TCONS_00044874 (transcript) - C. hemisphaerica

Overview
NameTCONS_00044874
Unique NameTCONS_00044874
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length856

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00044874 ID=TCONS_00044874|Name=TCONS_00044874|organism=Clytia hemisphaerica|type=transcript|length=856bp
cccttaatcaAAATCATGTTATATTTTGAATCTGAATATCATGTCCtcga
tttcaatttcaaatccaACCCTCTATCACAATCATCCCATCTTCATTATT
CCGGTCCTCAAAATCTACACGCCCATCATACGATGATCCAGTAGAGCAAC
AACCAAAACAGGAGNCCTCAAAATCTACACGCCCATCATACGATGATCCA
GTAAAGCAACAACCAAAACAGGagcaaaaatagaaataaaaccaAACCCA
TAAAAACACATGCGATCGAGGCTATTACAAATCTTTCTCCAGAGTTTACG
ATTAATTTCTTCTTCATCCATTTCCAGCGGCTGAGCGACAACCGGCGGCT
GCTGTTCCGCAACTGGCTGCGTTTTGCGTTGATGTAAGAATCGCGTTCCT
TCGTCTTTGCTATGTAAATAACCATTTGCTTCGTGCATTTCAATCGATTC
CTTTTTATTCGCGTGGTTTTTCGTTGTAGTTTGATGGCCGGCTCCACAAC
AAATTGATTTACTGGTACCgcaaaaacgcaacaaaaaatGAGGCGGTGTT
GAAGTTCTATTAGATAATTTCACAATAATCGCTGCAACAACCAACGCAAA
ACTCAAAATGTAGAACTCAATGATGAAGCAGATTCCCAACATGGGTCGGT
CATCGGATTTCTCCGGTAATTTCTCGGAAATGACCAAAAGGTATACGGTA
ATACTCAACAGAATAGTGACACCAAATCCCATCCGTTCCCCATTTTCACA
TGGGATATGAAACaccattaaaaataaaaacacctGCGAAACCAACGGTA
ATATAATGTATAGGAAATAGTACAAAGCCATTCGTCGCAACGAGAAACGA
TATTTA
Run BLAST on NCBI

protein sequence of TCONS_00044874-protein

>TCONS_00044874-protein ID=TCONS_00044874-protein|Name=TCONS_00044874-protein|organism=Clytia hemisphaerica|type=polypeptide|length=226bp
KYRFSLRRMALYYFLYIILPLVSQVFLFLMVFHIPCENGERMGFGVTILL
SITVYLLVISEKLPEKSDDRPMLGICFIIEFYILSFALVVAAIIVKLSNR
TSTPPHFLLRFCGTSKSICCGAGHQTTTKNHANKKESIEMHEANGYLHSK
DEGTRFLHQRKTQPVAEQQPPVVAQPLEMDEEEINRKLWRKICNSLDRMC
FYGFGFISIFAPVLVVALLDHRMMGV
Run BLAST on NCBI

transcript from alignment at sc0006373:913..1768

Legend: exonfive_prime_UTRCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00044874 ID=TCONS_00044874|Name=TCONS_00044874|organism=Clytia hemisphaerica|type=transcript|length=856bp|location=Sequence derived from alignment at sc0006373:913..1768 (Clytia hemisphaerica)
TAAATATCGTTTCTCGTTGCGACGAATGGCTTTGTACTATTTCCTATACA
TTATATTACCGTTGGTTTCGCaggtgtttttatttttaatggtGTTTCAT
ATCCCATGTGAAAATGGGGAACGGATGGGATTTGGTGTCACTATTCTGTT
GAGTATTACCGTATACCTTTTGGTCATTTCCGAGAAATTACCGGAGAAAT
CCGATGACCGACCCATGTTGGGAATCTGCTTCATCATTGAGTTCTACATT
TTGAGTTTTGCGTTGGTTGTTGCAGCGATTATTGTGAAATTATCTAATAG
AACTTCAACACCGCCTCattttttgttgcgtttttgcGGTACCAGTAAAT
CAATTTGTTGTGGAGCCGGCCATCAAACTACAACGAAAAACCACGCGAAT
AAAAAGGAATCGATTGAAATGCACGAAGCAAATGGTTATTTACATAGCAA
AGACGAAGGAACGCGATTCTTACATCAACGCAAAACGCAGCCAGTTGCGG
AACAGCAGCCGCCGGTTGTCGCTCAGCCGCTGGAAATGGATGAAGAAGAA
ATTAATCGTAAACTCTGGAGAAAGATTTGTAATAGCCTCGATCGCATGTG
TTTTTATGGGTTtggttttatttctatttttgctCCTGTTTTGGTTGTTG
CTTTACTGGATCATCGTATGATGGGCGTGTAGATTTTGAGGNCTCCTGTT
TTGGTTGTTGCTCTACTGGATCATCGTATGATGGGCGTGTAGATTTTGAG
GACCGGAATAATGAAGATGGGATGATTGTGATAGAGGGTtggatttgaaa
ttgaaatcgaGGACATGATATTCAGATTCAAAATATAACATGATTTtgat
taaggg

Coding sequence (CDS) from alignment at sc0006373:913..1768

>TCONS_00044874 ID=TCONS_00044874|Name=TCONS_00044874|organism=Clytia hemisphaerica|type=CDS|length=681bp|location=Sequence derived from alignment at sc0006373:913..1768 (Clytia hemisphaerica)
AAATATCGTTTCTCGTTGCGACGAATGGCTTTGTACTATTTCCTATACAT
TATATTACCGTTGGTTTCGCaggtgtttttatttttaatggtGTTTCATA
TCCCATGTGAAAATGGGGAACGGATGGGATTTGGTGTCACTATTCTGTTG
AGTATTACCGTATACCTTTTGGTCATTTCCGAGAAATTACCGGAGAAATC
CGATGACCGACCCATGTTGGGAATCTGCTTCATCATTGAGTTCTACATTT
TGAGTTTTGCGTTGGTTGTTGCAGCGATTATTGTGAAATTATCTAATAGA
ACTTCAACACCGCCTCattttttgttgcgtttttgcGGTACCAGTAAATC
AATTTGTTGTGGAGCCGGCCATCAAACTACAACGAAAAACCACGCGAATA
AAAAGGAATCGATTGAAATGCACGAAGCAAATGGTTATTTACATAGCAAA
GACGAAGGAACGCGATTCTTACATCAACGCAAAACGCAGCCAGTTGCGGA
ACAGCAGCCGCCGGTTGTCGCTCAGCCGCTGGAAATGGATGAAGAAGAAA
TTAATCGTAAACTCTGGAGAAAGATTTGTAATAGCCTCGATCGCATGTGT
TTTTATGGGTTtggttttatttctatttttgctCCTGTTTTGGTTGTTGC
TTTACTGGATCATCGTATGATGGGCGTGTAG
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_028477XLOC_028477Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00044874-proteinTCONS_00044874-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00044874-exon-sc0006373-1491911889:913..1768TCONS_00044874-exon-sc0006373-1491911889:913..1768Clytia hemisphaericaexon
TCONS_00044874-exon-sc0006373-1510915933:913..1768TCONS_00044874-exon-sc0006373-1510915933:913..1768Clytia hemisphaericaexon
TCONS_00044874-exon-sc0006373-1575043694:913..1768TCONS_00044874-exon-sc0006373-1575043694:913..1768Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0006373supercontigsc0006373:913..1768 .
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
0.115518	0.270057	0.106025	0	0.286247	0	0.150024	0	0	0.726892	0.699668	0.12482	4.72182	6.50687	0.515289	0.572609	0.743284	1.20925	17.5804	11.4412	1.42629	1.49825	0.580117	0.334507	0.138399	0.430393	0.176814	9.51983e-05	0.165146	0.216329
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR006029Neurotrans-gated_channel_TM
Vocabulary: Biological Process
TermDefinition
GO:0006811ion transport
Vocabulary: Cellular Component
TermDefinition
GO:0016021integral component of membrane
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006811 ion transport
cellular_component GO:0016021 integral component of membrane
Blast
[Close]
BLAST of TCONS_00044874 vs. Swiss-Prot (Human)
Match: ACHB3 (Neuronal acetylcholine receptor subunit beta-3 OS=Homo sapiens GN=CHRNB3 PE=2 SV=2)

HSP 1 Score: 83.5741 bits (205), Expect = 4.157e-18
Identity = 63/236 (26.69%), Postives = 119/236 (50.42%), Query Frame = -2 
Query:  211 YRFSLRRMALYYFLYIILPLVSQVFLFLMVFHIPCENGERMGFGVTILLSITVYLLVISEKLPEKSDDRPMLG--ICFIIEFYILSFALVVAAIIVKLSNRTSTPPH----FLLR-FCGTSKSICCGAGHQTTTKNHANKKESIEMHEANGYLHSKDEGTRFLHQRKTQPVAEQQPPVVAQPLEMDEEEINR---------------KLWRKICNSLDRMCFYGFGFISIFAPVLV 852
            Y F LRR+ L+Y L++I+P +   FL ++VF++P + GE++    ++L+S+TV+LLVI E +P  S   P++G  + FI+ F  LS  ++V   ++ + +R+S+  H    ++ R F      + C        K+H ++  S E  E+   +  K      L ++K + +++ +  +VA  LE   + I                 + W+ +   LDR+  + F  +S+   VL+
Sbjct:  225 YSFVLRRLPLFYTLFLIIPCLGLSFLTVLVFYLPSDEGEKLSLSTSVLVSLTVFLLVIEEIIPSSSKVIPLIGEYLLFIMIFVTLS--IIVTVFVINVHHRSSSTYHPMAPWVKRLFLQKLPKLLC-------MKDHVDRYSSPEKEESQPVVKGK-----VLEKKKQKQLSDGEKVLVAF-LEKAADSIRYISRHVKKEHFISQVVQDWKFVAQVLDRIFLWLFLIVSVTGSVLI 445
The following BLAST results are available for this feature:
BLAST of TCONS_00044874 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
ACHB34.157e-1826.69Neuronal acetylcholine receptor subunit beta-3 OS=... [more]
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