TCONS_00018317 (transcript) - C. hemisphaerica

Overview
NameTCONS_00018317
Unique NameTCONS_00018317
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length1210

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00018317 ID=TCONS_00018317|Name=TCONS_00018317|organism=Clytia hemisphaerica|type=transcript|length=1210bp
ATTGTTGGAATAGAGCCAATATTCAGAACCTTCGCCAAGACATAGATACC
AACATCAAGAATTTAGTCGCATCAACAACTCCTGATACTTCTGTTAAATG
ACATTTGGATAAACTTGAAATACATTCTTCTTACTGCGCAAGCCACACAT
GTTCCTACAAAAATCACCTCACAAAGATTTCAACAACCATGGTTTAACAG
AGCCTGCAAAAAAGCAGTCCGNAATATCAATCCTAAGAAAGCTTGTGGTC
CCGACAATGTCTCAGCAAGGATTCTCCATGTATGTGCAGACATTTTACCT
AACATCTTTGTTTTACTTTTCACGGCATCACTCGAACAAGGAGCCATTCC
AAACGACTGGCGACATGCATTAGTGAATCCACTTTACAAAGGTGGGAATA
AAGATCGATCAAAAGCTGAGAACTATAGGCCGATCAGCCTAACATCGATC
ACTTGCAAGCTTATGGAGCACATAATCCACAGCAATATAATGACTCATTT
TGATCAGGACCACACACTTTCTGATACACAACATGGCTTTAGAAAATTTC
GATCATGCGAGACGCAGCTAATTCAAACCATAAATACGCTGGCGCAATCT
TTGAACAATCGCGAACAAACAGACTCCATTTTGTTGGATTTTAGTAAAGC
TTTTGACAAGGTTTGTCACAGAAAACTTTTATTGAAACTTGAACATTATG
GCATCCATGGAACCTTGCTTAAATGGATAGCGGATTTTCTGAACAATCGT
AGTCAATGTGTAGCTGTAAGAGGAACTCTGTCAAAGCGGATAGCGGTCAC
TTCAGGTGTCCCTCAAGGCTCAGTTCTTGGTCCCCTCTTGTTTCTTGTTT
ATATAAACGATATGCCCTTGCATGTTGATTCAAATATTGCTTTGTTTGCT
GACGATTCCTACTTATTCAAAGTAATCAAATGCCTAAATGATGCATATTC
ATTACAAGCAGACCTTGACAAGTTAGTGGAGTGGGAAAAGCAATGGTCAA
TGGAGTTCCACCCGGGGAAATGCTATGTACTTTGCATAACaaacaaacat
aaaattattGACCACACCTATACAATCCATGGTCAAAACTTGAAGGCAGT
TGATAAAGTGAAATACCTTGGAGTAACCATTTCCAAGAATCTCTCTTGGA
AACATCATGTTTCAGTCATCACTGCTAAGGCAAATTCCACCAGGATATTT
CTTCAAAGGN
Run BLAST on NCBI

protein sequence of TCONS_00018317-protein

>TCONS_00018317-protein ID=TCONS_00018317-protein|Name=TCONS_00018317-protein|organism=Clytia hemisphaerica|type=polypeptide|length=249bp
MEHIIHSNIMTHFDQDHTLSDTQHGFRKFRSCETQLIQTINTLAQSLNNR
EQTDSILLDFSKAFDKVCHRKLLLKLEHYGIHGTLLKWIADFLNNRSQCV
AVRGTLSKRIAVTSGVPQGSVLGPLLFLVYINDMPLHVDSNIALFADDSY
LFKVIKCLNDAYSLQADLDKLVEWEKQWSMEFHPGKCYVLCITNKHKIID
HTYTIHGQNLKAVDKVKYLGVTISKNLSWKHHVSVITAKANSTRIFLQR
Run BLAST on NCBI

transcript from alignment at sc0000295:154452..155661

Legend: exonthree_prime_UTRCDSfive_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00018317 ID=TCONS_00018317|Name=TCONS_00018317|organism=Clytia hemisphaerica|type=transcript|length=1210bp|location=Sequence derived from alignment at sc0000295:154452..155661 (Clytia hemisphaerica)
NCCTTTGAAGAAATATCCTGGTGGAATTTGCCTTAGCAGTGATGACTGAA
ACATGATGTTTCCAAGAGAGATTCTTGGAAATGGTTACTCCAAGGTATTT
CACTTTATCAACTGCCTTCAAGTTTTGACCATGGATTGTATAGGTGTGGT
CaataattttatgtttgtttGTTATGCAAAGTACATAGCATTTCCCCGGG
TGGAACTCCATTGACCATTGCTTTTCCCACTCCACTAACTTGTCAAGGTC
TGCTTGTAATGAATATGCATCATTTAGGCATTTGATTACTTTGAATAAGT
AGGAATCGTCAGCAAACAAAGCAATATTTGAATCAACATGCAAGGGCATA
TCGTTTATATAAACAAGAAACAAGAGGGGACCAAGAACTGAGCCTTGAGG
GACACCTGAAGTGACCGCTATCCGCTTTGACAGAGTTCCTCTTACAGCTA
CACATTGACTACGATTGTTCAGAAAATCCGCTATCCATTTAAGCAAGGTT
CCATGGATGCCATAATGTTCAAGTTTCAATAAAAGTTTTCTGTGACAAAC
CTTGTCAAAAGCTTTACTAAAATCCAACAAAATGGAGTCTGTTTGTTCGC
GATTGTTCAAAGATTGCGCCAGCGTATTTATGGTTTGAATTAGCTGCGTC
TCGCATGATCGAAATTTTCTAAAGCCATGTTGTGTATCAGAAAGTGTGTG
GTCCTGATCAAAATGAGTCATTATATTGCTGTGGATTATGTGCTCCATAA
GCTTGCAAGTGATCGATGTTAGGCTGATCGGCCTATAGTTCTCAGCTTTT
GATCGATCTTTATTCCCACCTTTGTAAAGTGGATTCACTAATGCATGTCG
CCAGTCGTTTGGAATGGCTCCTTGTTCGAGTGATGCCGTGAAAAGTAAAA
CAAAGATGTTAGGTAAAATGTCTGCACATACATGGAGAATCCTTGCTGAG
ACATTGTCGGGACCACAAGCTTTCTTAGGATTGATATTNCGGACTGCTTT
TTTGCAGGCTCTGTTAAACCATGGTTGTTGAAATCTTTGTGAGGTGATTT
TTGTAGGAACATGTGTGGCTTGCGCAGTAAGAAGAATGTATTTCAAGTTT
ATCCAAATGTCATTTAACAGAAGTATCAGGAGTTGTTGATGCGACTAAAT
TCTTGATGTTGGTATCTATGTCTTGGCGAAGGTTCTGAATATTGGCTCTA
TTCCAACAAT

Coding sequence (CDS) from alignment at sc0000295:154452..155661

>TCONS_00018317 ID=TCONS_00018317|Name=TCONS_00018317|organism=Clytia hemisphaerica|type=CDS|length=747bp|location=Sequence derived from alignment at sc0000295:154452..155661 (Clytia hemisphaerica)
CCTTTGAAGAAATATCCTGGTGGAATTTGCCTTAGCAGTGATGACTGAAA
CATGATGTTTCCAAGAGAGATTCTTGGAAATGGTTACTCCAAGGTATTTC
ACTTTATCAACTGCCTTCAAGTTTTGACCATGGATTGTATAGGTGTGGTC
aataattttatgtttgtttGTTATGCAAAGTACATAGCATTTCCCCGGGT
GGAACTCCATTGACCATTGCTTTTCCCACTCCACTAACTTGTCAAGGTCT
GCTTGTAATGAATATGCATCATTTAGGCATTTGATTACTTTGAATAAGTA
GGAATCGTCAGCAAACAAAGCAATATTTGAATCAACATGCAAGGGCATAT
CGTTTATATAAACAAGAAACAAGAGGGGACCAAGAACTGAGCCTTGAGGG
ACACCTGAAGTGACCGCTATCCGCTTTGACAGAGTTCCTCTTACAGCTAC
ACATTGACTACGATTGTTCAGAAAATCCGCTATCCATTTAAGCAAGGTTC
CATGGATGCCATAATGTTCAAGTTTCAATAAAAGTTTTCTGTGACAAACC
TTGTCAAAAGCTTTACTAAAATCCAACAAAATGGAGTCTGTTTGTTCGCG
ATTGTTCAAAGATTGCGCCAGCGTATTTATGGTTTGAATTAGCTGCGTCT
CGCATGATCGAAATTTTCTAAAGCCATGTTGTGTATCAGAAAGTGTGTGG
TCCTGATCAAAATGAGTCATTATATTGCTGTGGATTATGTGCTCCAT
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_010283XLOC_010283Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00018317-proteinTCONS_00018317-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00018317-exon-sc0000295-1491911889:154452..155661TCONS_00018317-exon-sc0000295-1491911889:154452..155661Clytia hemisphaericaexon
TCONS_00018317-exon-sc0000295-1510915933:154452..155661TCONS_00018317-exon-sc0000295-1510915933:154452..155661Clytia hemisphaericaexon
TCONS_00018317-exon-sc0000295-1575043694:154452..155661TCONS_00018317-exon-sc0000295-1575043694:154452..155661Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0000295supercontigsc0000295:154452..155661 .
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
1.98731	1.42584	2.99718	3.2493	3.29362	2.77967	2.36035	2.99664	1.36955	1.43686	1.72859	1.60849	1.93945	1.73538	1.99455	2.07393	2.30389	1.71137	1.71261	2.29389	2.29075	1.51751	0.918444	1.37646	2.4456	2.03179	2.21225	1.57104	0.771942	1.25035
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR000477RT_dom
Blast
[Close]
BLAST of TCONS_00018317 vs. Swiss-Prot (Human)
Match: LORF2 (LINE-1 retrotransposable element ORF2 protein OS=Homo sapiens PE=1 SV=1)

HSP 1 Score: 83.1889 bits (204), Expect = 5.586e-17
Identity = 64/250 (25.60%), Postives = 116/250 (46.40%), Query Frame = 1 
Query:  217 VRNINPKKACGPDNVSARILHVCADILPNIFVLLFTASLEQGAIPNDWRHALVNPLYKGGNKDRSKAENYRPISLTSITCKLMEHIIHSNIMTHFDQDHTLSDTQHGFRKFRSCETQLIQTINTLAQSLNNREQTDSILL--DFSKAFDKVCHRKLLLKLEHYGIHGTLLKWIADFLNNRSQCVAVRGTLSKRIAVTSGVPQGSVLGPLLFLVYINDMPLHV--------------DSNIALFADDSYLF 918
            + ++  KK+ GPD  +A       + L    + LF +  ++G +PN +  A +  + K G +D +K EN+RPISL +I  K++  I+ + I  H  +   +   Q GF         + ++IN + Q +N  +  + +++  D  KAFDK+    +L  L   GI G  LK I    +  +  + + G   +   + +G  QG  L PLLF + +  +   +              +  ++LFADD  ++
Sbjct:  462 INSLPTKKSPGPDGFTAEFYQRYKEELVPFLLKLFQSIEKEGILPNSFYEASIILIPKPG-RDTTKKENFRPISLMNIDAKILNKILANRIQQHIKK--LIHHDQVGFIPGMQGWFNIRKSINVI-QHINRAKDKNHVIISIDAEKAFDKIQQPFMLKTLNKLGIDGMYLKIIRAIYDKPTANIILNGQKLEAFPLKTGTRQGCPLSPLLFNIVLEVLARAIRQEKEIKGIQLGKEEVKLSLFADDMIVY 707
The following BLAST results are available for this feature:
BLAST of TCONS_00018317 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
LORF25.586e-1725.60LINE-1 retrotransposable element ORF2 protein OS=H... [more]
back to top