TCONS_00058918 (transcript) - C. hemisphaerica

Overview
NameTCONS_00058918
Unique NameTCONS_00058918
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length828

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00058918 ID=TCONS_00058918|Name=TCONS_00058918|organism=Clytia hemisphaerica|type=transcript|length=828bp
ATCGTACATTCCTTTAAAATTAGCATATCTATCAGACAGTACCGTCGAAG
CAGTCAGATTTGCTGTATAAGTTGACATTATTATCATTAAAGCAACGGCA
TAACAAATGGATAGCAGTCGAGCAGACCAATAAATGGGTGTTTTGCCAAC
AAGATCACGCTGGAATGTTAAACCTGCACCATAAGTGAAAGAATTTTCAA
GTGTATATGGGTTAGATGTTGACGAATCATCAAACTTTGAGGTTATCTTT
TCCATCATATAGGTAGTATAGCagaaaactggtaaaattataACCAATGC
AATCATTAAATTTGAATCAATGCTTTCTATGAATTTCCAGTTAAGAAACT
TCAGCTTTTTCGGTCGATTTCCAAGTGCCATTCCAAGTCTAGTCAGGAAG
ATTTCTTCAGTAAAATCAATAACTTGAAGTCTAGGATGTGTTATTGTTAG
TCCTGTTATAGCGACATCAGCTCGACCTTCTTTTAATTCGCGCACCACTC
CATTCCATTGGCAAGTTGAATGATCTTCAACATCAGTACAATTGCTGTAT
GCACCAAACTTTGAATCTGGAACTGCATACAATTCCCAGTCAAAACCAAC
TTCTTGAAACATTTCTAAAGCTGCATCAATCATGAAACCAGCACAGCAGT
GTTTCTCCCAACTCTTTGCTCCATCTTTTGGGATGAGACATAAATATTGG
CGTTCACCACATACTAATTCCCCAGtcagttgttttttttgcaCAGGAAG
GGTAAACATATTATCGTCTAACAAAATCCCAACCACTTTTAATGTTTTAC
GATTTCTTTTGGTGCATCTTTGTCGTGC
Run BLAST on NCBI

protein sequence of TCONS_00058918-protein

>TCONS_00058918-protein ID=TCONS_00058918-protein|Name=TCONS_00058918-protein|organism=Clytia hemisphaerica|type=polypeptide|length=276bp
ARQRCTKRNRKTLKVVGILLDDNMFTLPVQKKQLTGELVCGERQYLCLIP
KDGAKSWEKHCCAGFMIDAALEMFQEVGFDWELYAVPDSKFGAYSNCTDV
EDHSTCQWNGVVRELKEGRADVAITGLTITHPRLQVIDFTEEIFLTRLGM
ALGNRPKKLKFLNWKFIESIDSNLMIALVIILPVFCYTTYMMEKITSKFD
DSSTSNPYTLENSFTYGAGLTFQRDLVGKTPIYWSARLLSICYAVALMII
MSTYTANLTASTVLSDRYANFKGMYD
Run BLAST on NCBI

transcript from alignment at scaffold_314:102364..103191

Legend: exonCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00058918 ID=TCONS_00058918|Name=TCONS_00058918|organism=Clytia hemisphaerica|type=transcript|length=828bp|location=Sequence derived from alignment at scaffold_314:102364..103191 (Clytia hemisphaerica)
GCACGACAAAGATGCACCAAAAGAAATCGTAAAACATTAAAAGTGGTTGG
GATTTTGTTAGACGATAATATGTTTACCCTTCCTGtgcaaaaaaaacaac
tgaCTGGGGAATTAGTATGTGGTGAACGCCAATATTTATGTCTCATCCCA
AAAGATGGAGCAAAGAGTTGGGAGAAACACTGCTGTGCTGGTTTCATGAT
TGATGCAGCTTTAGAAATGTTTCAAGAAGTTGGTTTTGACTGGGAATTGT
ATGCAGTTCCAGATTCAAAGTTTGGTGCATACAGCAATTGTACTGATGTT
GAAGATCATTCAACTTGCCAATGGAATGGAGTGGTGCGCGAATTAAAAGA
AGGTCGAGCTGATGTCGCTATAACAGGACTAACAATAACACATCCTAGAC
TTCAAGTTATTGATTTTACTGAAGAAATCTTCCTGACTAGACTTGGAATG
GCACTTGGAAATCGACCGAAAAAGCTGAAGTTTCTTAACTGGAAATTCAT
AGAAAGCATTGATTCAAATTTAATGATTGCATTGGTtataattttaccag
ttttctGCTATACTACCTATATGATGGAAAAGATAACCTCAAAGTTTGAT
GATTCGTCAACATCTAACCCATATACACTTGAAAATTCTTTCACTTATGG
TGCAGGTTTAACATTCCAGCGTGATCTTGTTGGCAAAACACCCATTTATT
GGTCTGCTCGACTGCTATCCATTTGTTATGCCGTTGCTTTAATGATAATA
ATGTCAACTTATACAGCAAATCTGACTGCTTCGACGGTACTGTCTGATAG
ATATGCTAATTTTAAAGGAATGTACGAT

Coding sequence (CDS) from alignment at scaffold_314:102364..103191

>TCONS_00058918 ID=TCONS_00058918|Name=TCONS_00058918|organism=Clytia hemisphaerica|type=CDS|length=828bp|location=Sequence derived from alignment at scaffold_314:102364..103191 (Clytia hemisphaerica)
GCACGACAAAGATGCACCAAAAGAAATCGTAAAACATTAAAAGTGGTTGG
GATTTTGTTAGACGATAATATGTTTACCCTTCCTGtgcaaaaaaaacaac
tgaCTGGGGAATTAGTATGTGGTGAACGCCAATATTTATGTCTCATCCCA
AAAGATGGAGCAAAGAGTTGGGAGAAACACTGCTGTGCTGGTTTCATGAT
TGATGCAGCTTTAGAAATGTTTCAAGAAGTTGGTTTTGACTGGGAATTGT
ATGCAGTTCCAGATTCAAAGTTTGGTGCATACAGCAATTGTACTGATGTT
GAAGATCATTCAACTTGCCAATGGAATGGAGTGGTGCGCGAATTAAAAGA
AGGTCGAGCTGATGTCGCTATAACAGGACTAACAATAACACATCCTAGAC
TTCAAGTTATTGATTTTACTGAAGAAATCTTCCTGACTAGACTTGGAATG
GCACTTGGAAATCGACCGAAAAAGCTGAAGTTTCTTAACTGGAAATTCAT
AGAAAGCATTGATTCAAATTTAATGATTGCATTGGTtataattttaccag
ttttctGCTATACTACCTATATGATGGAAAAGATAACCTCAAAGTTTGAT
GATTCGTCAACATCTAACCCATATACACTTGAAAATTCTTTCACTTATGG
TGCAGGTTTAACATTCCAGCGTGATCTTGTTGGCAAAACACCCATTTATT
GGTCTGCTCGACTGCTATCCATTTGTTATGCCGTTGCTTTAATGATAATA
ATGTCAACTTATACAGCAAATCTGACTGCTTCGACGGTACTGTCTGATAG
ATATGCTAATTTTAAAGGAATGTACGAT
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_037104XLOC_037104Clytia hemisphaericagene
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00058918-exon-scaffold_314-1491911889:102364..103191TCONS_00058918-exon-scaffold_314-1491911889:102364..103191Clytia hemisphaericaexon
TCONS_00058918-exon-scaffold_314-1510915933:102364..103191TCONS_00058918-exon-scaffold_314-1510915933:102364..103191Clytia hemisphaericaexon
TCONS_00058918-exon-scaffold_314-1575043694:102364..103191TCONS_00058918-exon-scaffold_314-1575043694:102364..103191Clytia hemisphaericaexon
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00058918-proteinTCONS_00058918-proteinClytia hemisphaericapolypeptide
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
scaffold_314supercontigscaffold_314:102364..103191 .
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
0.229258	0.279454	0.259578	0	0.077292	0.122154	0.147374	0.344924	0.0965958	0.179474	0.696809	0.114514	0.266827	0.19793	0.227816	0.0698518	0.73144	0.573302	0.243707	0.765065	1.66245	1.21633	0.197147	0.537707	0.984579	0.823793	0.157179	0	0.190844	0.19444
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR019594Glu/Gly-bd
IPR001320Iontro_rcpt
Vocabulary: Molecular Function
TermDefinition
GO:0005234extracellular-glutamate-gated ion channel activity
GO:0004970ionotropic glutamate receptor activity
Vocabulary: Cellular Component
TermDefinition
GO:0016020membrane
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
Category Term Accession Term Name
cellular_component GO:0016020 membrane
molecular_function GO:0005234 extracellular-glutamate-gated ion channel activity
molecular_function GO:0004970 ionotropic glutamate receptor activity
Blast
[Close]
BLAST of TCONS_00058918 vs. Swiss-Prot (Human)
Match: NMD3A (Glutamate receptor ionotropic, NMDA 3A OS=Homo sapiens GN=GRIN3A PE=1 SV=2)

HSP 1 Score: 95.9005 bits (237), Expect = 1.007e-21
Identity = 66/220 (30.00%), Postives = 100/220 (45.45%), Query Frame = -1 
Query:    1 KHCCAGFMIDAALEMFQEVGFDWELYAVPDSKFGAYSNCTDVEDHSTCQWNGVVRELKEGRADVAITGLTITHPRLQVIDFTEEIFLTRLGMALGNR--PKKLKFLNWKFIESIDSNLMIALVIILPVFCYTTYMMEKITSKFDDSSTSNPYTLENSFTYGAGLTFQRDLVGKTPIYWSARLLSICYAVALMIIMSTYTANLTASTVLSDRYANFKGMYD 654
            K CC G+ ID   ++ +++ FD++LY V D K+GA+ N           W G+V +L  G A +A+T  +I   R QVIDFT   F T LG+ +  R     +    W    ++   + +AL I   VF                 + S  ++  ++      L F R +  K P  W+ R L   +A+  M  +STYTANL A  V    Y    G++D
Sbjct:  573 KKCCYGYCIDLLEKIAEDMNFDFDLYIVGDGKYGAWKNG---------HWTGLVGDLLRGTAHMAVTSFSINTARSQVIDFTSPFFSTSLGILVRTRDTAAPIGAFMWPLHWTMWLGIFVALHITA-VFLTLYEWKSPFGLTPKGRNRSKVFSFSSALNICYALLFGRTVAIKPPKCWTGRFLMNLWAIFCMFCLSTYTANLAAVMVGEKIYEELSGIHD 782
The following BLAST results are available for this feature:
BLAST of TCONS_00058918 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
NMD3A1.007e-2130.00Glutamate receptor ionotropic, NMDA 3A OS=Homo sap... [more]
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