Gene detail

Detailed information of CsqKR_Scaf107_8.29 in Chrysomallon squamiferum Gene info

Gene ID	Annotation	Chromosome	Start	End	Strand
CsqKR_Scaf107_8.29	NPC INTRACELLULAR CHOLESTEROL TRANSPORTER 1	chr14	16275162	16290936	+

Gene Structure

More details in Jbrowse Sequence

CDS

CsqKR_Scaf107_8.29

ACCTTATCTCAGAATGAAGAAGATGGTCACTGTATTTGGTATGACCAGTGTGGTATTGACGATGTGACGGGAAAAGAACTCAATTGTTTGTACAATGGTACAGCAAAACCTCTCACAGATAAGAAAGCACTGGCTGTCTACAAATCATTTTGTCCAGACTTGTACAATGCTGCAGGTGGGAAGCAGGTAAAAACATGTTGTTCTCCAAAGCAGCTGTACACGCTAGAATCTGGTATGGGCGTTCCCAGGCAATTTTTCTCACGATGCCCAACATGTCTTCACAACTTTCTCAACCTGTATTGCTACTTCACGTGTGCTCCTTTTCACAGTTCGTTCATGTATGTGCAGCATACCGTTCCTGGAACAAAACCAGGAACCATTGCGATCAAAAGTGTAAACATGTCGGTGTCTGAAGATTTCGGTGTCGGAATGTTTAATTCGTGCAAAAACGTACAAATGCCGAGTGCAAACGAACGAGCTATTGGTGCCTTGTGTGGGAAGTCGGCAGCACAGTGCACACCACAGAACTGGCTCGACTACATGGGCGGAACGTCAAACGGACAGACCCCATTCCAGATCAACTTCAACATCACTAATGAAACCCTGCATTACCCTAATGCCACTCTGGTGCCGATGAATGCCACAGTAATTCCGTGTTGGAAACCTCTCACCAACAGATCCTACCCCTGCAGCTGCCAGGACTGTCCAGCCACATGTTCTCCAAATATTCCACCCCCACCCCCACTTCCTCCATTCAAGATTCTCCACTTTGATGGGTTTGCTTTTATTTCTGGAAGTGTCTTCTTTGTGTTTCTGCTTTTCTTCGGAATCTACTGCATCTGCTACAATATCATTGTACAGGACTCGCTGTCTCTTGACCACATCGATGACGAGGACTCAGAAGGTTTCAGTATATATAGAATTGACAAAATGGGTCGGAAGCGCAGACGCAAGAATTCATTTTCACAACTGACCTACGGTCAGTTAGGCTGCATGGAGAAGTTTGGAGCCAAAATGGACAGACTGTTTGAGAAATACTTCACAAAGTGGGGTATTATGTGTGCCAGGTACCCAAAGACTGTGCTAGCCTTGGGATTTCTTTTTGTCGTCATCTTTTCTTTTGGCTTGTTCAATTTCAAAGTAATCACAGATCCAGTCAAATTGTGGTCCGCTCCAGGAAGCAAGGCTCGTGAAGAGAAAAATTATTTTGATACCCATTTTGCTCCATTTTATCGAACTGAGCAGCTGATAATCACACGGACGGGAAACAATTCGAAAGTGGCTCATCAGACAGGTTCAGCTGTAACACCTACCTACTTCAGTTCAATCTTTGACAAAGACTTTTTACATCAGGTTCTTGACCTCCAGAATGAAATAAGTTCCCTAACTGCGGAGTATAATGGTCAAATTGTGGCCCTTGAAGATATTTGCTTTTTGCCTCTGGCACCTGAACACCAAATCTGTGCAGTGACCTCAGTGTTACAGTACTACCAAAACAGCCACAAGAATCTGGACCTGGAAGTAAAGGACGAATATGGTTTCTTGGTTTTGGCCGATTATCTCGACCACTTTCAATATTGTGTAAGGTATGGTGAAAACTACAAGAATGCAACAGCACTGGTGATAACCTACCTTGTTGACAACAGCATTGACTTCAACAACAACTCCAGGGCCAAAGCTTGGGAGGCAGCGTTTCTTAAATTCATTGAGAACTACGACAACCCAAATATGAGCATTGCATATTCTTCTGAGAGATCAATAGAAGATGAAATAGAGAGAGAGAGTAATGGTGATGTTGTCACTATTTTAATCAGTTACCTCATCATGTTTGCCTACATCACCTTCACACTGGGTCAGATAAAAAGCTGTCAACGGATTCTGATTGACTCAAAGATCACTCTGGGTTTAGCTGGTGTTGTTATCGTTTTGTGTTCCGTGTCATCATCTCTTGGCTTCTTCAGCTACATTGGGCAGCCTGCTACACTGATCATAGTTGAAGTCGTTCCATTTCTAGTGCTGGCTGTTGGAGTGGACAACATTTTTATTCTTGTACAAGCTTATCAGAGGGACAAGAGATATTCTACAGAAGAAATAGAACACCAGATTGGCAGAATTGTTGGAAAAGTTGGCCCCAGTATGCTGCTCACAAGTTGTTCAGAGTCTCTGGCTTTTTTCATAGGTGCCATGACTGATATGCCGGCAAAAAATCGCATGGACTGTTGTTGCTGTATAAAGCAGACAGTGAAAGAAGAGGAAGGAGAGAGTGAAGGATTTCTCTACACATTCATTAACAAATACTACTCTCACTTCCTGATGAAAGAATGGGTTCGACCCATAGTGATGGTTATATTTACTGCTTGGTGTTGTGTTAGCATCACTCTGGCATCAAAAATAGAAATTGGACTTGATCAGAAACTCTCCATGCCACAAGATTCCTACATGATCAACTATTTTAATAATCTCTCTGAGTACCTGTCTGTTGGTCCCCCAGTCTATTTTGTTGTGAAGGATGGACACAACTACACAAGCAACGATGGGCAGAATCAGATCTGTGGTAGCAATGGCTGCGATGAAATGTCTTTGCTCGGTCAAGTGTTCAAGGCGTCTCAAATCCCTAACTACACTCATATTGCTCATCCTGCATCTTCGTGGCTTGATGATTACTTCAACTGGATGGATCCTGAGGGAAATCCACCCTGTTGCCGTAGAAACAATGAAACAGACGGATTTTGTAAAGCAACAAGTCGACCCATCGAGTCTGATTTCATGGAGTATCTGCCCTGGTTTCTCAAAGATAACCCCGAAACAAAGTGTGCCAAAGGTGGCCATCCAGCTTATGGACAAGGTGTTCAGTTGTTAGACAATAAGACTCGAGTTGGAGCGACATACTTCATGACATACCACACTATACTGAAGACATCAACAGATTTTATCGATGCTTTGAGACAGGCAAGAAAAATTGCTCATACCATAAGTGTGGACATGAATATGACCCAACACGGCTACGAAGTGTTCCCTTACAGCATATTCTACGTGTTTTACGAACAGTACCTGACGATTGTGAACGACGCCATTGTAAACTTACTTCTTTGTTGTGCTGGTATTTTCATTGTGTCGACGATTCTACTTGGATTTGAGCTGTACTCGGCGTTCACTGTGATTGTAGTCATTGGTTTTATAATCTGTGACATGTTAGGACTCATGTACCTGTGGGGAATCTCAATGAATGCTGTCGCTCTTGTTAATCTCGTCATGACTGTAGGAATATCGGTAGAGTTCTGTTCACATATAATCCGGGCTTTCACATTCAGTACAGAACTAACAAGGAAGGACAGAGCCAAAGATGCTCTGGCACACATGGGCAGCTCTGTTTTGAGTGGGATCACACTGACGAAGCTTGTTGGGGTGATTGTTTTGGCGTTTTCAAAGTCTCAGCTCTTTCAAGTGTTTTACTTCAGGATGTATTTAGGAATTGTTATCTTCGGTGCGACACACGGTCTCATCTTCCTTCCAGTTCTGCTTAGTTACTTTGTTTTGTCACTTCTAGTCAAAGAAGTAAGCTCCTCAGTATTACCACTGGCTAAATCTGGACTGTCTGAGTGTGATGTAAACTCTTTACAGCTGGGTGGAACTCTTCTTATAAATTCAAAACTGTGTTTTCAGGCTGCAAAGAGTCTACCTTTTCTTCACATGAAGCAGCTGAGTCCAGTTTTTGGTCATCTTGTATCATCGTCACCTTTAAAAGTGGACACAAATAAGTACTTTTAG

Transcript

CsqKR_Scaf107_8.29

Protein

Gene family

Gene family	Subfamily
-	-

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02460	Patched	Patched family	Family	Interproscan
PF12349	Sterol-sensing	Sterol-sensing domain of SREBP cleavage-activation	Family	Interproscan
PF16414	NPC1_N	Niemann-Pick C1 N terminus	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000731	Domain	Sterol-sensing domain	Interproscan
IPR003392	Family	Protein patched/dispatched	Interproscan
IPR032190	Domain	Niemann-Pick C1, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45727	NPC INTRACELLULAR CHOLESTEROL TRANSPORTER 1	Interproscan

Gene Ontology

GO terms	Category	Description	Source
GO:0005886	Cellular Component	plasma membrane	Interproscan
GO:0015485	Molecular Function	cholesterol binding	Interproscan
GO:0015918	Biological Process	sterol transport	Interproscan
GO:0016020	Cellular Component	membrane	Interproscan
GO:0030299	Biological Process	intestinal cholesterol absorption	Interproscan
GO:0032934	Molecular Function	sterol binding	Interproscan
GO:0042632	Biological Process	cholesterol homeostasis	Interproscan

KEGG pathway

KO	Enzyme	Enzyme ID	pathway	mapID	Source
-	-	-	-	-	-

Expression pattern

1. Expression trend for CsqKR_Scaf107_8.29 global RNA-seq network