TCONS_00040200 (transcript) - C. hemisphaerica

Overview
NameTCONS_00040200
Unique NameTCONS_00040200
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length378

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00040200 ID=TCONS_00040200|Name=TCONS_00040200|organism=Clytia hemisphaerica|type=transcript|length=378bp
AATCACGTTGAACAAAAACCAACTGACCAGATTACCTGCAAACATATCAC
TTTATATACCAAGCATCACCATTCTCGATCTAGAAGacaataatattaat
aaaattaaacaaaagGACTTTGAAGGGTACGATTCTATCATAACTATATT
TCTTCAAAGAAATGGTATTGAAAATTTGGAACCTCGTGTTTTTCAGAATC
TTTCACAACTAGAATATCTGTACGCAGGAGGTAATAAATTGACGACTCTG
CGAAAGGGTACGTTTACCGGATTAGCTAAGCTACGACGATTATTCTTAGC
TCGTAATGATATAACGACTGTTGAAACTGGAGTCTTTGTTGATCTTCCAT
CTTTGGTGACCTTGGACTTGCCGTACAA
Run BLAST on NCBI

protein sequence of TCONS_00040200-protein

>TCONS_00040200-protein ID=TCONS_00040200-protein|Name=TCONS_00040200-protein|organism=Clytia hemisphaerica|type=polypeptide|length=125bp
ITLNKNQLTRLPANISLYIPSITILDLEDNNINKIKQKDFEGYDSIITIF
LQRNGIENLEPRVFQNLSQLEYLYAGGNKLTTLRKGTFTGLAKLRRLFLA
RNDITTVETGVFVDLPSLVTLDLPY
Run BLAST on NCBI

transcript from alignment at sc0002350:2..6572-

Legend: exonfive_prime_UTRCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00040200 ID=TCONS_00040200|Name=TCONS_00040200|organism=Clytia hemisphaerica|type=transcript|length=6571bp|location=Sequence derived from alignment at sc0002350:2..6572- (Clytia hemisphaerica)
AATCACGTTGAACAAAAACCAACTGACCAGATTACCTGCAAACATATCAC
TTTATATATCAAGCATCACCATCCTCGATCTAGATGACAATAATTATAAT
AATAACTTCGAACAAAAGGACTTCGAAGGGTATGATTCTATCATAGCTAT
ATTCCTTCCGAGAAATGGTATTGAAAATTTGGAACCTCATGTTTTTCAGA
ATCTTTCTTTACATTTTTATACAAAGGAAGAAAGAAAATATCTGAATTGT
ACCCTTCGGAAGCTACAGCACCATGGAGAGACATTTCCGGTGACGTTCTT
GGACCTTACGTGGAAACGCACGCTGGTAACAGATACATTGTCTCATTCGT
TGATCATTTCAGTGGATGGCCTGAGTGTTTTGCAGTGCCAACTAATGAAN
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TCCATTGCGTCCATTGAGTCTAGTCCATTGAGTCTCACTAACATTCTGTA
GTGTTAATGTAAATTTTGATGATTTAATTTATACAATACCACAAATATCA
CTAGCCAATCAAATGCGAGTATTCAGTCATGTGATTTTAAGTGGACATGT
GGAAAGTTTGGATGTTTATTTCCTTATTTTTTATTTTCGAAAGTTCTTTG
GTAGATGAAGAAGTTGTGTTGAGTTTTTGCCTGGTTTTTACAGGGGTTTT
TATTTTGCTTTTAGAAAACAATACTTGAAATGACAACAAGTTTAGTCAAA
GTTGACGCAACCTAGTCTTAAGATCCATTCTCTCTAACCAAAACTTACAC
CACATAAAAGANCGCAACCTAGTCTTAAGATCCATTCTCTCTAACCAAAA
CTTACACCACATAAAAGAAAAATCCCATCAGATGCTACTCAGTGAGAGCA
TGGGTATTTAAGACTTAGTTTGAATTTGCTTATATTTGGTTTGAATTTCG
TGCCAAAATAAGCTGTGAATAATTAATAATGTGTATAAAAACGACTTTAT
TTTCATTTTCAGGAAAAACCTAAAGAAAAATAACTGACAATCAAAATTAT
GAATATGCTATTCCACCATCTTCTCATTTTATTGGCTTGCATTGTTTCCA
GTTTTGCATCAAGTTCAACAACTTGTCCAACAAAATGTAAGTGTTATTGG
GAACGTGGTCATAGTGCCGTCGATGTGTTTTGTACAAACCAAAATATCAC
CAACAAAGATATTCTAGATATTGCATCCCAATTGGATACAAAAAAAACTG
TGCATTTAAGTCTCAGCAGTAATCTGATCACCGAATTTCAAGCTGAACTT
TTTGTTAATTTCACTAAACTTGATCGAATCACATTGAACAAAAACCAACT
GACCAGATTGCCTGCAAACATATCACTTTATATACCAAGCATCACCATTC
TCGATGTAGAAGACAATAATATTAATAAAATTAAACAAAAGGACTTTGAA
GGGTACGATTCTATCATATCTATATTCCTTCAAAGAAATGGTATTGAAAA
TTTGGAACCTCGTGTTTTTCAGAATCTTTCAAAACTAGAATATCTGTACG
CAGGAGGTAATAAATTGACGACTTTACGAAAGGGTACGTTTACCGGATTA
GCTAAGTTACGACGATTATTCTTAGCTGGTAATGATATAACGACTGTTGA
AACTGGAGTCTTTGGTGATCTTCCGTCTTTGAGTTGGATATACTTGCAGT
TCAATAAGATAACAACAGCACGAAGAGATTGGTTTGGTTCAGCTGTTCCT
GAAATATTCAGACTATTGAGACTCGAGAACAACCCATTGATATGCGATTG
TGTTATGCATTATACAATTACTTATTTTGAAAGTTACCATGATGGAACAG
TTTGGGGTTGGTGCAATGGTATTGGAAGATTGGAAGATTTCTACCGCAAG
AACAAATTAAATTGTAGTTCCTGCTTTGTCAATGAATGCCAAAACAATGC
AACATGTCAAGTTGTTGACCAATTCAGTCAGATAAGTAACGTTTCAATGG
GATATACATGTCAATGCAAAGAAGGTTATCATGGTCAACAATGTCAATTA
TCAACTCCAGATACTGGTTTCATCATCTTAATGGTGGTGTTGGCGATATT
AGTTTTGATTGGATTGGTTGGGTTGGCTATCTTTTTGAGACGTCGAAGAG
GACACAAAGATAATGGCGAGGAGGTGAACATGTCTCAAAACAAATGATCA
GAGAAATTGGAAGGCGTCCCTGTGTAGTTGAATCATGGAGGTTAAATACC
GTCAAATCTCTCACTAACTAATTCGAACTTCTGCAATTCGTATCTTTCCG
TATTTGGAACTGAAATATTGGTCCCCTCAACTGGACAATGATATAAAATA
CTCTCTGTAATTCGAATACTTCTTAAATTCGAAGAAGATTATCTGCCCTT
CAAAAATCGAATTAGAGAGAGTCAACTGTATATCGATGTAATCAATAACG
CTATAGCTAAAGATCTTTAGAACACACTTTAAATCTTTTATAGTCAAATA
ACTGGATGTTTTATGTTAATGTTGGTGTTCTTTTGTAGTGTTTTAACANN
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GCATGGGTATTTAAGACTTAGTTTGAATTTGCTTATATTTGGTTTGAATT
TCGTGCCAAAATAAGCTGTTAATAATTAATATGTGTATAACACAAACTAT
AAAATCACTTTATTCTCATTTTCAGGAAAAACCTAAAGAAAAATAACTGA
CAAACAAAATTATGAATATGCTATTCCACCATCTTCTCATTTTATTGGCT
TGCATTGTTTCCAGTTTTGCAANGAATATGCTATTCCACCATCTTCTCAT
TTTATTGGCTTGCATTGTTTCCAGTTTTGCATCAAGTTCAACAACTTGTC
CAACAAAATGTAAGTGTTATTGGGATCATAGTGCCGTCGATGTGCATTGT
GAAAACCAAAATATCACCAATAAAGATCTTCTGGATATTACATCACAATT
GGATAAAAATAAAACTGAATATTTAGATCTCAGCAGAAACCTAATCACCG
AATTTCAAGCTGAACTTTTTGTTAATTTCACTAAACTTGATCGAATCTTG
TTGAACGAAAACCAACTGACCAGATTGCCTGCAAACGTATCACTTTATAT
ACCAAGCATCACCATTCTCGAGCTAGAAGACAATAATATTAATAAAATTA
AACAAAAGGACTTTGAAGGGTACGATTCTATCATAACTATATTTCTTCAA
AGAAATGGTATTGAAAATTTGGAACCTCGTGTTTTTCAGAATCTTTCACA
ACTAGAATATCTGTACGCAGGAGGTAATAAATTGACGACTCTGCGAAAGG
GTACGTTTACCGGATTAGCTAAGCTACGACGATTATTCTTAGCTCGTAAT
GATATAACGACTGTTGAAACTGGAGTCTTTGTTGATCTTCCATCTTTGGT
GACCTTGGACTTGCCGTACAA

Coding sequence (CDS) from alignment at sc0002350:2..6572-

>TCONS_00040200 ID=TCONS_00040200|Name=TCONS_00040200|organism=Clytia hemisphaerica|type=CDS|length=1125bp|location=Sequence derived from alignment at sc0002350:2..6572- (Clytia hemisphaerica)
CTAGAAGACAATAATATTAATAAAATTAAACAAAAGGACTTTGAAGGGTA
CGATTCTATCATAACTATATTTCTTCAAAGAAATGGTATTGAAAATTTGG
AACCTCGTGTTTTTCAGAATCTTTCACAACTAGAATATCTGTACGCAGGA
GGTAATAAATTGACGACTCTGCGAAAGGGTACGTTTACCGGATTAGCTAA
GCTACGACGATTATTCTTAGCTCGTAATGATATAACGACTGTTGAAACTG
GAGTCTTTGTTGATCTTCCATCTTTGGTGACCTTGGACTTGCCGTACATA
TCACTTTATATACCAAGCATCACCATTCTCGATATCACGTTGAACAAAAA
CCAACTGACCAGATTACCTGCAAACCTAGAAGACAATAATATTAATAAAA
TTAAACAAAAGGACTTTGAAGGGTACGATTCTATCATAACTATATTTCTT
CAAAGAAATGGTATTGAAAATTTGGAACCTCGTGTTTTTCAGAATCTTTC
ACAACTAGAATATCTGTACGCAGGAGGTAATAAATTGACGACTCTGCGAA
AGGGTACGTTTACCGGATTAGCTAAGCTACGACGATTATTCTTAGCTCGT
AATGATATAACGACTGTTGAAACTGGAGTCTTTGTTGATCTTCCATCTTT
GGTGACCTTGGACTTGCCGTACATATCACTTTATATACCAAGCATCACCA
TTCTCGATATCACGTTGAACAAAAACCAACTGACCAGATTACCTGCAAAC
CTAGAAGACAATAATATTAATAAAATTAAACAAAAGGACTTTGAAGGGTA
CGATTCTATCATAACTATATTTCTTCAAAGAAATGGTATTGAAAATTTGG
AACCTCGTGTTTTTCAGAATCTTTCACAACTAGAATATCTGTACGCAGGA
GGTAATAAATTGACGACTCTGCGAAAGGGTACGTTTACCGGATTAGCTAA
GCTACGACGATTATTCTTAGCTCGTAATGATATAACGACTGTTGAAACTG
GAGTCTTTGTTGATCTTCCATCTTTGGTGACCTTGGACTTGCCGTACATA
TCACTTTATATACCAAGCATCACCATTCTCGATATCACGTTGAACAAAAA
CCAACTGACCAGATTACCTGCAAAC
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_024394XLOC_024394Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00040200-proteinTCONS_00040200-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00040200-exon-sc0002350-1575043694:6530..6572TCONS_00040200-exon-sc0002350-1575043694:6530..6572Clytia hemisphaericaexon
TCONS_00040200-exon-sc0002350-1575043694:3568..3603TCONS_00040200-exon-sc0002350-1575043694:3568..3603Clytia hemisphaericaexon
TCONS_00040200-exon-sc0002350-1575043694:2..300TCONS_00040200-exon-sc0002350-1575043694:2..300Clytia hemisphaericaexon
TCONS_00040200-exon-sc0002350-1510915933:6530..6572TCONS_00040200-exon-sc0002350-1510915933:6530..6572Clytia hemisphaericaexon
TCONS_00040200-exon-sc0002350-1510915933:3568..3603TCONS_00040200-exon-sc0002350-1510915933:3568..3603Clytia hemisphaericaexon
TCONS_00040200-exon-sc0002350-1510915933:2..300TCONS_00040200-exon-sc0002350-1510915933:2..300Clytia hemisphaericaexon
TCONS_00040200-exon-sc0002350-1491911889:6530..6572TCONS_00040200-exon-sc0002350-1491911889:6530..6572Clytia hemisphaericaexon
TCONS_00040200-exon-sc0002350-1491911889:3568..3603TCONS_00040200-exon-sc0002350-1491911889:3568..3603Clytia hemisphaericaexon
TCONS_00040200-exon-sc0002350-1491911889:2..300TCONS_00040200-exon-sc0002350-1491911889:2..300Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0002350supercontigsc0002350:2..6572 -
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	0	0	0	0	0	0	0	0	0	0	0	0	0.97056	0	0	0	1.47348	0	0.625585	0	0	0	0	0	0	0	1.92021	0.815697	0
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR003591Leu-rich_rpt_typical-subtyp
IPR001611Leu-rich_rpt
IPR032675L_dom-like
Vocabulary: Molecular Function
TermDefinition
GO:0005515protein binding
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
Category Term Accession Term Name
molecular_function GO:0005515 protein binding
Blast
[Close]
BLAST of TCONS_00040200 vs. Swiss-Prot (Human)
Match: SLIT2 (Slit homolog 2 protein OS=Homo sapiens GN=SLIT2 PE=1 SV=1)

HSP 1 Score: 75.0998 bits (183), Expect = 4.762e-16
Identity = 44/124 (35.48%), Postives = 68/124 (54.84%), Query Frame = 2 
Query:    2 ITLNKNQLTRLPAN-ISLYIPSITILDLEDNNINKIKQKDFEGYDSIITIFLQRNGIENLEPRVFQNLSQLEYLYAGGNKLTTLRKGTFTGLAKLRRLFLARNDITTVETGVFVDLPSLVTLDL 370
            + LN N+ T L A  I   +P +  ++  +N I  I++  FEG   +  I L  N +EN++ ++F+ L  L+ L    N++T +   +F GL+ +R L L  N ITTV  G F  L SL TL+L
Sbjct:  538 LRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNRLENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVRLLSLYDNQITTVAPGAFDTLHSLSTLNL 661
The following BLAST results are available for this feature:
BLAST of TCONS_00040200 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
SLIT24.762e-1635.48Slit homolog 2 protein OS=Homo sapiens GN=SLIT2 PE... [more]
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