TCONS_00002788 (transcript) - C. hemisphaerica

Overview
NameTCONS_00002788
Unique NameTCONS_00002788
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1024

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00002788 ID=TCONS_00002788|Name=TCONS_00002788|organism=Clytia hemisphaerica|type=transcript|length=1024bp
aatttttcagtatCTTCTAAATACCgtattaaaataaatatttactcTAT
GTACaatataacaaaaaatttacaaatccCAGTAATGCAAAATATAGcct
attttaaaaatttaaaaagaaaaattctcaTAAAAGTATTTTAAATATCC
AGTTAATTATATTTACAAATTTCTATTCGTACAGTAAAATTTCAGTTCAG
TTTTTCACTGAATCAAACTTTCTCTTGCCGGGTCATGAACAATTGATTTG
TTAGCGTGACGTTTAACACAGCTAAATAAAAGGTTCAAAGTAGCTGCCAA
AGATGGTTTCGAGTTTACAGTTTTCATCATTGCAGTGtcaaagacgtgtt
gtgtattgAATCTTTGTGTAGCTGAACATTCAATATATTTCAAGGCTTTA
ATTTGTTTAGCGATCTTCCGGGCTTGTTCCGTAGTTACAGGAAATTGTTT
GGCGCGTTTTAGCGTAGACACCGTCTTAACGTCATCCCGTAGATCACATT
TTGTACCGACCAAAACAAATGGTGTTCCAGGGCAAAAGTTCTTAATCTCC
GGTACCCATTTATCAACGACGTTTTTCAAAGAGTCTGGGTCGGTGACGGA
AAAACAAATCACAACCATATCGGTATCGGGATAAGAAAGCGGTCGCAAGC
GGTCGTAAGCCTCTAATCCCGCCGTATCATGTATTGAAAATTTACATTTT
GTATTTTGCAGAACAACATCCATATTATaaacttcaaatatcgtaggtAC
ATAAGTCTTGTTCGGTAGATTACCATTTTGTAAATAAGACGACAGCAAGC
AAGTTTTCCCACATCCAGAATCGCCAACCAAGATAATTTTCTTCGTTAAC
GCAGCTTGAAGATCTTTCATTTTGTATTACAAAGTGTATTGCAAAAATGG
ACGAAATTTATAAGATTTAGATGTTGACTTGACTGTACAACAGATAAAAC
TGATTTGTAGGGAGATACCATCACTTCTCTTTTATATACTTTATCTCGTC
ATCTCCGTGGTTACGTTAAGTACC
Run BLAST on NCBI

protein sequence of TCONS_00002788-protein

>TCONS_00002788-protein ID=TCONS_00002788-protein|Name=TCONS_00002788-protein|organism=Clytia hemisphaerica|type=polypeptide|length=221bp
MKDLQAALTKKIILVGDSGCGKTCLLSSYLQNGNLPNKTYVPTIFEVYNM
DVVLQNTKCKFSIHDTAGLEAYDRLRPLSYPDTDMVVICFSVTDPDSLKN
VVDKWVPEIKNFCPGTPFVLVGTKCDLRDDVKTVSTLKRAKQFPVTTEQA
RKIAKQIKALKYIECSATQRFNTQHVFDTAMMKTVNSKPSLAATLNLLFS
CVKRHANKSIVHDPARESLIQ
Run BLAST on NCBI

transcript from alignment at sc0000021:1030766..1031789

Legend: exonfive_prime_UTRCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00002788 ID=TCONS_00002788|Name=TCONS_00002788|organism=Clytia hemisphaerica|type=transcript|length=1024bp|location=Sequence derived from alignment at sc0000021:1030766..1031789 (Clytia hemisphaerica)
GGTACTTAACGTAACCACGGAGATGACGAGATAAAGTATATAAAAGAGAA
GTGATGGTATCTCCCTACAAATCAGTTTTATCTGTTGTACAGTCAAGTCA
ACATCTAAATCTTATAAATTTCGTCCATTTTTGCAATACACTTTGTAATA
CAAAATGAAAGATCTTCAAGCTGCGTTAACGAAGAAAATTATCTTGGTTG
GCGATTCTGGATGTGGGAAAACTTGCTTGCTGTCGTCTTATTTACAAAAT
GGTAATCTACCGAACAAGACTTATGTacctacgatatttgaagtttATAA
TATGGATGTTGTTCTGCAAAATACAAAATGTAAATTTTCAATACATGATA
CGGCGGGATTAGAGGCTTACGACCGCTTGCGACCGCTTTCTTATCCCGAT
ACCGATATGGTTGTGATTTGTTTTTCCGTCACCGACCCAGACTCTTTGAA
AAACGTCGTTGATAAATGGGTACCGGAGATTAAGAACTTTTGCCCTGGAA
CACCATTTGTTTTGGTCGGTACAAAATGTGATCTACGGGATGACGTTAAG
ACGGTGTCTACGCTAAAACGCGCCAAACAATTTCCTGTAACTACGGAACA
AGCCCGGAAGATCGCTAAACAAATTAAAGCCTTGAAATATATTGAATGTT
CAGCTACACAAAGATTcaatacacaacacgtctttgaCACTGCAATGATG
AAAACTGTAAACTCGAAACCATCTTTGGCAGCTACTTTGAACCTTTTATT
TAGCTGTGTTAAACGTCACGCTAACAAATCAATTGTTCATGACCCGGCAA
GAGAAAGTTTGATTCAGTGAAAAACTGAACTGAAATTTTACTGTACGAAT
AGAAATTTGTAAATATAATTAACTGGATATTTAAAATACTTTTAtgagaa
tttttctttttaaatttttaaaataggCTATATTTTGCATTACTGggatt
tgtaaattttttgttatattGTACATAgagtaaatatttattttaatacG
GTATTTAGAAGatactgaaaaatt

Coding sequence (CDS) from alignment at sc0000021:1030766..1031789

>TCONS_00002788 ID=TCONS_00002788|Name=TCONS_00002788|organism=Clytia hemisphaerica|type=CDS|length=666bp|location=Sequence derived from alignment at sc0000021:1030766..1031789 (Clytia hemisphaerica)
ATGAAAGATCTTCAAGCTGCGTTAACGAAGAAAATTATCTTGGTTGGCGA
TTCTGGATGTGGGAAAACTTGCTTGCTGTCGTCTTATTTACAAAATGGTA
ATCTACCGAACAAGACTTATGTacctacgatatttgaagtttATAATATG
GATGTTGTTCTGCAAAATACAAAATGTAAATTTTCAATACATGATACGGC
GGGATTAGAGGCTTACGACCGCTTGCGACCGCTTTCTTATCCCGATACCG
ATATGGTTGTGATTTGTTTTTCCGTCACCGACCCAGACTCTTTGAAAAAC
GTCGTTGATAAATGGGTACCGGAGATTAAGAACTTTTGCCCTGGAACACC
ATTTGTTTTGGTCGGTACAAAATGTGATCTACGGGATGACGTTAAGACGG
TGTCTACGCTAAAACGCGCCAAACAATTTCCTGTAACTACGGAACAAGCC
CGGAAGATCGCTAAACAAATTAAAGCCTTGAAATATATTGAATGTTCAGC
TACACAAAGATTcaatacacaacacgtctttgaCACTGCAATGATGAAAA
CTGTAAACTCGAAACCATCTTTGGCAGCTACTTTGAACCTTTTATTTAGC
TGTGTTAAACGTCACGCTAACAAATCAATTGTTCATGACCCGGCAAGAGA
AAGTTTGATTCAGTGA
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_001516XLOC_001516Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00002788-proteinTCONS_00002788-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00002788-exon-sc0000021-1491911889:1030766..1031789TCONS_00002788-exon-sc0000021-1491911889:1030766..1031789Clytia hemisphaericaexon
TCONS_00002788-exon-sc0000021-1510915933:1030766..1031789TCONS_00002788-exon-sc0000021-1510915933:1030766..1031789Clytia hemisphaericaexon
TCONS_00002788-exon-sc0000021-1575043694:1030766..1031789TCONS_00002788-exon-sc0000021-1575043694:1030766..1031789Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0000021supercontigsc0000021:1030766..1031789 .
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	0	0.111932	0.104789	0.110048	0.681562	0.705643	0.144957	31.4409	25.7665	90.4691	48.8619	45.7173	76.8363	34.6132	21.1123	5.724	5.11176	1.44744	1.90584	1.35538	1.87704	58.4958	24.2069	5.50802	1.57524
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR001806Small_GTPase
IPR005225Small_GTP-bd_dom
IPR003578Small_GTPase_Rho
IPR027417P-loop_NTPase
Vocabulary: Molecular Function
TermDefinition
GO:0005525GTP binding
GO:0003924GTPase activity
Vocabulary: Cellular Component
TermDefinition
GO:0005622intracellular
Vocabulary: Biological Process
TermDefinition
GO:0007264small GTPase mediated signal transduction
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0007264 small GTPase mediated signal transduction
cellular_component GO:0005622 intracellular
molecular_function GO:0003924 GTPase activity
molecular_function GO:0005525 GTP binding
Blast
[Close]
BLAST of TCONS_00002788 vs. Swiss-Prot (Human)
Match: RHOC (Rho-related GTP-binding protein RhoC OS=Homo sapiens GN=RHOC PE=1 SV=1)

HSP 1 Score: 187.193 bits (474), Expect = 3.875e-57
Identity = 85/175 (48.57%), Postives = 120/175 (68.57%), Query Frame = -2 
Query:  331 AALTKKIILVGDSGCGKTCLLSSYLQNGNLPNKTYVPTIFEVYNMDVVLQNTKCKFSIHDTAGLEAYDRLRPLSYPDTDMVVICFSVTDPDSLKNVVDKWVPEIKNFCPGTPFVLVGTKCDLRDDVKTVSTLKRAKQFPVTTEQARKIAKQIKALKYIECSATQRFNTQHVFDTA 855
            AA+ KK+++VGD  CGKTCLL  + ++   P + YVPT+FE Y  D+ +   + + ++ DTAG E YDRLRPLSYPDTD++++CFS+  PDSL+N+ +KW PE+K+FCP  P +LVG K DLR D  T   L + KQ PV +E+ R +A +I A  Y+ECSA  +   + VF+ A
Sbjct:    2 AAIRKKLVIVGDGACGKTCLLIVFSKD-QFP-EVYVPTVFENYIADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFEMA 174
The following BLAST results are available for this feature:
BLAST of TCONS_00002788 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
RHOC3.875e-5748.57Rho-related GTP-binding protein RhoC OS=Homo sapie... [more]
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