TCONS_00022395 (transcript) - C. hemisphaerica

Overview
NameTCONS_00022395
Unique NameTCONS_00022395
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1412

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00022395 ID=TCONS_00022395|Name=TCONS_00022395|organism=Clytia hemisphaerica|type=transcript|length=1412bp
TAAAGCCCGACTGTAAGACAAAACTTCATTTCCAGTTTTGATTTCaaaca
aacttcttggaatcTTCTCTAAACGAAGCAAACCACAAAACTGATTATAA
CAGaaTCAAAATGCATAATACTGAAGAATCAACTACACCAAGTGAACCGC
TGGATATAAAATGTTGTTCTTGTTATCGCTCAATACAATCTACAGATTGG
ATAAgacaagcaaaacaaaatgtttatcATTTAGCTTGTTTTTCTTGTGA
TGTCTGTAAAAGACAACTTTCCACTGGAGAAGAGTTTGCTTTGTTAGATG
ACAAAATCCTCTGTAAGTTACATTATGTGGAACAGCTGGAGCTCCCAGCT
TCTCTATCTGAAAATCATGTCCTTCATGTTCCTCCGACCCCTCGACCAGA
GATCATGCCTACACCAGATGTGGATagttggaataaacccaggaaCAAAA
GAATGCGCACATCATTCAGCGAAGAGCAAGTGCAAGTCTTACAagctaat
tttgagattgatgCAAACCCAGATTCTGCAGAGTTGGAGAGAATTGCTTC
TGATGTTTGCTTGCCAAAGCGAGTTACTCAAGTTTGGTTTCAAAACTCAA
GGGCACGTCAgaagaaacaacaacaacaagctaAAATCCACGGAATGGAT
AATTAGAGTTTTCCAATATTTGAGTAAAGTTCTTTTTCCGTGGTTACATT
GTAGATTTCTAACTAATCATATTGTAAATTGTAGGAGCCATTTCTTGGAG
ctatttttatgatttattgTAATATTTTGAATGGTTTTATATATCACTAT
CAGTGGTGTTTGTTTTGTTTAACTAGATAAGATTGGCTAAATTGTCCTCG
ATTTGCTAATTTTTTAATTCATAGTATtaatctttttacttttttattat
atttttattttttttataatttatttagcaaatattttttgattaatATT
ATaatggatattttttttttaactttgataATTCTCATACTTCTTTTTAT
CAAAGAACAAGAACTGGCCGACCCTCAGCTGCTATTAACATATTATACTC
ATATCCTCAATTCAAGCGCTTGAAACCAGATGCTGTTAAcactgtttttg
aaaatttagtgtCTGATTGTTAAGTAAtttaaattgataaaaatttagCC
TGATATTTAAGCTTGATTAAATTGctcttaaaaaacaaacatttgcTCAT
GGAACCAACAATTTGTTTTAAGGATCTTAGGAAGGTatacaaatattgtt
ttaatttttcaagtacAAATACCATTTTTTTCTTCGTCTTGATTTAGTTG
GTTTATATATAGTTATCTTTGGTTCTTGTTTATATACAGTACTTATCATA
TTATGTACAATATTGATATTAATATGAAGCTATTTACTTTTTATGCTTTT
TGTATATGTTTC
Run BLAST on NCBI

protein sequence of TCONS_00022395-protein

>TCONS_00022395-protein ID=TCONS_00022395-protein|Name=TCONS_00022395-protein|organism=Clytia hemisphaerica|type=polypeptide|length=181bp
MHNTEESTTPSEPLDIKCCSCYRSIQSTDWIRQAKQNVYHLACFSCDVCK
RQLSTGEEFALLDDKILCKLHYVEQLELPASLSENHVLHVPPTPRPEIMP
TPDVDSWNKPRNKRMRTSFSEEQVQVLQANFEIDANPDSAELERIASDVC
LPKRVTQVWFQNSRARQKKQQQQAKIHGMDN
Run BLAST on NCBI

transcript from alignment at sc0000414:61234..65650-

Legend: exonfive_prime_UTRCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00022395 ID=TCONS_00022395|Name=TCONS_00022395|organism=Clytia hemisphaerica|type=transcript|length=4417bp|location=Sequence derived from alignment at sc0000414:61234..65650- (Clytia hemisphaerica)
TAAAGCCCGACTGTAAGACAAAACTTCATTTCCAGTTTTGATTTCAAACA
AACTTCTTGGAATCTTCTCTAAACGAAGCAAACCACAAAACTGATTATAA
CAGGTAGTATTTATAATAATTCATTCCAGGGCATTCTAATCAACCTAATT
TTTTATGTTAATATTGCAAAAAAGTGTCTGTTCCTCCACCTTTATTTTGT
TTTTCACTGTTGTTTGAATTTGTATTGTTTTATTGCATGATGAACCATGT
TCATGTGGCTTTCAGCCTTGCACTCCAGCACAAAATAGCGGGGAAATGGC
TGGGAAATCATGGGGTCAATCTNTGAGGCTGGAACTTCGATTTTGAGGAT
TACGATTTTACCAGTTTTTTAGCGATTTTTGCCTCGCTAGCCCAAATCTC
GCAACCTCTTTACCTTAAGGAGAAGATCGAAATTAGAGTTTTTCAGCGTT
CCGAAAAAAACGCATAGCAGAAATTTTTTCATCTTCACATAGGATCGATT
CTCAACAACAAAATACATCTTTTTGGTCTTTGGGTTTGTTTCTGACGTTT
TACGTTTCGATCACTTTCCTTAACTCCTTGAGCGCGAAAAAAATGATTAG
CTCGTTTTCGTGCGGGCGAATAAAGATGAGGCGGCAATCTTGCACTGAGG
GTGCTACTTAGTTTCCGCCCTATTTTGCGCCAACGATAGAATGGTCCAAA
CACGNGCGAACTCCTGCGCGGGTGAAAAACTTCAATCTGTCAATCATTTT
CTCAAGCGAAGAGTACGCAAAGCGATTCTAGCTTTACGATAGTGCCACGG
GTCATCAATGGATAGTATTCAATTATCATTATCCCNTAGTCCAAATGATA
AACTATGTCGTTTTGTAAGTATTTATTTTCTGAGAGATACAAATAGTATA
TTTGAATATTATTAACTTATTTATTAAAATATTTTTGAGCGCAAATTTAA
ATATACGGTTGAATAAAAAACGAATGATAACAGTTCTGTTTATTCCTCAA
ACCCCCGGGAAATGNTTGTATTTTTTACTGCTCTATTCACATACTGAATT
TGAAAGATCTTCTATGTGTTGTTTTTTTGCAAACTTCAAAAAACTGATTT
TTGTCCCGCCTTTGCGGGACTTTGGCTTAAGTGCTTGAGCGCAGCATAGG
GTACAAAGTCCAAACATGCGTTTTCCGTAATTTTTGTGTGAAGAGTTAGG
TCTACACTGCTAGGTAGTTGACCAAATTTAATGTTTTATTTTAGAATTTT
CAATTTCTTACCCTAAAAATTGCCAAAAATTACCAAAAGTTGACCCTGTC
AGGTACTCATCTTGAAAATTAGTGAATTTGGGACCCTGCCAGATATCTTT
AGAGCGTAGAAAAGGGACCCTGACCAGCGACACGTTCCCAATTTTGCCCA
AGTGGTCGGGTTGGTCATGGTGATATAATGCAAACTTGTTTATACCTACC
TCTTTGTACCTCTTTTTAGCTTCTGCTTGAACAGTACCCAACTCGTTGAG
TCCGATGCTTCGACATTTCCTGGAGGCTGTTGGAGTCAGCTTGCCTAAAG
TTAAAATAGTGGGCAAGCAGAGGTTCATCCGGAACAGTTGTGAGGAAGGT
GTCTAAGTGTTTTTTGAATACTTCTTTGGGGCAGTTTGTCAAATCTCTTA
TTGGTCTGGGAAGGGTGTTGAATAATCGAGGGCCTTCCTGGGAAAGACTT
CTCCTCCAGATATTTTTGTGTTTGATATTGACAGCTTTTACGTTTTAGAT
TGCAAATTCTCCCCAATTTATTGACTTTAATGTAATTTTTTGATGTTTTA
AATGGTTTAAATCCTGCAAGGCTACTTTTTACTAATTTTTGTTTGACTGC
CTTGGGTTGGCTGGGAAAGTTTTGGAAGCATGGGTTTGCACGTTCATTCT
CTAGGGAGACCAAGCTGAAATTTCAGAGCTATGTATTTTATTTTTCTGAA
ATTTAAAAGCTTGAATATTAGGTAAATAAAAGGTACAAGAATAAGTATTC
TGTCATCAAATGGTTATCTGGTCATCCTGCTATTTTGATGGACGACCAGA
CAGAGATCAGATGGATTAAAAACTGATGTGAAAATACCAGACGTCTTCGT
CTGGAAGAGATCCCATCCAGATTGGAAACGATGACATAAACAAACAGGCT
CATCAAAGGATCCTTCCCCACTAAAGGAAAAAGGCAAATCTCAGAATTTT
AATTTACATAGGAAAGTGAAAAAAATCTCAGCTCTCTTAACACTAATTTT
GAGATTGGACCTCTCAGGTCAATGGCAGCAAATCGTTCTTGCCTTTATTA
TTAATACTTTTTAAAATTGGCCCAAAAATGGCCTGTACAGCATTTCTAGC
CATATTTGGGTCAGATTTTTGGAAATTTTCATATCAATAACAGTCAGCAT
GGAACTCCCCTGGTTGCAGTATACAACAATTTTGCAGTAGTTTATTTTTG
TTTAATGCATGATAAGGTTCTGGTCGGGCAAAGATGATCAGGTGTCCATT
GTCAAAATAGTGCCAGAAAAATCTTCTCTTTTATTATTAAAAGGATCTAT
GAAAAAATATTTCACATGTGTGTTTAAAAGATAAATATTAATTTACAAAC
AAAAATTGCCTAACCTATTTTCTGCTTGAATCTTAATTCTGTTTCTCTTA
CTGTAATTACAGTAGAATTGTGTGATGGTATTATAGTTATTTGAAAATAT
TTCCAGCCTATATTAATCTATTGTCAAATCGTCAACAGGCAGTGAAATGT
AGTCACATAAAACATATTTGATTGAAACCAAAAGTTTAGTCATTTCAGGT
TCATTTAGCCGATGTCACAAATACTAAAATGTAAATTTTTCACATTTTGT
ACGGAGTCCTTTCTTGAAACACTTCCTTAAATACTTGATAATTAATAAAA
GATTGTGATTAATTTATCNAAACACTTCCTTAAATACTTGATAATTAATA
AAAGATTGAGATTAATTTATTACTTACTGGAAGAATTAAAATTGGAATAT
TTTCAAAATATCTACTTAGAATATTCTGTTATTTATGTGTTATTCTTAGA
ATAACAATAATGTTGTTGCAGTACTCAGATGGTAAAATTGGAATTTAATT
TCTTTTAGAATCAAAATGCATAATACTGAAGAATCAACTACACCAAGTGA
ACCGCTGGATATAAAATGTTGTTCTTGTTATCGCTCAATACAATCTACAG
ATTGGATAAGACAAGCAAAACAAAATGTTTATCATTTAGCTTGTTTTTCT
TGTGATGTCTGTAAAAGACAACTTTCCACTGGAGAAGAGTTTGCTTTGTT
AGATGACAAAATCCTCTGTAAGTTACATTATGTGGAACAGCTGGAGCTCC
CAGCTTCTCTATCTGAAAATCATGTCCTTCATGTTCCTCCGACCCCTCGA
CCAGAGATCATGCCTACACCAGATGTGGATAGTTGGAATAAACCCAGGAA
CAAAAGAATGCGCACATCATTCAGCGAAGAGCAAGTGCAAGTCTTACAAG
CTAATTTTGAGATTGATGCAAACCCAGATTCTGCAGAGTTGGAGAGAATT
GCTTCTGATGTTTGCTTGCCAAAGCGAGTTACTCAAGTTTGGTTTCAAAA
CTCAAGGGCACGTCAGAAGAAACAACAACAACAAGCTAAAATCCACGGAA
TGGATAATTAGAGTTTTCCAATATTTGAGTAAAGTTCTTTTTCCGTGGTT
ACATTGTAGATTTCTAACTAATCATATTGTAAATTGTAGGAGCCATTTCT
TGGAGCTATTTTTATGATTTATTGTAATATTTTGAATGGTTTTATATATC
ACTATCAGTGGTGTTTGTTTTGTTTAACTAGATAAGATTGGCTAAATTGT
CCTCGATTTGCTAATTTTTTAATTCATAGTATTAATCTTTTTACTTTTTT
ATTATATTTTTATTTTTTTTATAATTTATTTAGCAAATATTTTTTGATTA
ATATTATAATGGATATTTTTTTTTTAACTTTGATAATTCTCATACTTCTT
TTTATCAAAGAACAAGAACTGGCCGACCCTCAGCTGCTATTAACATATTA
TACTCATATCCTCAATTCAAGCGCTTGAAACCAGATGCTGTTAACACTGT
TTTTGAAAATTTAGTGTCTGATTGTTAAGTAATTTAAATTGATAAAAATT
TAGCCTGATATTTAAGCTTGATTAAATTGCTCTTAAAAAACAAACATTTG
CTCATGGAACCAACAATTTGTTTTAAGGATCTTAGGAAGGTATACAAATA
TTGTTTTAATTTTTCAAGTACAAATACCATTTTTTTCTTCGTCTTGATTT
AGTTGGTTTATATATAGTTATCTTTGGTTCTTGTTTATATACAGTACTTA
TCATATTATGTACAATATTGATATTAATATGAAGCTATTTACTTTTTATG
CTTTTTGTATATGTTTC

Coding sequence (CDS) from alignment at sc0000414:61234..65650-

>TCONS_00022395 ID=TCONS_00022395|Name=TCONS_00022395|organism=Clytia hemisphaerica|type=CDS|length=546bp|location=Sequence derived from alignment at sc0000414:61234..65650- (Clytia hemisphaerica)
ATGCATAATACTGAAGAATCAACTACACCAAGTGAACCGCTGGATATAAA
ATGTTGTTCTTGTTATCGCTCAATACAATCTACAGATTGGATAAGACAAG
CAAAACAAAATGTTTATCATTTAGCTTGTTTTTCTTGTGATGTCTGTAAA
AGACAACTTTCCACTGGAGAAGAGTTTGCTTTGTTAGATGACAAAATCCT
CTGTAAGTTACATTATGTGGAACAGCTGGAGCTCCCAGCTTCTCTATCTG
AAAATCATGTCCTTCATGTTCCTCCGACCCCTCGACCAGAGATCATGCCT
ACACCAGATGTGGATAGTTGGAATAAACCCAGGAACAAAAGAATGCGCAC
ATCATTCAGCGAAGAGCAAGTGCAAGTCTTACAAGCTAATTTTGAGATTG
ATGCAAACCCAGATTCTGCAGAGTTGGAGAGAATTGCTTCTGATGTTTGC
TTGCCAAAGCGAGTTACTCAAGTTTGGTTTCAAAACTCAAGGGCACGTCA
GAAGAAACAACAACAACAAGCTAAAATCCACGGAATGGATAATTAG
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_012557XLOC_012557Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00022395-proteinTCONS_00022395-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00022395-exon-sc0000414-1575043694:65548..65650TCONS_00022395-exon-sc0000414-1575043694:65548..65650Clytia hemisphaericaexon
TCONS_00022395-exon-sc0000414-1575043694:61234..62542TCONS_00022395-exon-sc0000414-1575043694:61234..62542Clytia hemisphaericaexon
TCONS_00022395-exon-sc0000414-1510915933:65548..65650TCONS_00022395-exon-sc0000414-1510915933:65548..65650Clytia hemisphaericaexon
TCONS_00022395-exon-sc0000414-1510915933:61234..62542TCONS_00022395-exon-sc0000414-1510915933:61234..62542Clytia hemisphaericaexon
TCONS_00022395-exon-sc0000414-1491911889:65548..65650TCONS_00022395-exon-sc0000414-1491911889:65548..65650Clytia hemisphaericaexon
TCONS_00022395-exon-sc0000414-1491911889:61234..62542TCONS_00022395-exon-sc0000414-1491911889:61234..62542Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0000414supercontigsc0000414:61234..65650 -
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
4.12875	4.19873	2.27061	1.86209	38.7761	26.6816	32.0385	31.5914	38.5199	29.9207	21.124	25.0028	12.8273	11.3251	19.6096	17.8273	24.5077	24.8927	8.37036	9.31666	20.5868	20.695	17.3465	17.7995	7.82082	9.89054	35.0194	26.2824	10.9655	10.5051
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR001781Znf_LIM
IPR001356Homeobox_dom
IPR009057Homeobox-like
Vocabulary: Molecular Function
TermDefinition
GO:0003677DNA binding
GO Annotation
GO Assignments
This transcript is annotated with the following GO terms.
Category Term Accession Term Name
molecular_function GO:0003677 DNA binding
Blast
[Close]
BLAST of TCONS_00022395 vs. Swiss-Prot (Human)
Match: LHX6 (LIM/homeobox protein Lhx6 OS=Homo sapiens GN=LHX6 PE=1 SV=2)

HSP 1 Score: 139.043 bits (349), Expect = 1.822e-36
Identity = 70/149 (46.98%), Postives = 93/149 (62.42%), Query Frame = 3 
Query:  150 LDIKCCSCYRSIQSTDWIRQAKQNVYHLACFSCDVCKRQLSTGEEFALLDDKILCKLHYVEQLELPASLSENHVLHVXXXXXXXXXXXXDVDSWNKPRNKRMRTSFSEEQVQVLQANFEIDANPDSAELERIASDVCLPKRVTQVWFQN 596
               KC  C R I ++DW+R+A+ N YHLACF+C  CKRQLSTGEEF L+++K+LC++HY   +E     +EN           E     + DS  KP  KR RTSF+ EQ+QV+QA F  D NPD+  L+++A    L +RV QVWFQN
Sbjct:  127 FGTKCARCGRQIYASDWVRRARGNAYHLACFACFSCKRQLSTGEEFGLVEEKVLCRIHYDTMIENLKRAAEN-----GNGLTLEGAVPSEQDSQPKP-AKRARTSFTAEQLQVMQAQFAQDNNPDAQTLQKLADMTGLSRRVIQVWFQN 269
The following BLAST results are available for this feature:
BLAST of TCONS_00022395 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
LHX61.822e-3646.98LIM/homeobox protein Lhx6 OS=Homo sapiens GN=LHX6 ... [more]
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