TCONS_00028181 (transcript) - C. hemisphaerica

Overview
NameTCONS_00028181
Unique NameTCONS_00028181
Typetranscript
OrganismClytia hemisphaerica (Jellyfish)
Sequence length614

Sequence
The following sequences are available for this feature:

transcript sequence

>TCONS_00028181 ID=TCONS_00028181|Name=TCONS_00028181|organism=Clytia hemisphaerica|type=transcript|length=614bp
NGCAGTCAAAGATGTTATCCAGACAGGATTTTCAAGTCATATAGGTGGCA
TCGCAGTTGATTGGCTGAGCAAGAATGTATACTGGTCCCAACAAAAACTG
CGAAGGATAGAAGTTTCTAGATTGGATGGAAGTTATAAACGAATTGTTGT
TAATGATATCGGTGGGATgatcactaaaatagctattgACCCGACTATAG
GGCAAATGTATTGGTTACAATCGAACAAAGGAGAGACGTACAGTGTGTAC
AGAGCACAATTAGATGGTTCATCGCCACAACCTTTGAGCACGTTCAAAGA
AAAACCGTTTGGATTGGCAGTGGATGTTGCGACGAATCGTGTTTATTGGT
TGACGGAGAAATTTATCGCTACTGCATTATGGGATGGTTCTCAAAACAAA
ACCATTTACAGTACAAAAGCAACTTCAACCGGTGGTGGACTAGTCCTATT
CAAAGACCACCTGTACCTCTGCGAGATTGAACCTGTCCTCTTGAAACCCA
CCGTTGCTTCCATCCACAAAGAGACTGGGATCAAGAAGACCATCAACACC
AAAATCACTTTTTCTAATCTTTGTCACGATATTTCGGTATACCATAGCAG
TCTTCAAAAAGGTG
Run BLAST on NCBI

protein sequence of TCONS_00028181-protein

>TCONS_00028181-protein ID=TCONS_00028181-protein|Name=TCONS_00028181-protein|organism=Clytia hemisphaerica|type=polypeptide|length=204bp
AVKDVIQTGFSSHIGGIAVDWLSKNVYWSQQKLRRIEVSRLDGSYKRIVV
NDIGGMITKIAIDPTIGQMYWLQSNKGETYSVYRAQLDGSSPQPLSTFKE
KPFGLAVDVATNRVYWLTEKFIATALWDGSQNKTIYSTKATSTGGGLVLF
KDHLYLCEIEPVLLKPTVASIHKETGIKKTINTKITFSNLCHDISVYHSS
LQKG
Run BLAST on NCBI

transcript from alignment at sc0000667:176835..177660-

Legend: exonfive_prime_UTRCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>TCONS_00028181 ID=TCONS_00028181|Name=TCONS_00028181|organism=Clytia hemisphaerica|type=transcript|length=826bp|location=Sequence derived from alignment at sc0000667:176835..177660- (Clytia hemisphaerica)
NGCAGTCAAAGATGTTATCCAGACAGGATTTTCAAGTCATATAGGTGGCA
TCGCAGTTGATTGGCTGAGCAAGAATGTATACTGGTCCCAACAAAAACTG
CGAAGGATAGAAGTTTCTAGATTGGATGGAAGTTATAAACGAATTGTTGT
TAATGATATCGGTGGGATGATCACTAAAATAGCTATTGACCCGACTATAG
GGTGAGTTCTCTCGTTCGTTCGTTCTTCATTGACTACCTCTTGATTACTT
TTAGACCTGTATTGAAGCATGTACAATAGGGTGGAACGAAGAACTATTTC
ATCCGATGTATTATTATGTGTACATAGATTCACTGCGCTGAAACGAAAAA
TCTACCCTTGAATTTCTCCAAGGCGCTCTGGTGTTAACTAAAGCATTCCT
TTTCACATAATAGGCAAATGTATTGGTTACAATCGAACAAAGGAGAGACG
TACAGTGTGTACAGAGCACAATTAGATGGTTCATCGCCACAACCTTTGAG
CACGTTCAAAGAAAAACCGTTTGGATTGGCAGTGGATGTTGCGACGAATC
GTGTTTATTGGTTGACGGAGAAATTTATCGCTACTGCATTATGGGATGGT
TCTCAAAACAAAACCATTTACAGTACAAAAGCAACTTCAACCGGTGGTGG
ACTAGTCCTATTCAAAGACCACCTGTACCTCTGCGAGATTGAACCTGTCC
TCTTGAAACCCACCGTTGCTTCCATCCACAAAGAGACTGGGATCAAGAAG
ACCATCAACACCAAAATCACTTTTTCTAATCTTTGTCACGATATTTCGGT
ATACCATAGCAGTCTTCAAAAAGGTG

Coding sequence (CDS) from alignment at sc0000667:176835..177660-

>TCONS_00028181 ID=TCONS_00028181|Name=TCONS_00028181|organism=Clytia hemisphaerica|type=CDS|length=1224bp|location=Sequence derived from alignment at sc0000667:176835..177660- (Clytia hemisphaerica)
GCAAATGTATTGGTTACAATCGAACAAAGGAGAGACGTACAGTGTGTACA
GAGCACAATTAGATGGTTCATCGCCACAACCTTTGAGCACGTTCAAAGAA
AAACCGTTTGGATTGGCAGTGGATGTTGCGACGAATCGTGTTTATTGGTT
GACGGAGAAATTTATCGCTACTGCATTATGGGATGGTTCTCAAAACAAAA
CCATTTACAGTACAAAAGCAACTTCAACCGGTGGTGGACTAGTCCTATTC
AAAGACCACCTGTACCTCTGCGAGATTGAACCTGTCCTCTTGAAACCCAC
CGTTGCTTCCATCCACAAAGAGACTGGGATCAAGAAGACCATCAACACCA
AAATCACTTTTTCTAATCTTTGTCACGATATTTCGGTATACCATAGCAGT
CTTCAAAAAGGTGCAGTCAAAGATGTTATCCAGACAGGATTTTCAAGTCA
TATAGGTGGCATCGCAGTTGATTGGCTGAGCAAGAATGTATACTGGTCCC
AACAAAAACTGCGAAGGATAGAAGTTTCTAGATTGGATGGAAGTTATAAA
CGAATTGTTGTTAATGATATCGGTGGGATGATCACTAAAATAGCTATTGA
CCCGACTATAGGGCAAATGTATTGGTTACAATCGAACAAAGGAGAGACGT
ACAGTGTGTACAGAGCACAATTAGATGGTTCATCGCCACAACCTTTGAGC
ACGTTCAAAGAAAAACCGTTTGGATTGGCAGTGGATGTTGCGACGAATCG
TGTTTATTGGTTGACGGAGAAATTTATCGCTACTGCATTATGGGATGGTT
CTCAAAACAAAACCATTTACAGTACAAAAGCAACTTCAACCGGTGGTGGA
CTAGTCCTATTCAAAGACCACCTGTACCTCTGCGAGATTGAACCTGTCCT
CTTGAAACCCACCGTTGCTTCCATCCACAAAGAGACTGGGATCAAGAAGA
CCATCAACACCAAAATCACTTTTTCTAATCTTTGTCACGATATTTCGGTA
TACCATAGCAGTCTTCAAAAAGGTGCAGTCAAAGATGTTATCCAGACAGG
ATTTTCAAGTCATATAGGTGGCATCGCAGTTGATTGGCTGAGCAAGAATG
TATACTGGTCCCAACAAAAACTGCGAAGGATAGAAGTTTCTAGATTGGAT
GGAAGTTATAAACGAATTGTTGTTAATGATATCGGTGGGATGATCACTAA
AATAGCTATTGACCCGACTATAGG
Gene-mRNA-Prot
This transcript is a part of the following gene feature(s):
Feature NameUnique NameSpeciesType
XLOC_015950XLOC_015950Clytia hemisphaericagene
The following polypeptide feature(s) derives from this transcript:
Feature NameUnique NameSpeciesType
TCONS_00028181-proteinTCONS_00028181-proteinClytia hemisphaericapolypeptide
The following exon feature(s) are a part of this transcript:
Feature NameUnique NameSpeciesType
TCONS_00028181-exon-sc0000667-1575043694:177460..177660TCONS_00028181-exon-sc0000667-1575043694:177460..177660Clytia hemisphaericaexon
TCONS_00028181-exon-sc0000667-1575043694:176835..177247TCONS_00028181-exon-sc0000667-1575043694:176835..177247Clytia hemisphaericaexon
TCONS_00028181-exon-sc0000667-1510915933:177460..177660TCONS_00028181-exon-sc0000667-1510915933:177460..177660Clytia hemisphaericaexon
TCONS_00028181-exon-sc0000667-1510915933:176835..177247TCONS_00028181-exon-sc0000667-1510915933:176835..177247Clytia hemisphaericaexon
TCONS_00028181-exon-sc0000667-1491911889:177460..177660TCONS_00028181-exon-sc0000667-1491911889:177460..177660Clytia hemisphaericaexon
TCONS_00028181-exon-sc0000667-1491911889:176835..177247TCONS_00028181-exon-sc0000667-1491911889:176835..177247Clytia hemisphaericaexon
Position
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
sc0000667supercontigsc0000667:176835..177660 -
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
2.54808	1.69432	0.918903	1.07252	26.0006	20.5484	18.6484	20.3568	10.0042	13.2135	13.3279	8.48262	8.73784	9.14654	5.07363	8.30989	12.1529	10.2158	7.14764	10.5967	7.15594	7.62346	5.49304	7.76174	16.6722	15.9238	7.6344	6.41023	6.25775	6.6475
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR000033LDLR_classB_rpt
IPR0110426-blade_b-propeller_TolB-like
Blast
[Close]
BLAST of TCONS_00028181 vs. Swiss-Prot (Human)
Match: LRP1B (Low-density lipoprotein receptor-related protein 1B OS=Homo sapiens GN=LRP1B PE=1 SV=2)

HSP 1 Score: 83.5741 bits (205), Expect = 4.707e-18
Identity = 55/188 (29.26%), Postives = 90/188 (47.87%), Query Frame = 2 
Query:   47 GIAVDWLSKNVYWSQQKLRRIEVSRLDGSYKRIVVNDIGGMITKIAIDPTIGQMYWLQSNKGETYSVYRAQLDGSSPQ-PLSTFKEKPFGLAVDVATNRVYWLTEKFIATALWDGSQNKTIYSTKATSTGGGLVLFKDHLYLCEIEPVLLKPTVASIHKETGXXXXXXXXXXFSNLCHDISVYHSSLQ 607
             +AVDW+ KN+YWS  + R IEVS+L+G Y  I+V+        +++DP  G +YW+     E   + R  +DG++    + T   +P  L +D    R+YW  E  I  +  DGS    + +         L LF+D++Y  + +      +++  HK +G  +        +    DI VYHS  Q
Sbjct: 3091 ALAVDWIGKNLYWSDTEKRIIEVSKLNGLYPTILVSKRLKFPRDLSLDPQAGYLYWIDC--CEYPHIGRVGMDGTNQSVVIETKISRPMALTIDYVNRRLYWADENHIEFSNMDGSHRHKVPNQDIPGV-IALTLFEDYIYWTDGK----TKSLSRAHKTSGADRLSLIYSWHA--ITDIQVYHSYRQ 3269
The following BLAST results are available for this feature:
BLAST of TCONS_00028181 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
LRP1B4.707e-1829.26Low-density lipoprotein receptor-related protein 1... [more]
back to top