TCONS_00071899 (transcript) - C. hemisphaerica

Overview
NameTCONS_00071899
Unique NameTCONS_00071899
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1273

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00071899 ID=TCONS_00071899|Name=TCONS_00071899|organism=Clytia hemisphaerica|type=transcript|length=1273bp
GTCAGCGGAAAGATATTTGAAACCAACCAATCAACACTTGATCGCTTCAC
AGATACACTTCTTTCCAGTGACAGTCAAGACCGAAAAAGATACTACTGCG
AAAAACAGAAGCAATTCTTTTTTAACAGAGACCGCAACAAATTTGAAGCT
ATCTTGTTCTTTTATCAATCATGTGGAAAACTCTTTTTGCCACCGTTATG
CTCCCTTGAAGAATTTATCGAGGAATGCGAGTTCTTTCGTCTACCAAGAG
CAGCTATCGATCTTCTGAAGCTTTTAGAAGGTGCAGAGCTcatgcaaaat
gtcaaaaatgccAGCCGATCATTGCGGCCACCTCGAGCCAATACCTACTT
AAATAGAATACGCAACATGCTCGATTATCCAAACTCGTCTATACCTGCTA
TACTATACTTCACGATGTATTGTCTGCTTATTGTTGTCTCGATTATTAGG
TATTGTATAGAAACTCTACCTGGAAGCACTATCGACCAGAATCTTTATTG
GACTTACTTTGAAATAGCTGGAAGTGGTTTCTTTCTACTAGATTTTCTAA
TGCGATTATTACTGTCAAGATCACCGAAAAAATTCCTTTCAGAGGTATTC
ACCGTAATCGATATAATAACAATCCCGTCATACACCACCATAAATTTATT
AGTTGAGATTGAACATTACAGTTCATTATGTCGATTCTTAAAAGCCCTAC
AATTTTTACGAATTGCACGATTACTTCGTTTTGGGAAAATGTCACGGCGT
GTTTCTATAGTATACGCTATAGTCAAAGATAGCCTTCAAGATTTGCGTTA
TTTTTTCGTATGTTTGTTAGTTATTGTAACCACAAGTGGAAGTATTGTGT
ATTCTATGGAGAAAGATTCAAACAAATTAATGACGAATATACCTGAGAGT
ATGTGGTGGTCGCTCCAAGCTTACCTGACGATTGGTTACGGAGATGTTAT
CCCGCAGACAGTCGTAGGTAAAACTTTCTCCGCTTTTTATATGGCTGTTG
GCATCTTGACTTTAATGTTACCAATGTTGTCGCTGATTTTGAAGCTTGTG
AAATGTACCAAGGAGATCAATTTGGATGAGAAAATTTACGTAGATGCTGA
ATAGGAACACTTATTCACCAGTTTCAGGTTACCTGCAAAGAAATTCATAC
AAGCGAATCAGTTAACAGCACTCAAAGTCAAGGTCGAAATATATCGAGAA
TATATTTTAACGTTTTCTCGAATTTAAGTTCGGACGAAAATTGCGATTTC
AGTACTTTATTTTAttggatatt
Run BLAST on NCBI

protein sequence of TCONS_00071899-protein

>TCONS_00071899-protein ID=TCONS_00071899-protein|Name=TCONS_00071899-protein|organism=Clytia hemisphaerica|type=polypeptide|length=367bp
VSGKIFETNQSTLDRFTDTLLSSDSQDRKRYYCEKQKQFFFNRDRNKFEA
ILFFYQSCGKLFLPPLCSLEEFIEECEFFRLPRAAIDLLKLLEGAELMQN
VKNASRSLRPPRANTYLNRIRNMLDYPNSSIPAILYFTMYCLLIVVSIIR
YCIETLPGSTIDQNLYWTYFEIAGSGFFLLDFLMRLLLSRSPKKFLSEVF
TVIDIITIPSYTTINLLVEIEHYSSLCRFLKALQFLRIARLLRFGKMSRR
VSIVYAIVKDSLQDLRYFFVCLLVIVTTSGSIVYSMEKDSNKLMTNIPES
MWWSLQAYLTIGYGDVIPQTVVGKTFSAFYMAVGILTLMLPMLSLILKLV
KCTKEINLDEKIYVDAE
Run BLAST on NCBI

transcript from alignment at scaffold_64:137038..138310

Legend: exonthree_prime_UTRCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00071899 ID=TCONS_00071899|Name=TCONS_00071899|organism=Clytia hemisphaerica|type=transcript|length=1273bp|location=Sequence derived from alignment at scaffold_64:137038..138310 (Clytia hemisphaerica)
aatatccaaTAAAATAAAGTACTGAAATCGCAATTTTCGTCCGAACTTAA
ATTCGAGAAAACGTTAAAATATATTCTCGATATATTTCGACCTTGACTTT
GAGTGCTGTTAACTGATTCGCTTGTATGAATTTCTTTGCAGGTAACCTGA
AACTGGTGAATAAGTGTTCCTATTCAGCATCTACGTAAATTTTCTCATCC
AAATTGATCTCCTTGGTACATTTCACAAGCTTCAAAATCAGCGACAACAT
TGGTAACATTAAAGTCAAGATGCCAACAGCCATATAAAAAGCGGAGAAAG
TTTTACCTACGACTGTCTGCGGGATAACATCTCCGTAACCAATCGTCAGG
TAAGCTTGGAGCGACCACCACATACTCTCAGGTATATTCGTCATTAATTT
GTTTGAATCTTTCTCCATAGAATACACAATACTTCCACTTGTGGTTACAA
TAACTAACAAACATACGAAAAAATAACGCAAATCTTGAAGGCTATCTTTG
ACTATAGCGTATACTATAGAAACACGCCGTGACATTTTCCCAAAACGAAG
TAATCGTGCAATTCGTAAAAATTGTAGGGCTTTTAAGAATCGACATAATG
AACTGTAATGTTCAATCTCAACTAATAAATTTATGGTGGTGTATGACGGG
ATTGTTATTATATCGATTACGGTGAATACCTCTGAAAGGAATTTTTTCGG
TGATCTTGACAGTAATAATCGCATTAGAAAATCTAGTAGAAAGAAACCAC
TTCCAGCTATTTCAAAGTAAGTCCAATAAAGATTCTGGTCGATAGTGCTT
CCAGGTAGAGTTTCTATACAATACCTAATAATCGAGACAACAATAAGCAG
ACAATACATCGTGAAGTATAGTATAGCAGGTATAGACGAGTTTGGATAAT
CGAGCATGTTGCGTATTCTATTTAAGTAGGTATTGGCTCGAGGTGGCCGC
AATGATCGGCTggcatttttgacattttgcatgAGCTCTGCACCTTCTAA
AAGCTTCAGAAGATCGATAGCTGCTCTTGGTAGACGAAAGAACTCGCATT
CCTCGATAAATTCTTCAAGGGAGCATAACGGTGGCAAAAAGAGTTTTCCA
CATGATTGATAAAAGAACAAGATAGCTTCAAATTTGTTGCGGTCTCTGTT
AAAAAAGAATTGCTTCTGTTTTTCGCAGTAGTATCTTTTTCGGTCTTGAC
TGTCACTGGAAAGAAGTGTATCTGTGAAGCGATCAAGTGTTGATTGGTTG
GTTTCAAATATCTTTCCGCTGAC

Coding sequence (CDS) from alignment at scaffold_64:137038..138310

>TCONS_00071899 ID=TCONS_00071899|Name=TCONS_00071899|organism=Clytia hemisphaerica|type=CDS|length=1104bp|location=Sequence derived from alignment at scaffold_64:137038..138310 (Clytia hemisphaerica)
CTATTCAGCATCTACGTAAATTTTCTCATCCAAATTGATCTCCTTGGTAC
ATTTCACAAGCTTCAAAATCAGCGACAACATTGGTAACATTAAAGTCAAG
ATGCCAACAGCCATATAAAAAGCGGAGAAAGTTTTACCTACGACTGTCTG
CGGGATAACATCTCCGTAACCAATCGTCAGGTAAGCTTGGAGCGACCACC
ACATACTCTCAGGTATATTCGTCATTAATTTGTTTGAATCTTTCTCCATA
GAATACACAATACTTCCACTTGTGGTTACAATAACTAACAAACATACGAA
AAAATAACGCAAATCTTGAAGGCTATCTTTGACTATAGCGTATACTATAG
AAACACGCCGTGACATTTTCCCAAAACGAAGTAATCGTGCAATTCGTAAA
AATTGTAGGGCTTTTAAGAATCGACATAATGAACTGTAATGTTCAATCTC
AACTAATAAATTTATGGTGGTGTATGACGGGATTGTTATTATATCGATTA
CGGTGAATACCTCTGAAAGGAATTTTTTCGGTGATCTTGACAGTAATAAT
CGCATTAGAAAATCTAGTAGAAAGAAACCACTTCCAGCTATTTCAAAGTA
AGTCCAATAAAGATTCTGGTCGATAGTGCTTCCAGGTAGAGTTTCTATAC
AATACCTAATAATCGAGACAACAATAAGCAGACAATACATCGTGAAGTAT
AGTATAGCAGGTATAGACGAGTTTGGATAATCGAGCATGTTGCGTATTCT
ATTTAAGTAGGTATTGGCTCGAGGTGGCCGCAATGATCGGCTggcatttt
tgacattttgcatgAGCTCTGCACCTTCTAAAAGCTTCAGAAGATCGATA
GCTGCTCTTGGTAGACGAAAGAACTCGCATTCCTCGATAAATTCTTCAAG
GGAGCATAACGGTGGCAAAAAGAGTTTTCCACATGATTGATAAAAGAACA
AGATAGCTTCAAATTTGTTGCGGTCTCTGTTAAAAAAGAATTGCTTCTGT
TTTTCGCAGTAGTATCTTTTTCGGTCTTGACTGTCACTGGAAAGAAGTGT
ATCTGTGAAGCGATCAAGTGTTGATTGGTTGGTTTCAAATATCTTTCCGC
TGAC
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_044637XLOC_044637Clytia hemisphaericagene
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00071899-exon-scaffold_64-1491911889:137038..138310TCONS_00071899-exon-scaffold_64-1491911889:137038..138310Clytia hemisphaericaexon
TCONS_00071899-exon-scaffold_64-1510915933:137038..138310TCONS_00071899-exon-scaffold_64-1510915933:137038..138310Clytia hemisphaericaexon
TCONS_00071899-exon-scaffold_64-1575043694:137038..138310TCONS_00071899-exon-scaffold_64-1575043694:137038..138310Clytia hemisphaericaexon
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00071899-proteinTCONS_00071899-proteinClytia hemisphaericapolypeptide
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
scaffold_64supercontigscaffold_64:137038..138310 .
Expression

Hover the mouse over a column in the graph to view expression values in transcripts per million (tpm).
Sort Descending | Sort Ascending | Only Non-Zero Values | Tile/Chart | Reset | Show/Hide Values

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
0.0666875	0	0	0	0.0899318	0	0	0.0401331	0.196687	0.0696081	0.0675634	0.0666202	1.3749	0.990284	0.0757347	0.16255	0.625776	0.949272	1.8077	2.48508	1.12835	1.08502	0.267619	0.243304	0.823393	0.670958	0.182884	0.0487946	0.111027	0.0377063
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR028325VG_K_chnl
IPR003131T1-type_BTB
IPR005821Ion_trans_dom
IPR011333SKP1/BTB/POZ
Vocabulary: Biological Process
TermDefinition
GO:0006813potassium ion transport
GO:0051260protein homooligomerization
GO:0055085transmembrane transport
GO:0006811ion transport
Vocabulary: Molecular Function
TermDefinition
GO:0005249voltage-gated potassium channel activity
GO:0005216ion channel activity
Vocabulary: Cellular Component
TermDefinition
GO:0008076voltage-gated potassium channel complex
GO:0016020membrane
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006811 ion transport
biological_process GO:0006813 potassium ion transport
biological_process GO:0051260 protein homooligomerization
biological_process GO:0055085 transmembrane transport
cellular_component GO:0016020 membrane
cellular_component GO:0008076 voltage-gated potassium channel complex
molecular_function GO:0005216 ion channel activity
molecular_function GO:0005249 voltage-gated potassium channel activity
Blast
[Close]
BLAST of TCONS_00071899 vs. Swiss-Prot (Human)
Match: KCNA2 (Potassium voltage-gated channel subfamily A member 2 OS=Homo sapiens GN=KCNA2 PE=1 SV=2)

HSP 1 Score: 135.191 bits (339), Expect = 1.112e-34
Identity = 106/379 (27.97%), Postives = 176/379 (46.44%), Query Frame = 1 
Query:    1 VSGKIFETNQSTLDRFTDTLLSSDSQDRKRYYCEKQKQFFFNRDRNKFEAILFFYQSCGKLFLPPLCSLEEFIEECEFFRLPRAAIDLLKLLEGAELMQNVKNASRSLRPPRANTYLNRIRNMLDYPNSSIPAILYFTMYCLLIVVSIIRYCIETLP----------GSTIDQNLY--------------------------WTYFEIAGSGXXXXXXXXXXXXSRSPKKFLSEVFTVIDIIT-IPSYTTINL-LVEIEHYSSLCRFLKALQFLRIARLLR------FGKMSRRVSIVYAIVKDSLQDLRYFFVCLLVIVTTSGSIVYSMEKDSNK-LMTNIPESMWWSLQAYLTIGYGDVIPQTVVGKTFSAFYMAVG 1002
            +SG  FET   TL +F +TLL  D + R RY+   + ++FF+R+R  F+AIL++YQS G+L  P    L+ F EE  F+ L   A+++ +  EG      +K   R L     N +  ++  + +YP SS PA +   +  ++I++SI+ +C+ETLP          GS +  + Y                          W  FE           L+R     S   F + +  +IDI+  IP + T+   L E    +   +   +L  LR+ RL+R        + S+ + I+   +K S+++L      L + V    S VY  E D  +    +IP++ WW++ +  T+GYGD++P T+ GK   +     G
Sbjct:   39 ISGLRFETQLKTLAQFPETLLG-DPKKRMRYFDPLRNEYFFDRNRPSFDAILYYYQSGGRLRRPVNVPLDIFSEEIRFYELGEEAMEMFREDEGY-----IKEEERPL---PENEFQRQVWLLFEYPESSGPARIIAIVSVMVILISIVSFCLETLPIFRDENEDMHGSGVTFHTYSNSTIGYQQSTSFTDPFFIVETLCIIWFSFEF----------LVRFFACPSKAGFFTNIMNIIDIVAIIPYFITLGTELAEKPEDAQQGQQAMSLAILRVIRLVRVFRIFKLSRHSKGLQILGQTLKASMRELGLLIFFLFIGVILFSSAVYFAEADERESQFPSIPDAFWWAVVSMTTVGYGDMVPTTIGGKIVGSLCAIAG 398
The following BLAST results are available for this feature:
BLAST of TCONS_00071899 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
KCNA21.112e-3427.97Potassium voltage-gated channel subfamily A member... [more]
back to top