TCONS_00041968 (transcript) - C. hemisphaerica

Overview
NameTCONS_00041968
Unique NameTCONS_00041968
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1354

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00041968 ID=TCONS_00041968|Name=TCONS_00041968|organism=Clytia hemisphaerica|type=transcript|length=1354bp
TTAAGtgttaaaaataataaattgaacagaaaaataagcaaaaaaatagc
gcagtaaataataataatattaatattgtttttttatattcacATTCAAA
TGTGTACAAGGACGTCAAAAACGTGgcgaaaaaaacataaacaattttaa
cttttttcaaatataactTAAATCTCTCCATTTTTCACGCTCGCACCGCT
CGCACGCTCGCACTTCGCACACTCGCACGCTCAATAGAAactaaaaaatt
ctctttttgaaattatcactctcaaaaatatatatcattCATTTTTCTCT
CTCTTCTATAAATTTATAACAAtgcataaaatttctaaaaaggaGGTATG
GGAACCATAAAATATTCCCAACCACcctttttaatttatttgtgATAAAA
AATACTATAGTGGTATTGCGAGACCCATCCAAAACAGGTACCCAACCACC
GAACTCTAAAATAAGGATTGAAATGGAAGTCTCCTTTTTCTAATAATTTT
GCTTGTTCAGTTTCAGCTGTTGAGTGGAAATCCATAATTTTAGAGTTCGG
TGTACCCAACAAACACtctgaataaaaacaaaaaataactcaTAATGTGA
ACATAATTTAAAATCATCTACAGTCTGACCAGGGCTTTAATGCTGTCACC
TTAGGGCTAGTACACACCATAAGGTCAGTAATACTACCAGTACAGAAGAG
TGAGTTAAAGTCCTTGATGATGAATAATGCTGTACTCTCTGCTGCTGTTG
ACTGGCGACTTGTAATACAACGCTATTAGAGCGGCGCAGTCGTAACTTAG
GGTCCATGCTCTGTGCATCAAGCATTGCCAGCTTAGCTGCTAGTGAAAAT
TGTCTTTCTCCAGTCATCAAAAGATCGAAGACACAAGAGTCGTAATAAAA
GTCTGTTACATTTCTCACTGAGCACAAGTGCATTGCTTCGTGATACGAAA
GTTGTGACGTAACACTGACGTCATTGGAGCGCGGTGCCGTTCTTATGTca
ttggtgacgtcattttggtTGATGAGGTTTGCAAAGAAAGAGAGATAATC
GACAAGTTCACTGGTTGGACATCCACCATGACAAAGTCCACTGGATTTGT
TTACAATCTCGAAGGGTGATAAGATATTGAACGTTAGATATCTACCAACG
CGACGAATCAAAATGGTAGTGTTGGAGCGACAAGCTTTTAGTTTTACTGA
ATCTTGGTCATATTTGGAAATGGTCGTCAAGCAACCAGGCGGGCCGTTCG
TACGTGAACCATCGGAGAAAGCTTCGGGTAGGTATTGAGATGTGGCAACG
TAATTTTTCTCTTGAGAACAAACTAAGTCACGTTCTTTGAATTGGATAGC
GATC
Run BLAST on NCBI

protein sequence of TCONS_00041968-protein

>TCONS_00041968-protein ID=TCONS_00041968-protein|Name=TCONS_00041968-protein|organism=Clytia hemisphaerica|type=polypeptide|length=235bp
IAIQFKERDLVCSQEKNYVATSQYLPEAFSDGSRTNGPPGCLTTISKYDQ
DSVKLKACRSNTTILIRRVGRYLTFNILSPFEIVNKSSGLCHGGCPTSEL
VDYLSFFANLINQNDVTNDIRTAPRSNDVSVTSQLSYHEAMHLCSVRNVT
DFYYDSCVFDLLMTGERQFSLAAKLAMLDAQSMDPKLRLRRSNSVVLQVA
SQQQQRVQHYSSSRTLTHSSVLVVLLTLWCVLALR
Run BLAST on NCBI

transcript from alignment at sc0003123:1445..2798

Legend: exonfive_prime_UTRCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00041968 ID=TCONS_00041968|Name=TCONS_00041968|organism=Clytia hemisphaerica|type=transcript|length=1354bp|location=Sequence derived from alignment at sc0003123:1445..2798 (Clytia hemisphaerica)
GATCGCTATCCAATTCAAAGAACGTGACTTAGTTTGTTCTCAAGAGAAAA
ATTACGTTGCCACATCTCAATACCTACCCGAAGCTTTCTCCGATGGTTCA
CGTACGAACGGCCCGCCTGGTTGCTTGACGACCATTTCCAAATATGACCA
AGATTCAGTAAAACTAAAAGCTTGTCGCTCCAACACTACCATTTTGATTC
GTCGCGTTGGTAGATATCTAACGTTCAATATCTTATCACCCTTCGAGATT
GTAAACAAATCCAGTGGACTTTGTCATGGTGGATGTCCAACCAGTGAACT
TGTCGATTATCTCTCTTTCTTTGCAAACCTCATCAaccaaaatgacgtca
ccaatgACATAAGAACGGCACCGCGCTCCAATGACGTCAGTGTTACGTCA
CAACTTTCGTATCACGAAGCAATGCACTTGTGCTCAGTGAGAAATGTAAC
AGACTTTTATTACGACTCTTGTGTCTTCGATCTTTTGATGACTGGAGAAA
GACAATTTTCACTAGCAGCTAAGCTGGCAATGCTTGATGCACAGAGCATG
GACCCTAAGTTACGACTGCGCCGCTCTAATAGCGTTGTATTACAAGTCGC
CAGTCAACAGCAGCAGAGAGTACAGCATTATTCATCATCAAGGACTTTAA
CTCACTCTTCTGTACTGGTAGTATTACTGACCTTATGGTGTGTACTAGCC
CTAAGGTGACAGCATTAAAGCCCTGGTCAGACTGTAGATGATTTTAAATT
ATGTTCACATTAtgagttattttttgtttttattcagaGTGTTTGTTGGG
TACACCGAACTCTAAAATTATGGATTTCCACTCAACAGCTGAAACTGAAC
AAGCAAAATTATTAGAAAAAGGAGACTTCCATTTCAATCCTTATTTTAGA
GTTCGGTGGTTGGGTACCTGTTTTGGATGGGTCTCGCAATACCACTATAG
TATTTTTTATcacaaataaattaaaaaggGTGGTTGGGAATATTTTATGG
TTCCCATACCtcctttttagaaattttatgcaTTGTTATAAATTTATAGA
AGAGAGAGAAAAATGaatgatatatatttttgagagtgataatttcaaaa
agagaattttttagtTTCTATTGAGCGTGCGAGTGTGCGAAGTGCGAGCG
TGCGAGCGGTGCGAGCGTGAAAAATGGAGAGATTTAagttatatttgaaa
aaagttaaaattgtttatgtttttttcgcCACGTTTTTGACGTCCTTGTA
CACATTTGAATgtgaatataaaaaaacaatattaatattattattattta
ctgcgctatttttttgcttatttttctgttcaatttattatttttaacaC
TTAA

Coding sequence (CDS) from alignment at sc0003123:1445..2798

>TCONS_00041968 ID=TCONS_00041968|Name=TCONS_00041968|organism=Clytia hemisphaerica|type=CDS|length=708bp|location=Sequence derived from alignment at sc0003123:1445..2798 (Clytia hemisphaerica)
ATCGCTATCCAATTCAAAGAACGTGACTTAGTTTGTTCTCAAGAGAAAAA
TTACGTTGCCACATCTCAATACCTACCCGAAGCTTTCTCCGATGGTTCAC
GTACGAACGGCCCGCCTGGTTGCTTGACGACCATTTCCAAATATGACCAA
GATTCAGTAAAACTAAAAGCTTGTCGCTCCAACACTACCATTTTGATTCG
TCGCGTTGGTAGATATCTAACGTTCAATATCTTATCACCCTTCGAGATTG
TAAACAAATCCAGTGGACTTTGTCATGGTGGATGTCCAACCAGTGAACTT
GTCGATTATCTCTCTTTCTTTGCAAACCTCATCAaccaaaatgacgtcac
caatgACATAAGAACGGCACCGCGCTCCAATGACGTCAGTGTTACGTCAC
AACTTTCGTATCACGAAGCAATGCACTTGTGCTCAGTGAGAAATGTAACA
GACTTTTATTACGACTCTTGTGTCTTCGATCTTTTGATGACTGGAGAAAG
ACAATTTTCACTAGCAGCTAAGCTGGCAATGCTTGATGCACAGAGCATGG
ACCCTAAGTTACGACTGCGCCGCTCTAATAGCGTTGTATTACAAGTCGCC
AGTCAACAGCAGCAGAGAGTACAGCATTATTCATCATCAAGGACTTTAAC
TCACTCTTCTGTACTGGTAGTATTACTGACCTTATGGTGTGTACTAGCCC
TAAGGTGA
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_025858XLOC_025858Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00041968-proteinTCONS_00041968-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00041968-exon-sc0003123-1491911889:1445..2798TCONS_00041968-exon-sc0003123-1491911889:1445..2798Clytia hemisphaericaexon
TCONS_00041968-exon-sc0003123-1510915933:1445..2798TCONS_00041968-exon-sc0003123-1510915933:1445..2798Clytia hemisphaericaexon
TCONS_00041968-exon-sc0003123-1575043694:1445..2798TCONS_00041968-exon-sc0003123-1575043694:1445..2798Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0003123supercontigsc0003123:1445..2798 .
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
0.279497	0.20057	0.223942	0.326516	1.73801	1.45326	1.12541	0.962589	2.48125	1.45695	1.64812	2.20565	19.9064	13.1746	1.96578	1.90684	11.8998	13.6347	28.3073	20.1047	19.3728	21.8295	4.31175	5.65128	6.49579	14.2497	1.3468	0.526808	0.45745	0.716948
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR009496RGM_C
Blast
[Close]
BLAST of TCONS_00041968 vs. Swiss-Prot (Human)
Match: RGMA (Repulsive guidance molecule A OS=Homo sapiens GN=RGMA PE=1 SV=3)

HSP 1 Score: 94.7449 bits (234), Expect = 7.372e-21
Identity = 66/183 (36.07%), Postives = 91/183 (49.73%), Query Frame = -2 
Query:  805 CSQEKNYVATSQYLPEAFSDGSRTNG---PPGCLTTISKYDQDSVKLKACRSNTTILIRRVGRYLTFNILSPFEIVNK-----SSGL--CHGGCPTSELVDYLSFFANLINQNDVTNDIRTAPRSNDVSVTSQLSYHEAMHLCSVR-NVTDFYYDSCVFDLLMTGERQFSLAAKLAMLDAQSM 1320
            C  +K Y A    LP AF DGS+  G       L    K     V+++A    TTI++R+VGRYLTF +  P E+VN      S GL  C  GCP ++ +D+ +F  N     + T   R A  S   +      Y  A+  C  +  V D YY +CVFDLL TG+  F+LAA  A+ D + +
Sbjct:  226 CVDQKVYQAEMDELPAAFVDGSKNGGDKHGANSLKITEKVSGQHVEIQAKYIGTTIVVRQVGRYLTFAVRMPEEVVNAVEDWDSQGLYLCLRGCPLNQQIDFQAFHTNA----EGTGARRLAAASPAPTAPETFPYETAVAKCKEKLPVEDLYYQACVFDLLTTGDVNFTLAAYYALEDVKML 404
The following BLAST results are available for this feature:
BLAST of TCONS_00041968 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
RGMA7.372e-2136.07Repulsive guidance molecule A OS=Homo sapiens GN=R... [more]
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