TCONS_00040198 (transcript) - C. hemisphaerica

Overview
NameTCONS_00040198
Unique NameTCONS_00040198
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1018

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00040198 ID=TCONS_00040198|Name=TCONS_00040198|organism=Clytia hemisphaerica|type=transcript|length=1018bp
atatcattgtccagttgaggggaccaatatttcaGTTCCAAATACGGAAA
GATACGAATTgcagaagttcgaattagttAGTGAGAGATTTGACGGTATT
TAACCTCCATGATTCAACTACACAGGGACGCCTTCCAATTTCTCTGATCA
TTTGTTTTGAGACATGTTCACCTCCTCGCCATTATCTTTGTGTCCTCTTC
GACGTCTCAAAAAGATAGCCAACCCAACCAATCCAATCAAAACTAATATC
GCCAACACCACCATTAAGATGATGAAACCAGTATCTGGAGTTGATAATTG
ACATTGTTGACCATGATAACCTTCTTTGCATTGACATGTATATCCCATTG
AAACGTTACTTATCTGACTGAATTGGTCAACAACTTGACATGTTGCATTG
TTTTGGCATTCATTGACAAAGCAGGAACTAcaatttaatttgttcttgCG
GTAGAAATCTTCCAATCTTCCAATACCATTGCACCAACCCCAAACTGTTC
CATCATGGTAACTTTCAAAATAAGTAATTGTATAATGCATAACACAATCG
CATATCAATGGGTTGTTCTCGAGTCTCAATAGTCTGAATATTTCAGGAAC
AGCTGAACCAAACCAATCTCTTCGTGCTGTTGTTATCTTattgaactgca
agtatatccAACTCAAAGACGGAAGATCACCAAAGACTCCAGTTTCAACA
GTCGTTATATCATTACCAGCTAAGAATAATCGTCGTAACTTAGCTAATCC
GGTAAACGTACCCTTTCGTAAAGTCGTCAATTTATTACCTCCTGCGTACA
GATATTCTAGTTTTGAAAGATTCTGAAAAACACGAGGTTCCAAATTTTCA
ATACCATTTCTTTGAAGGAATATAGATATGATAGAATCGTACCCTTCAAA
GTCcttttgtttaattttattaatattattgtCTTCTACATCGAGAATGG
TGATGCTTGGTATATAAAGTGATATGTTTGCAGGTAATCTGGTCAGTTGG
TTTTTGTTCAACGTGATT
Run BLAST on NCBI

transcript from alignment at sc0002350:2629..6572+

Legend: exon
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00040198 ID=TCONS_00040198|Name=TCONS_00040198|organism=Clytia hemisphaerica|type=transcript|length=3944bp|location=Sequence derived from alignment at sc0002350:2629..6572+ (Clytia hemisphaerica)
atatcattgtccagttgaggggaccaatatttcaGTTCCAAATACGGAAA
GATACGAATTgcagaagttcgaattagttAGTGAGAGATTTGACGGTATT
TAACCTCCATGATTCAACTACACAGGGACGCCTTCCAATTTCTCTGATCA
TTTGTTTTGAGACATGTTCACCTCCTCGCCATTATCTTTGTGTCCTCTTC
GACGTCTCAAAAAGATAGCCAACCCAACCAATCCAATCAAAACTAATATC
GCCAACACCACCATTAAGATGATGAAACCAGTATCTGGAGTTGATAATTG
ACATTGTTGACCATGATAACCTTCTTTGCATTGACATGTATATCCCATTG
AAACGTTACTTATCTGACTGAATTGGTCAACAACTTGACATGTTGCATTG
TTTTGGCATTCATTGACAAAGCAGGAACTAcaatttaatttgttcttgCG
GTAGAAATCTTCCAATCTTCCAATACCATTGCACCAACCCCAAACTGTTC
CATCATGGTAACTTTCAAAATAAGTAATTGTATAATGCATAACACAATCG
CATATCAATGGGTTGTTCTCGAGTCTCAATAGTCTGAATATTTCAGGAAC
AGCTGAACCAAACCAATCTCTTCGTGCTGTTGTTATCTTattgaactgca
agtatatccAACTCAAAGACGGAAGATCACCAAAGACTCCAGTTTCAACA
GTCGTTATATCATTACCAGCTAAGAATAATCGTCGTAACTTAGCTAATCC
GGTAAACGTACCCTTTCGTAAAGTCGTCAATTTATTACCTCCTGCGTACA
GATATTCTAGTTTTGAAAGATTCTGAAAAACACGAGGTTCCAAATTTTCA
ATACCATTTCTTTGAAGGAATATAGATATGATAGAATCGTACCCTTCAAA
GTCcttttgtttaattttattaatattattgtCTTCTACATCGAGAATGG
TGATGCTTGGTATATAAAGTGATATGTTTGCAGGCAATCTGGTCAGTTGG
TTTTTGTTCAATGTGATTCGATCAAGTTTagtgaaattaacaaaaagttc
aGCTTGAAATTCGGTGATCAGATTACTGCTGAGACTTAAATGCACAGTTT
TTTTTGTATCCAATTGGGATGCAATATCTAGAATATCTTTGTTGGtgata
ttttggtttgtacaaaACACATCGACGGCACTATGACCACGTTCCCAATA
ACACTTACATTTTGTTGGACAAGTTGTTGAACTTGATGCAAAACTGGAAA
CAATGCAAGCCAATAAAATGAGAAGATGGTGGAATAGcatattcataatt
ttgattgtcagttatttttctttaggtttttcctgaaaatgaaaataaag
tcgTTTTTATACACATTATTAATTATTCACAGCTTattttggcacgaaat
tcaaaccaaatataAGCAAATTCAAACTAAGTCTTAAATACCCATGCTCT
CACTGAGTAGCATCTGATGGGATTTTTCTtttatgtggtgtaagttttGG
TTAGAGAGAATGGATCTTAAGACTAGGTTGCGNTCTtttatgtggtgtaa
gttttGGTTAGAGAGAATGGATCTTAAGACTAGGTTGCGTCAACTTTGAC
TAAACTTGTTGTCATTTCAAGTATTGTTTTctaaaagcaaaataaaaacc
cCTGTAAAAACCAGGCAAAAACTCAACACAACTTCTTCATCTACCAAAGa
actttcgaaaataaaaaataaggaaataaaCATCCAAACTTTCCACATGT
CCACTTAAAATCACATGACTGAATACTCGCATTTGATTGGCTAGTGATAT
TTGTGGTATTGTATAAattaaatcatcaaaatttacatTAACACTACAGA
ATGTTAGTGAGACTCAATGGACTAGACTCAATGGacgcaatggactgtgt
tcgaacCCAAGCACTANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
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TAGTTGGCACTGCAAAACACTCAGGCCATCCACTGAAATGATCAACGAAT
GAGACAATGTATCTGTTACCAGCGTGCGTTTCCACGTAAGGTCCAAGAAC
GTCACCGGAAATGTCTCTCCATGGTGCTGTAGCTTCCGAAGGGTACAATT
CAGatattttctttcttccttTGTATAAAAATGTAAAGAAAGATTCTGAA
AAACATGAGGTTCCAAATTTTCAATACCATTTCTCGGAAGGAATATAGCT
ATGATAGAATCATACCCTTCGAAGTCCTTTTGTTCGAAGttattattata
attattgTCATCTAGATCGAGGATGGTGATGCTTGATATATAAAGTGATA
TGTTTGCAGGTAATCTGGTCAGTTGGTTTTTGTTCAACGTGATT
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_00040198-exon-sc0002350-1491911889:2629..3611TCONS_00040198-exon-sc0002350-1491911889:2629..3611Clytia hemisphaericaexon
TCONS_00040198-exon-sc0002350-1510915933:2629..3611TCONS_00040198-exon-sc0002350-1510915933:2629..3611Clytia hemisphaericaexon
TCONS_00040198-exon-sc0002350-1575043694:2629..3611TCONS_00040198-exon-sc0002350-1575043694:2629..3611Clytia hemisphaericaexon
TCONS_00040198-exon-sc0002350-1491911889:6538..6572TCONS_00040198-exon-sc0002350-1491911889:6538..6572Clytia hemisphaericaexon
TCONS_00040198-exon-sc0002350-1510915933:6538..6572TCONS_00040198-exon-sc0002350-1510915933:6538..6572Clytia hemisphaericaexon
TCONS_00040198-exon-sc0002350-1575043694:6538..6572TCONS_00040198-exon-sc0002350-1575043694:6538..6572Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0002350supercontigsc0002350:2629..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
3.64739	5.02598	1.42446	1.01368	2.36652	2.33254	1.85958e-09	3.11298	3.18424	4.03932	2.46625	1.27903	3.07541	3.57188	3.65778	6.69258	0.456764	1.64471	0	0.28749	0	0.244085	3.01925	1.79315	0.559627	1.25176	0.0540615	0.888548	0.673945	0.602164
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR003591Leu-rich_rpt_typical-subtyp
IPR000742EGF-like_dom
IPR001611Leu-rich_rpt
IPR032675L_dom-like
IPR013032EGF-like_CS
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_00040198 vs. Swiss-Prot (Human)
Match: SLIT1 (Slit homolog 1 protein OS=Homo sapiens GN=SLIT1 PE=2 SV=4)

HSP 1 Score: 78.9518 bits (193), Expect = 6.151e-16
Identity = 62/195 (31.79%), Postives = 86/195 (44.10%), Query Frame = -2 
Query:  424 LTRLPANISLYIPSITILDVEDNNINKIKQKDFEGYDSIISIFLQRNGIENLEPRVFQNLSKLEYLYAGGNKLTTLRKGTFTGLAKLRRLFLAGNDITTVETGVFGDLPSLSWIYLQFNKITTARRDWFGSAVPEIFRLLRLENNPLICDCVMHYTITYFESYHDGTVWGWCNGIGRLEDF----YRKNKLNCSS 996
            LT +PAN+     ++T + +E N I  I    F  Y  +  I L  N I  + P  FQ L  L  L   GNK+T L +G F GL  L+ L L  N I  +    F DL +LS + L  NKI +  +  F S      + L L  NP ICDC + +   +  +    T    C    RL +      +  K  CS+
Sbjct:  300 LTAIPANLP---ETMTEIRLELNGIKSIPPGAFSPYRKLRRIDLSNNQIAEIAPDAFQGLRSLNSLVLYGNKITDLPRGVFGGLYTLQLLLLNANKINCIRPDAFQDLQNLSLLSLYDNKIQSLAKGTFTSL--RAIQTLHLAQNPFICDCNLKWLADFLRTNPIETSGARCASPRRLANKRIGQIKSKKFRCSA 489
The following BLAST results are available for this feature:
BLAST of TCONS_00040198 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
SLIT16.151e-1631.79Slit homolog 1 protein OS=Homo sapiens GN=SLIT1 PE... [more]
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