TCONS_00043233 (transcript) - C. hemisphaerica

Overview
NameTCONS_00043233
Unique NameTCONS_00043233
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length922

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00043233 ID=TCONS_00043233|Name=TCONS_00043233|organism=Clytia hemisphaerica|type=transcript|length=922bp
TGATAAGAATAATCACAAAATAGCTCATTTATAGTGAATAAAGTATCTCA
GGTATCTTAATCATGTAAACCTCTCCTTTTTTAGGGACAAATTGAACTTT
TGAAGAGTGGGTCTAAGCTGATCTATCGGTTCAAAGACAGCCAATCATCC
AGtAAAACACGAGGTTTCGATGTTGAAGAAAAACTGATTTATCAAATcat
agaaaatgctgaaaacaAAGGGGTATGGATTCGAGACATCAGGTACAAGT
CGAATCTACAGATGACAGCTGTCAACAAAGTATTGAAAAATCTGGAGAGT
AAAAAACTGATCAAGGCCGTCAACTCCGTTGCGGCTGGTAAACGCAAAGT
ATATATGTTGTTCAATTTGGAACCCGATGCATCGGTGACGGGAGGTGCTT
GGTATAGTGATCAAGATTTCGAAGCTGAGTTTGTTGATATTCTCAATCAG
CAATGTTTCAAATTCTTACAACAAAAGGCTGCGCAAGCACAAGAAATGAA
AGTGGACCCGCTGTTAAAAAGAAATCGTTCTTATGCTTCCTCTCATGAAG
TATGGAAATTTATCGCTGAGCTTGGCATCAGTAAGgtatCACTAAGCGTC
CAAGATATTGAAACCATTCTCAACACCTTAATTTTTGACGGCAAAGCAGA
GATGATCATTATTACAGATGTGTCATCTACAGGATCATCCTCAACCAGTC
ACGAATCTAATGCagtacaaaagaaattatttagAGCTGTCAAACCTGTT
GTTCCTGTACNATGCagtacaaaagaaattatttagAGCTGTCAAACCTG
TTGTTCCTGTACCTGGTCTCATGCGTGTACCTTGTGGTGTCTGTCCTgtT
GCCAAGAATTGTTATCCAGGAGGTGCAGTCTCACCACAGACATGTATATA
CCTTAAAGATTGGTTGGATTGA
Run BLAST on NCBI

transcript from alignment at sc0004048:3265..7889+

Legend: exon
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00043233 ID=TCONS_00043233|Name=TCONS_00043233|organism=Clytia hemisphaerica|type=transcript|length=4625bp|location=Sequence derived from alignment at sc0004048:3265..7889+ (Clytia hemisphaerica)
TGATAAGAATAATCACAAAATAGCTCATTTATAGTGAATAAAGTATCTCA
GGTATCTTAATCATGTAAACCTCTCCTTTTTTAGGGACAAATTGAACTTT
TGAAGAGTGGGTCTAAGCTGATCTATCGGTTCAAAGACAGCCAATCATCC
AGGTTAGAAGCTGTTTccttattttgttttgtttctcaAGTAAACTGTTT
TGTCACACAGGGCTTATCCTTAGCCTTAGAGTGAGTATCACGAGACAATA
AAAGTTGTGAAAAAATGAAGTACTCGATCTGTCGTGGTTCAGGAGGTAAT
CTTAAGATTGCCTTAAGATTTAAATTGTGTGAATTGGATCCAAACATGAG
ACTGAAATATCCACTCAACAGCACCCATGCATTTTTAAAGGTAAAACAAA
TAAGTTgtgttttctatttttctggTAGCTTCCCATAAAAGTCACAGACC
TGACCCTTTGTCaagaatcttttttcatttatagtAAAACACGAGGTTTC
GATGTTGAAGAAAAACTGATTTATCAAATcatagaaaatgctgaaaacaA
AGGTACAGTTAATAAagctaccgggtgcaccaaaaaaaagtatacaggtt
tgtcgagatattgtgagcttcaggatttaaattttttgttcattctctTT
TTATCAtaaagaggatgctctaacttgaattttgagctatcatactttaa
atttgaaaaagtagttcaaatgttattttaaaaaaactgactttttttcc
atgtccaaatttcaaaaaatcattaaaaacagcaatcacgctataaataa
gacaaaatggcaaaatgttacattttattcttatttatattttgccaaca
gtttctccatcttatttgcTTGTcctgaacatttccaacacgagcaaact
caatgcagacccaagttctatgagcaactagtcgaggaatggtgatatat
tttttttaaagttttctcacatagcacatacataacatcaaaacctctct
tggagattttttgtcagcttttccaaaaatattatcccacatgggaatag
cttgctttaccatatttttaaattctgtaatgagttttgatgaacatagt
tgcattttttggtaNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNggtaagtgt
caagagaaaagtttgctcgctgtttttgatgattttttgaaatttcgaca
ttatataaaaaaaagtgagttttttttaaataactttcaaactacttttt
caaacctaatgtatgatagctcaaaattcaagttagagcatcctctatac
gataaaaaaagaatgaacaaagaaatttaaatcctgaagatcacaatatc
tcgacaaacctgtatacttttttttggtgcacccggtatattaaAAACTC
TGCCTGACGttatattgaaaaataataaaaacttaTATTAAAGACTGATA
GCAcgaaaaagaaaaccaaaaattgTTGACATGATTATAGGTATCAGAGG
ATCTGCGTTGTATTTGATAGACTTGCGAACGAAAAATTAACTATGACGAA
TTCTAGATTTAGGCCGGTACCCTGCTGAGAATTGCAAGCCCAGCGTTTTT
ATTAGCTTGAATATGTACTTTAGGCGACGAAACCGAATTTTTGGACCGGC
GAATTGTAAATCTTTTCGTGCCTGGGACAGGCAGAATTCGCTGTTTGCCG
GGCCTAAATAGGACTGATACTCCCATTCTCTTGAGGGAAAGTAAGTGTTT
CTGAGTGTTTTcttaataattttttatctagGGGTATGGATTCGAGACAT
CAGGTACAAGTCGAATCTACAGATGACAGCTGTCAACAAAGTATTGAAAA
ATCTGGAGAGTAAAAAACTGATCAAGGCCGTCAACTCCGTTGCGGTATGA
TAATgattatgaaaatatttgaatttctaGCCTGATTTTTTAAAATGATC
CCTTTAACAAAGGATAACAAATTTCAACATAGTGAAAAGTTTTAGCATTT
TCTTCTATAAGTAAGTTTGATATAAGACATAGGTTCTTATCAAACataca
attatttttaaatagctAGATAATATTTCACAGCCAGCTGAATCGAACAG
TGGATACAATATTACATCTGGTGGTGTATAATAACAATTATAATATCGTA
TTCTCTCTTTATTAGGCTGGTAAACGCAAAGTATATATGTTGTTCAATTT
GGAACCCGATGCATCGGTGACGGGAGGTGCTTGGTATAGTGATCAAGATT
TCGAAGCTGAGTTTGTTGATATTCTCAATCAGCAATGTTTCAAATTCTTA
CAACAAAAGGTGCATTTTTTTNCGAGTTTGTTGACATTCTCAATCAGCAA
TGTTTCAAATTCTTACAACAAAAGGTGCATTTTttttacagttgactctc
gctaattcgaattgAAACTGGGAATCTTATTGGTTCGATTTGcaggattt
cgaaaaaattatttatctaGCTacattaagggaacttattttgacgagtt
tggcaagtttagaaatttCAACGAAAtcagttctcgccaaaattataTAT
CTTACTCGCCAAAATAACCCCTAAAATTCATCAATATTgctcaaaataag
caaaaatagaacagatttagcctgtcactcgccaaaattagttctcacta
atattaaatattttcaaggtTTCTGTTACTCGCAAAAaatagttctcgcc
aaaataaattcccttATTGTACGATGGATAAAATCTGCAATCTGATTAGA
TTTATCTGCTTATACCACGCTCGTGTGGCGAATGTTACGATCTGAGCTGG
TTATTTAGTCAAAACATTCAACAAAATTCGTAAACTCGCTTCTTAGTTTA
GAGTTGAGTCCAGGTAATACCATGTTATTGAGGATAGTGGGAGTATCTTC
AGTATTCTTATCTCCATTGTAGGCTGCGCAAGCACAAGAAATGAAAGTGG
ACCCGCTGTTAAAAAGAAATCGTTCTTATGCTTCCTCTCATGAAGTATGG
AAATTTATCGCTGAGCTTGGCATCAGTAAGGTAACACAAATTCTTCCCAG
ATTTATTTGTCGTCTGAGACTTGCTCTACCTACTGATCTTTGTAAACCCT
GGACTAAGCTTTATCCACGGTCTTTGATGGTACGCTAGTAGTAGCATTAC
TTTGTTCAACTTTTCAATTCAACGAATTTTGCGGTTTGAACTGTTTTGTC
CCACATTGCATAACCATTGTCTTTACAGCGTCTCATGGGACCTGTCTGAA
AACTTCACAAATGAAATGGTCAGATCTGACTGAAATTTTGAATACCTCCT
CTTCTTATCACGTTGTCACGTCTCTTATCACCttttctttaaaagatttt
gatgttttttccaaggttcatttaaaatgaaaagaacATATTCCAAAGTA
CAAAACCAATGACCAATGACCAAAGCTCACTGATGCTTATGATGTACTTA
TTTCCACCGAATACAGGTCTTATTATGTTAATAAATGTTTTgcttatgaa
aaatattttgcttatgaaaaaatttttttccaggtatCACTAAGCGTCCA
AGATATTGAAACCATTCTCAACACCTTAATTTTTGACGGCAAAGCAGAGA
TGATCATTATTACAGATGTGTCATCTACAGGATCATCCTCAACCAGTCAC
GAATCTAATGCagtacaaaagaaattatttagAGCTGTCAAACCTGTTGT
TCCTGTACNATGCagtacaaaagaaattatttagAGCTGTCAAACCTGTT
GTTCCTGTACCTGGTCTCATGCGTGTACCTTGTGGTGTCTGTCCTGTAAG
TTAATTATTTACAGTAGCAAGGAAGTGGAGAAAGTGTCTACTTCGCATCa
tttaaaaataatgacaaattACCCCTTCGTATTCACTCCTCTTTGTGTTT
TGCGTATAATAACGACTAACagtttataaaatgaaaatatacgcatgcgt
tttaactttgttttgaaaatgaaacaatagatgtgAAGTAGACACTTTCT
CTATGTGCGCAGTGCATTTAGCCCACAATATAATCCAAATTCTAGCAAAG
AACGTATCCAcgaaatacaagaaaaaatctAAAGTAAAGCAGAAAAACCT
GACAGCTTTTCGTTTCGCAAAATAATCTAAATGAAATTTAGCGTTTAGGT
AAGAAAATGCCGTGAATGTCTACTGTAGTCTATTACACTCTTTTTGTAtg
taagaacaatgaggctcaaaagtTCAAGAAATAAGAACAATGAGCCTGGA
ATGGCTAACTGTTTATGCAAATTATTGGCAATTTGATAAAAGTAGGATAT
TAAATCTGAAATACCTCAGTTTCccgagaaatttgaaaatgataaaagca
ATTTAGACTCAAATTGCCATCCTGAGGAGTGTCAATAAAAAGTTTACTTT
TATGAAAAAAGAGCGCATATCATTAATGACgagatttttgtattttcaag
gtTGCCAAGAATTGTTATCCAGGAGGTGCAGTCTCACCACAGACATGTAT
ATACCTTAAAGATTGGTTGGATTGA
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_026949XLOC_026949Clytia hemisphaericagene
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00043233-exon-sc0004048-1491911889:3265..3416TCONS_00043233-exon-sc0004048-1491911889:3265..3416Clytia hemisphaericaexon
TCONS_00043233-exon-sc0004048-1510915933:3265..3416TCONS_00043233-exon-sc0004048-1510915933:3265..3416Clytia hemisphaericaexon
TCONS_00043233-exon-sc0004048-1575043694:3265..3416TCONS_00043233-exon-sc0004048-1575043694:3265..3416Clytia hemisphaericaexon
TCONS_00043233-exon-sc0004048-1491911889:3749..3816TCONS_00043233-exon-sc0004048-1491911889:3749..3816Clytia hemisphaericaexon
TCONS_00043233-exon-sc0004048-1510915933:3749..3816TCONS_00043233-exon-sc0004048-1510915933:3749..3816Clytia hemisphaericaexon
TCONS_00043233-exon-sc0004048-1575043694:3749..3816TCONS_00043233-exon-sc0004048-1575043694:3749..3816Clytia hemisphaericaexon
TCONS_00043233-exon-sc0004048-1491911889:5146..5258TCONS_00043233-exon-sc0004048-1491911889:5146..5258Clytia hemisphaericaexon
TCONS_00043233-exon-sc0004048-1510915933:5146..5258TCONS_00043233-exon-sc0004048-1510915933:5146..5258Clytia hemisphaericaexon
TCONS_00043233-exon-sc0004048-1575043694:5146..5258TCONS_00043233-exon-sc0004048-1575043694:5146..5258Clytia hemisphaericaexon
TCONS_00043233-exon-sc0004048-1491911889:5530..5673TCONS_00043233-exon-sc0004048-1491911889:5530..5673Clytia hemisphaericaexon
TCONS_00043233-exon-sc0004048-1510915933:5530..5673TCONS_00043233-exon-sc0004048-1510915933:5530..5673Clytia hemisphaericaexon
TCONS_00043233-exon-sc0004048-1575043694:5530..5673TCONS_00043233-exon-sc0004048-1575043694:5530..5673Clytia hemisphaericaexon
TCONS_00043233-exon-sc0004048-1491911889:6287..6394TCONS_00043233-exon-sc0004048-1491911889:6287..6394Clytia hemisphaericaexon
TCONS_00043233-exon-sc0004048-1510915933:6287..6394TCONS_00043233-exon-sc0004048-1510915933:6287..6394Clytia hemisphaericaexon
TCONS_00043233-exon-sc0004048-1575043694:6287..6394TCONS_00043233-exon-sc0004048-1575043694:6287..6394Clytia hemisphaericaexon
TCONS_00043233-exon-sc0004048-1491911889:6898..7159TCONS_00043233-exon-sc0004048-1491911889:6898..7159Clytia hemisphaericaexon
TCONS_00043233-exon-sc0004048-1510915933:6898..7159TCONS_00043233-exon-sc0004048-1510915933:6898..7159Clytia hemisphaericaexon
TCONS_00043233-exon-sc0004048-1575043694:6898..7159TCONS_00043233-exon-sc0004048-1575043694:6898..7159Clytia hemisphaericaexon
TCONS_00043233-exon-sc0004048-1491911889:7815..7889TCONS_00043233-exon-sc0004048-1491911889:7815..7889Clytia hemisphaericaexon
TCONS_00043233-exon-sc0004048-1510915933:7815..7889TCONS_00043233-exon-sc0004048-1510915933:7815..7889Clytia hemisphaericaexon
TCONS_00043233-exon-sc0004048-1575043694:7815..7889TCONS_00043233-exon-sc0004048-1575043694:7815..7889Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0004048supercontigsc0004048:3265..7889 +
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
19.4899	19.0837	9.8703	9.91208	14.0884	10.3081	13.4899	12.9436	8.66459	4.44378	5.93544	4.41052	4.07959	6.20762	6.54638	7.07637	9.11949	8.37138	4.02116	2.63097	6.40302	7.07371	17.3862	18.0005	8.28093	7.22697	1.94588	0.902252	10.0501	12.7282
Blast
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BLAST of TCONS_00043233 vs. Swiss-Prot (Human)
Match: RPC6 (DNA-directed RNA polymerase III subunit RPC6 OS=Homo sapiens GN=POLR3F PE=1 SV=1)

HSP 1 Score: 271.937 bits (694), Expect = 6.714e-89
Identity = 149/228 (65.35%), Postives = 183/228 (80.26%), Query Frame = 1 
Query:   73 LLF*GQIELLKSGSKLIYRFKDSQSSSKTRGFDVEEKLIYQIIENAENKGVWIRDIRYKSNLQMTAVNKVLKNLESKKLIKAVNSVAAGKRKVYMLFNLEPDASVTGGAWYSDQDFEAEFVDILNXXXXXXXXXXXXXXXEMKVDPLLKRNRSYASSHEVWKFIAELGISKVSLSVQDIETILNTLIFDGKAEMXXXXXXXXXXXXXXXXXXNAVQKKLFRAVKPVVP 756
            LL  GQ++LL+S + L+YR KDSQ++ K +G D +EKL+YQIIE+A NKG+W RDIRYKSNL +T +NK+LKNLESKKLIKAV SVAA K+KVYML+NL+PD SVTGGAWYSDQDFE+EFV++LNQQCFKFLQ KA  A+E K +P+++RN S+ASSHEVWK+I ELGISKV LS++DIETILNTLI+DGK EM II     T  S           KL+RAV P++P
Sbjct:   57 LLSMGQLDLLRSNTGLLYRIKDSQNAGKMKGSDNQEKLVYQIIEDAGNKGIWSRDIRYKSNLPLTEINKILKNLESKKLIKAVKSVAASKKKVYMLYNLQPDRSVTGGAWYSDQDFESEFVEVLNQQCFKFLQSKAETARESKQNPMIQRNSSFASSHEVWKYICELGISKVELSMEDIETILNTLIYDGKVEMTIIAAKEGTVGSVDG------HMKLYRAVNPIIP 278
The following BLAST results are available for this feature:
BLAST of TCONS_00043233 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
RPC66.714e-8965.35DNA-directed RNA polymerase III subunit RPC6 OS=Ho... [more]
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