889:28177..28248TCONS_00024028-exon-sc0000471-1491911889:28177..28248Clytia hemisphaericaexon
TCONS_00024028-exon-sc0000471-1510915933:28177..28248TCONS_00024028-exon-sc0000471-1510915933:28177..28248Clytia hemisphaericaexon
TCONS_00024028-exon-sc0000471-1575043694:28177..28248TCONS_00024028-exon-sc0000471-1575043694:28177..28248Clytia hemisphaericaexon
TCONS_00024028-exon-sc0000471-1491911889:29220..29291TCONS_00024028-exon-sc0000471-1491911889:29220..29291Clytia hemisphaericaexon
TCONS_00024028-exon-sc0000471-1510915933:29220..29291TCONS_00024028-exon-sc0000471-1510915933:29220..29291Clytia hemisphaericaexon
TCONS_00024028-exon-sc0000471-1575043694:29220..29291TCONS_00024028-exon-sc0000471-1575043694:29220..29291Clytia hemisphaericaexon
TCONS_00024028-exon-sc0000471-1491911889:29714..29785TCONS_00024028-exon-sc0000471-1491911889:29714..29785Clytia hemisphaericaexon
TCONS_00024028-exon-sc0000471-1510915933:29714..29785TCONS_00024028-exon-sc0000471-1510915933:29714..29785Clytia hemisphaericaexon
TCONS_00024028-exon-sc0000471-1575043694:29714..29785TCONS_00024028-exon-sc0000471-1575043694:29714..29785Clytia hemisphaericaexon
TCONS_00024028-exon-sc0000471-1491911889:31334..31389TCONS_00024028-exon-sc0000471-1491911889:31334..31389Clytia hemisphaericaexon
TCONS_00024028-exon-sc0000471-1510915933:31334..31389TCONS_00024028-exon-sc0000471-1510915933:31334..31389Clytia hemisphaericaexon
TCONS_00024028-exon-sc0000471-1575043694:31334..31389TCONS_00024028-exon-sc0000471-1575043694:31334..31389Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0000471supercontigsc0000471:25441..31389 +
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
1.46644	0.933778	7.14262	7.79253	0	0	0	0	0	0	0	6.68318e-09	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1.29141e-05	0	0
Blast
[Close]
BLAST of TCONS_00024028 vs. Swiss-Prot (Human)
Match: RTN4R (Reticulon-4 receptor OS=Homo sapiens GN=RTN4R PE=1 SV=1)

HSP 1 Score: 129.798 bits (325), Expect = 5.367e-33
Identity = 73/207 (35.27%), Postives = 115/207 (55.56%), Query Frame = 1 
Query:  634 HLSKPCPKQCSCHSSWLRGVSSVVVDCSKRGLTSIPTKGVSRYVTSLVLNDNLITKIPRNAFKRYRYLREIYLYKNFIASIHPQAFRGLRRLKELSLHSN-QLSVIENGTFAGLRRLDRLYLFTNLLQGINNGVFQGLANLKTLYLHENLLRSIPPQSFKELKKLNLLTLHRNHIQVLHTGSMEGLHSVTSIFLHQNKIRKVENNAF 1251
             ++ PCP  C C++        V   C ++GL ++P  G+      + L+ N I+ +P  +F+  R L  ++L+ N +A I   AF GL  L++L L  N QL  ++  TF GL RL  L+L    LQ +  G+F+GLA L+ LYL +N L+++P  +F++L  L  L LH N I  +   +  GLHS+  + LHQN++  V  +AF
Sbjct:   22 QVAAPCPGACVCYNE-----PKVTTSCPQQGLQAVPV-GIPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAF 222
The following BLAST results are available for this feature:
BLAST of TCONS_00024028 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
RTN4R5.367e-3335.27Reticulon-4 receptor OS=Homo sapiens GN=RTN4R PE=1... [more]
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