TCONS_00056353 (transcript) - C. hemisphaerica

Overview
NameTCONS_00056353
Unique NameTCONS_00056353
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1054

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00056353 ID=TCONS_00056353|Name=TCONS_00056353|organism=Clytia hemisphaerica|type=transcript|length=1054bp
GTTTGATTGAACTAATTGATGAATCGATCAAATGAACCATCATGCAATGC
TTCAAGGGTTGTCTAGATAGAAATCTCCCTCCCAATCGCTCATTTCAGCA
TGCTGTCAAAAGAAATCGTTTCCATCATATCTTAACTTGACCTTCAAGAT
CAAAGGATATCAACTCgtgaaaattgttttaaaagaaGACGCACACTTGA
TGATGGTAAGTTTTCATCGTGTATCTATTGACGAAGAGCTAGAGTGATTT
CAAAGAAAAGATCTGGCGGTCTACAGATACAGAAATATTGGGTTATTTCC
CTTTTTCATTTGAACATTGGAAGACGAATTAGACGGTGACATAATCTCCA
ATTGGCTGTATTGACCTTCAAGAACGAGAACTTCCCAATACGCTAGTAAG
GAAAACTTATTGGAATACTTCTGTTAAATTGTAGTTCAGTATGGATAGTC
CTACACGCGATTCACCAACGACCGACAAACGTCACTCGACATCTCCCGTT
ACACGTCACTCCACGTCTCCCGTCAACAGTCCATCTCCTCCGTTAGAACG
TCAGAAGAAACCGTTCTCGATTGACTATCTACTTAATTTTTCACCGACAA
AAAAAACGACCCTCATCCGACAATCACCACCTGTTGAATACATCCAACCG
CCCTTCCACACTCGGCCTCCACACTTTATTAATGACCGGTTAAAAGAGCC
GGAAGACGAATCTAAAGTACCATCACCGACTTTATTGACTAACACCTCCA
GGAAAAGAGAGCTTGATCCCACCATAGAATTTCAATGGGATTTGAGCAAA
TGTTTTCTACGAAAACACAAGGCCAATCGTAAACCACGAACGCCCTTCTC
CGCCAGTCAACTTCTCACCTTGGAACAGAAATTTAAACGTAAACAATATT
TATCAATAAACGAGCGATCAGAATTAAGCGCTCAACTGAACTTAACTGAA
ACACAAATCAAAATTTGGTTTCAAAATCGTCGAGCAAAAGAAAAACGTCT
TAAAGAAGCGGAACTCGAGAAAACCggatttgaattccattgtttttgag
ccag
Run BLAST on NCBI

transcript from alignment at scaffold_273:15757..19405-

Legend: exon
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00056353 ID=TCONS_00056353|Name=TCONS_00056353|organism=Clytia hemisphaerica|type=transcript|length=3649bp|location=Sequence derived from alignment at scaffold_273:15757..19405- (Clytia hemisphaerica)
GTTTGATTGAACTAATTGATGAATCGATCAAATGAACCATCATGCAATGC
TTCAAGGGTTGTCTAGATAGAAATCTCCCTCCCAATCGCTCATTTCAGCA
TGCTGTCAAAAGAAATCGTTTCCATCATATCTTAACGTTAGTGAGCCTTT
CAAAAATTTGATTGCTCTCTATTGATCATTACAAAACCCCCGTCTTTTAA
TGAATCTTATATTCACTTAAACCCTTTTGAATGATAAGTCTTATGTTTGA
AAAACATTAAACCCTATCAGTTGACCAATCAGAATAAATATAAAAATCAG
AGAAAGAAATTTTATAGTTAAACCCTAAAGCTATCTCTATTCTTTGATAG
GGTGAAACTGTTAACCGTAGGTCGTCGAGACAATTCAGCAATTGTTTTTA
ATTGTTCATTAAGAACTCATCTTCTTATCGTTGGGGTTCAAGAATTCTTT
TATTCTTTTTATTATTCTATTGTGTGTTGATAACAATAGAGTGAATACCA
GCTTGATTAATTGCTATTCATATCTCTCTAGTTGACCTTCAAGATCAAAG
GATATCAACTCGTGAAAATTGTTTTAAAAGAAGACGCACACTTGATGATG
GTAAGTTTTCATCGTGTATCTATTGACGAAGAGCTAGAGTGATTTCAAAG
AAAAGATCTGGCGGTCTACAGATACAGAAATATTGGGTTATTTCCCTTTT
TCATTTGAACATTGGAAGACGAATTAGACGGTGACATAATCTCCAATTGG
CTGTATTGACCTTCAAGAACGAGAACTTCCCAATACGCTAGTAAGGAAAA
CTTATTGGAATACTTCTGTTAAATTGTAGTTCAGTATGGATAGTCCTACA
CGCGATTCACCAACGACCGACAAACGTCACTCGACATCTCCCGTTACACG
TCACTCCACGTCTCCCGTCAACAGTCCATCTCCTCCGTTAGAACGTCAGA
AGAAACCGTTCTCGATTGACTATCTACTTAATTTTTCACCGACAAAAAAA
ACGACCCTCATCCGACAATCACCACCTGTTGAATACATCCAACCGCCCTT
CCACACTCGGCCTCCACACTTTATTAATGACCGGTTAAAAGAGCCGGAAG
ACGAATCTAAAGTACCATCACCGACTTTATTGACTAACACCTCCAGGAAA
AGAGAGCTTGATCCCACCATAGGTATGCAGATTGTTCATTTCTTTGGATT
CATATGTAGTATCTGGCCTCCTTTACTGAGCACTTTCGTTACTGGTCGAT
CAATGCCTCTTTGAATCAATTGGATTCACGCTGTTTTAGTCCACTTTGCC
CTTTTAAAGAGTTTTCTGAACAATGCCTGACTCCCGGTGGGGTTACTTAA
GCAAAAATGGGTGTTGGGTATGTGCGGACAGCAAGGGTCGGTTTTTCAAC
CTTTTCAAGTCTCTAAGGCTAAGGGTCGCAAAAATCAGAAATATTTAAAT
TAGTCTCTTTAAGGGTCGGAACATTTACAATTTCTAGGAAAGTTTTTTGA
TTTAGAGTGGAAAAATTGTAAAAAAGTCTCTCTAAGGGAATTTTTCAGAA
ATTGAAGAAAGTTAAGCATTAAAGTAAACGATTTGGATGTGTATATAAGA
AATTTCCTTGGGCATCTATTAGAGAATCTCAGACCGTTTTCATGTTGAAT
TCACTTCCATCAATTTAAGGCGGTTTTCACAATCCTTTAAGAAATTAATT
AATTTGTTTAATTGATTGAGGTCAATAAATTGGCAATAAAATGTCGAAAT
ATCTAGCCTATATAGTAGTTAACTTGGTTTAGCTGACGTGTCTAGATATC
TTTAGAAATCGACAGTATCTAAAGCTTTCAGTGAAGGTGGGGATTAATCT
AAACTTTCTTTGAATGTCCCTGAACACTCCTTTCTAAAATTTCCGGACGA
GAATGTGGTTTTATCTTGTGTAATTCGGCTCCCCATTGAAGTCAATCAGT
CATTTAGGTGACAACTGGTGACGTTGCACTACGCGCCAACTCAAGGCGTG
ATTTTAAACGATTAATAAAATTAAAACCCCTACTTTGTAATAAATTAAGG
TTCTTAAAAATTTTAAGATGGCTCGTAATTGTTGCGTTAATATTTCAATG
TCTTTTTCCGCTCGTGAAACTTTGGTCTACACATTTCTAATTGTCATGTT
AAACTTTTAAAGCTTAATTAATTTGAAGCTTACAAATTACAAAATTAAGT
CTCGACTTTTAAACCTTACGAAGCCTTGACCTTGGAGCCTTGGCCTACAA
CTTTTTTATAAGAACATCCACAATTTTTAAATATGCAGGGAGCTTAAACC
TGAAAGCCTAAGCTGAACAAGCTTTGAACTTATCACTTGCACATAATAAT
AAACCAATTAGAGTTAATGAGTAATTGATCACATAAATTGCCTAGTTGGC
GACACGAAATTTTTATCATGTTTTAAAACTCGAATTTTGTCATTTTGTGA
TAGTGGTATAGCTCCTCCTCAAACTTGTTTCTTCTCACTTAATTTGCGTT
TTATCTTTTGATTGGTTAATTGCTCTGACTTAATTTGTTTATGATCATGT
CATGTATGCCATTTTTACTGCTAATTATCATATCCCTTAATTAGCTGAAT
TGAAATGAGGCTTGTCATCTTGTCACAGACCCCTGTGCTAATTTTAAACT
TAGTTGCACCCTGTAATCATGCTGTAATCACATGAACCATATCAAGTGTC
GAACCAATACACGGTTTTTTATAAGAACAAACTATATAAGAACATAAGAT
TTCGATGTCCCAAATGTTAAGAATAAGTTAAGAATAATATATAACTTTAC
GGACTCAAGAACGCCAAGTTTTATAGGAAAATGGACAAAAATACTAAAAA
AATTGGCGAAAGTAAGAACATTTTAAGAATATTTTTAGGCTTAAAACTCA
AAAAGTTAAGAACATCCCAAGGCTTCAAAAATATTGGATGTTCTTGCAAA
AAAAAGCGTAACCAATAGCGGAGCTTTGTTTGAACTTCGATACCATTATA
ACGTTCCTACTTTTTCATTACAGAATTTCAATGGGATTTGAGCAAATGTT
TTCTACGAAAACACAAGGCCAATCGTAAACCACGAACGCCCTTCTCCGCC
AGTCAACTTCTCACCTTGGAACAGAAATTTAAACGTAAACAATATTTATC
AATAAACGAGCGATCAGAATTAAGCGCTCAACTGAACTTAACTGAAACAC
AAATCAAAATTTGGTTTCAAAATCGTCGAGCAAAAGAAAAACGTCTTAAA
GAAGCGGAACTCGAGAAAACCGTAAGAACATTTTCACCGGGAAGTGTAAC
ATCACCAAACTATTCACCGTGCAGCTGTTGTTATTCGGGCTCTTCCGTAT
TCAACTATCCACCTGTATCGTGCTCTCGGATATCCCGTTTTATGCATTAG
TTGAAAATTCATGTGGGGATGTCTGTTTTGCCTGTTGTTGTATATATCTT
TAATTTCTAAGATTTTAATTTTGTTAATATTTTGTAAGGTGGCCTCATGT
AAGGTTCGTGATCGACAACCGCTTTTCACAGACCCGCTAGGGTTTTTTCA
GCCAGCGGGGTAAAAATAACGGACCAAATTCTCGATGAGGATTGATCGTC
CCATGTTTTCTTATGACTAGGGATTTGAATTCCATTGTTTTTGAGCCAG
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_035505XLOC_035505Clytia hemisphaericagene
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00056353-exon-scaffold_273-1575043694:19270..19405TCONS_00056353-exon-scaffold_273-1575043694:19270..19405Clytia hemisphaericaexon
TCONS_00056353-exon-scaffold_273-1575043694:18234..18874TCONS_00056353-exon-scaffold_273-1575043694:18234..18874Clytia hemisphaericaexon
TCONS_00056353-exon-scaffold_273-1575043694:16135..16382TCONS_00056353-exon-scaffold_273-1575043694:16135..16382Clytia hemisphaericaexon
TCONS_00056353-exon-scaffold_273-1575043694:15757..15785TCONS_00056353-exon-scaffold_273-1575043694:15757..15785Clytia hemisphaericaexon
TCONS_00056353-exon-scaffold_273-1510915933:19270..19405TCONS_00056353-exon-scaffold_273-1510915933:19270..19405Clytia hemisphaericaexon
TCONS_00056353-exon-scaffold_273-1510915933:18234..18874TCONS_00056353-exon-scaffold_273-1510915933:18234..18874Clytia hemisphaericaexon
TCONS_00056353-exon-scaffold_273-1510915933:16135..16382TCONS_00056353-exon-scaffold_273-1510915933:16135..16382Clytia hemisphaericaexon
TCONS_00056353-exon-scaffold_273-1510915933:15757..15785TCONS_00056353-exon-scaffold_273-1510915933:15757..15785Clytia hemisphaericaexon
TCONS_00056353-exon-scaffold_273-1491911889:19270..19405TCONS_00056353-exon-scaffold_273-1491911889:19270..19405Clytia hemisphaericaexon
TCONS_00056353-exon-scaffold_273-1491911889:18234..18874TCONS_00056353-exon-scaffold_273-1491911889:18234..18874Clytia hemisphaericaexon
TCONS_00056353-exon-scaffold_273-1491911889:16135..16382TCONS_00056353-exon-scaffold_273-1491911889:16135..16382Clytia hemisphaericaexon
TCONS_00056353-exon-scaffold_273-1491911889:15757..15785TCONS_00056353-exon-scaffold_273-1491911889:15757..15785Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
scaffold_273supercontigscaffold_273:15757..19405 -
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
0.0600265	0	0.0475381	0.0465086	0	0.154095	0.00227643	0	0	0	0	0.200711	0.0371374	0.571583	0	0	0.592132	1.05758	0.430026	0.00100548	1.09287	1.13678	0.509328	0.186426	0.315374	0.108794	0	0	0.139802	0
Blast
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BLAST of TCONS_00056353 vs. Swiss-Prot (Human)
Match: MSX2 (Homeobox protein MSX-2 OS=Homo sapiens GN=MSX2 PE=1 SV=3)

HSP 1 Score: 99.7525 bits (247), Expect = 4.708e-24
Identity = 45/59 (76.27%), Postives = 52/59 (88.14%), Query Frame = 3 
Query:  801 CFLRKHKANRKPRTPFSASQLLTLEQKFKRKQYLSINERSELSAQLNLTETQIKIWFQN 977
            C LRKHK NRKPRTPF+ SQLL LE+KF++KQYLSI ER+E S+ LNLTETQ+KIWFQN
Sbjct:  134 CTLRKHKTNRKPRTPFTTSQLLALERKFRQKQYLSIAERAEFSSSLNLTETQVKIWFQN 192
The following BLAST results are available for this feature:
BLAST of TCONS_00056353 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
MSX24.708e-2476.27Homeobox protein MSX-2 OS=Homo sapiens GN=MSX2 PE=... [more]
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