TCONS_00057297 (transcript) - C. hemisphaerica

Overview
NameTCONS_00057297
Unique NameTCONS_00057297
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1204

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00057297 ID=TCONS_00057297|Name=TCONS_00057297|organism=Clytia hemisphaerica|type=transcript|length=1204bp
ggTTTAAGAAAAGTGATTGCAGTTGGTGAAGATCTTCAAAACTATAATCA
TCAATAACTGTAATTCTATTTTCATGAAGCTGGAGTTCCTTAAGGTTGGT
TAACATGTAAAAATCGTATCTTCGGATTCGATCAATATTGTTTGCGCTTA
AGATAAGTCGTTCTGTATCAGCAGGGATGTTAGATGGAACTCGGCTTAAT
TGTCGTCCGCTACATGAAACAAGTTTTGTATCAGGTCTACAATTACATTC
AGTTGGACAACTACCAGTAGCTGGTGGCAGAGTAACAGGCTTGACTGGAT
CAGGCTCTTCAGTGGTGGATGGAGGTTCTGTTGAGGTTGTGGTCGTAGTA
GTGGTCGTGGTTGTTGTTGTAGAcgtcgttgttgtagttggtGGCAACTG
TCTGACACATGTTCCATTGTAAGACTGCAGACACATTAAGAGGTCTTTAC
ATCGATCTGGAGAGCAAACTAAAGCTTGGTTCTCTGCGGCACTCGTTGGA
GATTTAAGATATTTCTGGATAGCAAACGCAGTACTACAGCAACAGACTCC
GGATTTGAATGTGGGATTTGCCAGGTCGATGAATACATTGGAAGGGAATT
GTTTGAGTGCGTTTTCTGAGATGAGACCAATTCGATCCAATGTCAATCTT
AAGGTTACGAGTTTTGAAAGACCAGTGAATGTACCATCAGATAGATATGT
GAAGTCGTTATCTTCAATAAATAGATATAGAAGCTCTGGTGTTTTGGTGA
ATGAACCATCTTCAATACAGAGAGGAGTCCCACGTGGTGAGAATTCATTC
ATCCAGAGTGTTTCCAGTTTTGAGAGTCCATTGAAGGTGTTAGCTGTGAT
TCGTCCTACTTGATTCTTATACAAAGATAGAGTTTCCAGTGATGTTAGGT
CCATGAAACTATCATCTTCAATACTAGAGATACTGTTTTGATGAAGTTGC
AATCTCTTTAAGGATGTTAAACCTTTCAAATCATCTTTGGTGATTCTTTG
GATGATATTATTCTCAAGCGTTAATTCTACTGTGTCTTGTGGAATTCCTC
TGGGTATTGCTGTCAATGATTTACCAACACATGTGACTTGTTTTGTATTG
CTGTAGCATGAACAGTATTCACGATCTGACATCGTTTCTGGGCATATTGA
GCAAGAATATATTGCGAGGGATGCCAAGACAACCAACACTTGGACATTCT
TCAT
Run BLAST on NCBI

protein sequence of TCONS_00057297-protein

>TCONS_00057297-protein ID=TCONS_00057297-protein|Name=TCONS_00057297-protein|organism=Clytia hemisphaerica|type=polypeptide|length=401bp
MKNVQVLVVLASLAIYSCSICPETMSDREYCSCYSNTKQVTCVGKSLTAI
PRGIPQDTVELTLENNIIQRITKDDLKGLTSLKRLQLHQNSISSIEDDSF
MDLTSLETLSLYKNQVGRITANTFNGLSKLETLWMNEFSPRGTPLCIEDG
SFTKTPELLYLFIEDNDFTYLSDGTFTGLSKLVTLRLTLDRIGLISENAL
KQFPSNVFIDLANPTFKSGVCCCSTAFAIQKYLKSPTSAAENQALVCSPD
RCKDLLMCLQSYNGTCVRQLPPTTTTTSTTTTTTTTTTTTSTEPPSTTEE
PDPVKPVTLPPATGSCPTECNCRPDTKLVSCSGRQLSRVPSNIPADTERL
ILSANNIDRIRRYDFYMLTNLKELQLHENRITVIDDYSFEDLHQLQSLFL
N
Run BLAST on NCBI

transcript from alignment at scaffold_286:483639..484842

Legend: exonCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00057297 ID=TCONS_00057297|Name=TCONS_00057297|organism=Clytia hemisphaerica|type=transcript|length=1204bp|location=Sequence derived from alignment at scaffold_286:483639..484842 (Clytia hemisphaerica)
ATGAAGAATGTCCAAGTGTTGGTTGTCTTGGCATCCCTCGCAATATATTC
TTGCTCAATATGCCCAGAAACGATGTCAGATCGTGAATACTGTTCATGCT
ACAGCAATACAAAACAAGTCACATGTGTTGGTAAATCATTGACAGCAATA
CCCAGAGGAATTCCACAAGACACAGTAGAATTAACGCTTGAGAATAATAT
CATCCAAAGAATCACCAAAGATGATTTGAAAGGTTTAACATCCTTAAAGA
GATTGCAACTTCATCAAAACAGTATCTCTAGTATTGAAGATGATAGTTTC
ATGGACCTAACATCACTGGAAACTCTATCTTTGTATAAGAATCAAGTAGG
ACGAATCACAGCTAACACCTTCAATGGACTCTCAAAACTGGAAACACTCT
GGATGAATGAATTCTCACCACGTGGGACTCCTCTCTGTATTGAAGATGGT
TCATTCACCAAAACACCAGAGCTTCTATATCTATTTATTGAAGATAACGA
CTTCACATATCTATCTGATGGTACATTCACTGGTCTTTCAAAACTCGTAA
CCTTAAGATTGACATTGGATCGAATTGGTCTCATCTCAGAAAACGCACTC
AAACAATTCCCTTCCAATGTATTCATCGACCTGGCAAATCCCACATTCAA
ATCCGGAGTCTGTTGCTGTAGTACTGCGTTTGCTATCCAGAAATATCTTA
AATCTCCAACGAGTGCCGCAGAGAACCAAGCTTTAGTTTGCTCTCCAGAT
CGATGTAAAGACCTCTTAATGTGTCTGCAGTCTTACAATGGAACATGTGT
CAGACAGTTGCCaccaactacaacaacgacgTCTACAACAACAACCACGA
CCACTACTACGACCACAACCTCAACAGAACCTCCATCCACCACTGAAGAG
CCTGATCCAGTCAAGCCTGTTACTCTGCCACCAGCTACTGGTAGTTGTCC
AACTGAATGTAATTGTAGACCTGATACAAAACTTGTTTCATGTAGCGGAC
GACAATTAAGCCGAGTTCCATCTAACATCCCTGCTGATACAGAACGACTT
ATCTTAAGCGCAAACAATATTGATCGAATCCGAAGATACGATTTTTACAT
GTTAACCAACCTTAAGGAACTCCAGCTTCATGAAAATAGAATTACAGTTA
TTGATGATTATAGTTTTGAAGATCTTCACCAACTGCAATCACTTTTCTTA
AAcc

Coding sequence (CDS) from alignment at scaffold_286:483639..484842

>TCONS_00057297 ID=TCONS_00057297|Name=TCONS_00057297|organism=Clytia hemisphaerica|type=CDS|length=1203bp|location=Sequence derived from alignment at scaffold_286:483639..484842 (Clytia hemisphaerica)
ATGAAGAATGTCCAAGTGTTGGTTGTCTTGGCATCCCTCGCAATATATTC
TTGCTCAATATGCCCAGAAACGATGTCAGATCGTGAATACTGTTCATGCT
ACAGCAATACAAAACAAGTCACATGTGTTGGTAAATCATTGACAGCAATA
CCCAGAGGAATTCCACAAGACACAGTAGAATTAACGCTTGAGAATAATAT
CATCCAAAGAATCACCAAAGATGATTTGAAAGGTTTAACATCCTTAAAGA
GATTGCAACTTCATCAAAACAGTATCTCTAGTATTGAAGATGATAGTTTC
ATGGACCTAACATCACTGGAAACTCTATCTTTGTATAAGAATCAAGTAGG
ACGAATCACAGCTAACACCTTCAATGGACTCTCAAAACTGGAAACACTCT
GGATGAATGAATTCTCACCACGTGGGACTCCTCTCTGTATTGAAGATGGT
TCATTCACCAAAACACCAGAGCTTCTATATCTATTTATTGAAGATAACGA
CTTCACATATCTATCTGATGGTACATTCACTGGTCTTTCAAAACTCGTAA
CCTTAAGATTGACATTGGATCGAATTGGTCTCATCTCAGAAAACGCACTC
AAACAATTCCCTTCCAATGTATTCATCGACCTGGCAAATCCCACATTCAA
ATCCGGAGTCTGTTGCTGTAGTACTGCGTTTGCTATCCAGAAATATCTTA
AATCTCCAACGAGTGCCGCAGAGAACCAAGCTTTAGTTTGCTCTCCAGAT
CGATGTAAAGACCTCTTAATGTGTCTGCAGTCTTACAATGGAACATGTGT
CAGACAGTTGCCaccaactacaacaacgacgTCTACAACAACAACCACGA
CCACTACTACGACCACAACCTCAACAGAACCTCCATCCACCACTGAAGAG
CCTGATCCAGTCAAGCCTGTTACTCTGCCACCAGCTACTGGTAGTTGTCC
AACTGAATGTAATTGTAGACCTGATACAAAACTTGTTTCATGTAGCGGAC
GACAATTAAGCCGAGTTCCATCTAACATCCCTGCTGATACAGAACGACTT
ATCTTAAGCGCAAACAATATTGATCGAATCCGAAGATACGATTTTTACAT
GTTAACCAACCTTAAGGAACTCCAGCTTCATGAAAATAGAATTACAGTTA
TTGATGATTATAGTTTTGAAGATCTTCACCAACTGCAATCACTTTTCTTA
AAc
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_036102XLOC_036102Clytia hemisphaericagene
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00057297-exon-scaffold_286-1491911889:483639..484842TCONS_00057297-exon-scaffold_286-1491911889:483639..484842Clytia hemisphaericaexon
TCONS_00057297-exon-scaffold_286-1510915933:483639..484842TCONS_00057297-exon-scaffold_286-1510915933:483639..484842Clytia hemisphaericaexon
TCONS_00057297-exon-scaffold_286-1575043694:483639..484842TCONS_00057297-exon-scaffold_286-1575043694:483639..484842Clytia hemisphaericaexon
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00057297-proteinTCONS_00057297-proteinClytia hemisphaericapolypeptide
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
scaffold_286supercontigscaffold_286:483639..484842 .
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	0.192337	0.151987	0.0458414	0.0858324	0.0300466	0.223306	0.108373	0.0237467	5.85728	5.29479	0	0	0	0	17.9661	28.478	0	0	0	0	0	0.034166	0.0488915	0	0	0
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR000372LRRNT
IPR003591Leu-rich_rpt_typical-subtyp
IPR032675L_dom-like
IPR001611Leu-rich_rpt
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
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BLAST of TCONS_00057297 vs. Swiss-Prot (Human)
Match: SLIT1 (Slit homolog 1 protein OS=Homo sapiens GN=SLIT1 PE=2 SV=4)

HSP 1 Score: 109.768 bits (273), Expect = 1.560e-25
Identity = 106/373 (28.42%), Postives = 155/373 (41.55%), Query Frame = -1 
Query:    5 CSCYSNTKQVTCVGKSLTAIPRGIPQDTVELTLENNIIQRITKDDLKGLTSLKRLQLHQNSISSIEDDSFMDLTSLETLSLYKNQVGRITANTFNGLSKLETLWMNEFSPRGTPLCIEDGSFTKTPELLYLFIEDNDFTYLSDGTFTGLSKLVTLRLTLDRIGLISENALKQFPS-NVFIDLANPTFKSGVCCCSTAFAIQKYLKSPTSAAENQALVCS-PDRCKDLLMC-LQSYNGTCVRQLXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXPDPVKPVTLPPATGSCPTECNCRPDTKLVSCSGRQLSRVPSNIPADTERLILSANNIDRIRRYDFYMLTNLKELQLHENRITVIDDYSFEDLHQLQSLFL 1114
            C+C   T  V C G  L AIP+ IP++T  L L  N I RI K+D  GL  L+ LQL +N I ++E  +F D+  LE L L +NQ+  +    F     L  L ++E + +  P      +F    +L  L ++ N  + + +G F  L  L  L L  + I  I  ++    P    F   +N  F    C C  A+  Q   + PT     Q   CS P   + L +  +Q    +C  Q                              E   V   TL  ++GSCP  C C     +V C G+ L+ +P+N+P     + L  N I  I    F     L+ + L  N+I  I   +F+ L  L SL L
Sbjct:   38 CTCTGTT--VDCHGTGLQAIPKNIPRNTERLELNGNNITRIHKNDFAGLKQLRVLQLMENQIGAVERGAFDDMKELERLRLNRNQLHMLPELLFQNNQALSRLDLSENAIQAIP----RKAFRGATDLKNLQLDKNQISCIEEGAFRALRGLEVLTLNNNNITTIPVSSFNHMPKLRTFRLHSNHLF----CDCHLAWLSQWLRQRPTIGLFTQ---CSGPASLRGLNVAEVQKSEFSCSGQ-----------------------------GEAGRVPTCTL--SSGSCPAMCTC--SNGIVDCRGKGLTAIPANLPETMTEIRLELNGIKSIPPGAFSPYRKLRRIDLSNNQIAEIAPDAFQGLRSLNSLVL 364

HSP 2 Score: 87.0409 bits (214), Expect = 3.486e-18
Identity = 64/171 (37.43%), Postives = 80/171 (46.78%), Query Frame = -1 
Query:  644 ICPETMSDREYCSCYSNTKQVTCVGKSLTAIPRGIPQDTVELTLENNIIQRITKDDL-KGLTSLKRLQLHQNSISSIEDDSFMDLTSLETLSLYKNQVGRITANTFNGLSKLETLWM--NEFSPRGTPLCIEDGSFTKTPELLYLFIEDNDFTYLSDGTFTGLSKLVTLRL 1147
            +CP        C C +N   V C    LT IP  IPQ T EL L NN I  +    + K LT LK++ L  N +S IED +F    S+  L L  NQ+  I +  F GL  L TL +  N  S      CI + SFT    +  L + DN  T +S G F  L  L TL L
Sbjct:  512 VCPHK------CRCEANV--VECSSLKLTKIPERIPQSTAELRLNNNEISILEATGMFKKLTHLKKINLSNNKVSEIEDGAFEGAASVSELHLTANQLESIRSGMFRGLDGLRTLMLRNNRIS------CIHNDSFTGLRNVRLLSLYDNQITTVSPGAFDTLQSLSTLNL 668
The following BLAST results are available for this feature:
BLAST of TCONS_00057297 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
SLIT11.560e-2528.42Slit homolog 1 protein OS=Homo sapiens GN=SLIT1 PE... [more]
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