Gene detail

Detailed information of XP_074606933.1 in Acropora palmata

Genomic Location: NC_133893.1:1761379...1783246
NR annotation: XP_029205924.2, NPC intracellular cholesterol transporter 1-like isoform X1 [Acropora millepora]
Species Acropora palmata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

XP_074606933.1

ATGTCGCTTCGTTCGTGTTGGGTAGTGTTTTCGTGTGTCTTGGTCACATTTATGTTGGTAGCGCAGGCTAGATACCACAAAAAGGGATATTGTGTTTGGTATGGTCAATGTACAAGTGGTGCCAAACCCATGAATTGCTTTTATAATAAACCAGCCAAGGAACTTAATGATACTGAAGGGATAAAAATACTGGACGACACTTGCCCTGAGATGAAAGGTCAACCTACTTGCTGTGACACAAAACAGCTCAATGCTTTGGCAACAAACTTACAAATAATGAAACAACTTACGTCTCGCTGCCCGGCTTGCTGGAACAACATGAGGAGATTGTATTGTGAGATGACATGCAGTAAAGATCAATCACTTTTCATGGACCCCAAAACGCTGATCAATAAAAATACCACAATTTACGATATTTATTATTATGTATCAGAAACATTCAAACAAGGTTTGTATGACTCCTGCAAAGATGTTCCATTTCCTGGCAACAATGGAAAAGTCATGAAACTTCTCTGTAATAGGCCAGAAAGGAAGTGTTCTCCTCAAATACTCCTTACTTTTATGGGCAGTTCTTCAAACGGACATGCACCGTTTACTATTGAGTTCCCAACAAACCTTACGCCAGATCTTCATTGGATGAACAAAACAATCTTCAAATGCAATGAGCCTTTTTTTGATGTTCAACGTAACAGAAATGCCACCCCATGCAGTTGCCAGGACTGTAGTGCAAGCTGCCCAGCACTTCCACCACTACCTCCTAAACCAAGTCCACCAAAAATTCTAGGACTTGATATTCTTTCATTTTGCCTTCTGGTGACATTTTTGACATTTTTAGTGATTTACATCCCCACTAGTATTTTTTGCGCCTTGTTGAAAACTAGAAAGTTTGCCTCTGAACCTGCTGTAGATAACACTCATTTCCAAGAAGTTGACAATCCTGGGATTTGTGAGCGCTTGGGAAGTAAACTGGAATCTGCTTTGCGTTACTGGTTCACATGTTGGGGAATCTGGTGCAGTAGTCACCCATTGTTGGTAGTGGGTGCCTGTTTTGTTGTGGTCGGTGGTCTATCGTGTGGTCTCTTTTTTTTTACCGTGACTACAGACCCAGTACAACTCTGGTCCTCACCTAACAGTGAGGCACATCGCCAGAAAGATATCTATGATTCTAAGTTCAATCCGTTCTTCCGCACAGAACAGCTCATTATACGCTCAACTTATCCCAATTTAACTGGTTACCATAGCTACCCATATGGCACATGGGTTCCGTTTGGACCGATTTTTCATTTGGATTTATTAAATCAGGCCCTTGACCTCCAAAACAACATCACTAATATGAAGGTGCCTTTTGAATCTGGCAACATCACACTGGAGGACATCTGTTACAAGCCTTTAGCGCCAGAGATACAGAAGTGCACCATCCAAAGCGTTTTTCAGTACTTCCAAGACAACAGGACCTCACTAAACAAGTGCCTGACAAGCACCAAAGAAATATGCAACAATTATACCTTGTCTTACGACTTTAAGGCATGGGATTTCCATGATCATATATTGTCATGTACAAGCTCTCCTACGGGACAGGATACAAAGTTGGATTTGCCCTGCCTTGGTGCATATGGTGGACCTGTGCCACCAAATGTTGCCTTGGGAGGATACAATGGCACAGCTTACCAAAATGCCACAACGCTAATCATCACCTATGTGGTAAACAACTACGAAGACAAAAGCAAATTGAAGAAGGCGTTGGCTTGGGAGAAAGCCTTTATTGAGTTCATGGAAGAGTACGTCAGAAATCCCAATAACAATGACCTTACTATCAGCTTTAGTGCTGAACGGTCCATCCAAGATGAACTGGAACGAGAAAGCAATACAGATGTCATCACAATTCTAGTCAGCTATTTGATTATGTTCCTGTATGTCACTGTCGCGTTGGGACAATACACTGATTGCAGTACCATCTTGATTGATTCCAAGATTACGCTGGGTATAAGTGGCATTGCGATAGTGGCATTCTCAGTGCTTGCGTCGTTGGGTTTCTGGAGCTATGTTGGGGAACCAGCAACACTCATCATCATCGAAGTTGTACCCTTCCTAGTTTTGGCTGTTGGTGTGGACAACATTTTCATCTTGGTGCAAGCATGTCATCGGCCAAGTTCAGTGGGCAAGGAGGATGTGCCCCACATGGTTGGACGTGTCCTTGGTGAAGTTGCACCAAGCATGCTGCTAACTTCCTTATCTGAGTCAGTTGCATTTGGACTGGGTGCAATGTCAACGATGCCTGCCGTCCGCATCTTCTCGTTGTACGCCGCGGTCGCCGTGTTCGTCGACTTCTTGCTTCAGGTTACCGCCTTTGTGGCTATTCTTTCGCTTGATTACAAACGTCAACAGAACAACCGCTATGATCTTTGTTGCTGCTACAAAGAGCCAAAAAAGGACAGTTCTGGAAACATTTCATGCAACATGTACGTGGTCATGAAGTATTTTGCCGAGGGTTTGCTCTCGGACATTGTGCGACCCGTCGTGATGGCATTTTTCGTCGGTTTGCTGTTCTTCAGCATTGCTGTTATTCCAAAAATTGACGTGGGCCTGGATCAAGAACTCGCTCTCCCAAGGGATTCGTATGTGTTGAATTGGTTCCAAGACATGAAAAATTACCTCCGTGTTGGTCCTCCTGTGTATTTTGTTGTTAACGAGGGTTACAGCTACGAACACAGAAAGCAACAGAATAAGATATGCGGTGCTACAGGGTGCCAATCGGATTCCCTTGTGGGGCAGATTTTTCTGGCTTCGTTGAGACCCAAAGAAACGAGAATTGCGATGACTGCCTCCTCATGGATCGACGATTACTTCAGCTGGATTGGACCAAATGGAGCCCATTCCTGTTGTCGGTTGTTACACTATCCACGCAGTAACAAGACTGAATTCTGCAATGCTACAGTTGTGGATCCGCGTTGTTTACCGTGCATGAATGAGAGCGAGGGTCTGCGACCAACGCCAGAGCAGTTTGATAAATATCTTCCATTCTATCTCAAAGACAACCCAGAGAGCAAGTGCACGAAAGGCGGTCACGCAGCGTATGGGAACGCCGTTAAACTAAGCACTGAGAAAGGCAAACAATTTGTTCAAGCCTCTTATTTCATGACGTATCATACAGTCCTGAAAACTTCAAATGACTACACCGCGGCACTCAAGAGCGCGCGGAAAATTGCCAAGAACATATCAAACGTCGTTGGAGCAGACGTTTTTCCCTATAGCGTGTTCTACGTATTCTATGAGCAGTATTTGACCATTGTTAAGGATACTTGGGAAAACCTTCTGTATTGTGATGCTGCCATTTTTGTTGTGACTTTTCTTCTCCTCGGTTTCAACTTAAGCATCGCCATTATTGTGACCTTCACTGTCTCGCTTATCGTTGTGAATTTGATGGGTTTGATGTATGTGTGGAATATATCACTCAATGCGGTGTCCTTGGTTAATCTTGTCATGGCTGTTGGTATTTCGGTAGAATTCTGTTCCCACATTGCACGCGCGTTTACAGTCAACAGACATCCTTCTAAAGTGGAAAGGGCCAAAGAGGCGTTGGCCAGAATGGGAAGTTCGGTTTTTAGTGGAATAACACTTACAAAATTTTCTGGAATTGTGGTACTTTACTTCTCCAAATCACAAATATTTCAGGTCTTCTACTTTCGCATGTATCTCGGGGTAGTTTTGATTGGAGCGTTTCACGGCCTCGTATTTTTACCCGTGCTATTGAGCTACACCGGGCCCTCACATTCTCAGGCTTCAAGTCTTCTTCTGGAAACTTCGCGGAAGCCGTCTATAGCCCACGTCAGTGAGGAGAGACGACCACTCCTCGGATCCGACCATCCTGGAATTCAATAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P56941	NPC intracellular cholesterol transporter 1 OS=Sus scrofa OX=9823 GN=NPC1 PE=2 SV=1
O35604	NPC intracellular cholesterol transporter 1 OS=Mus musculus OX=10090 GN=Npc1 PE=1 SV=2
O15118	NPC intracellular cholesterol transporter 1 OS=Homo sapiens OX=9606 GN=NPC1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001652 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16414 all species →	NPC1_N	Niemann-Pick C1 N terminus	Domain	Interproscan
PF02460 all species →	Patched	Patched family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000731 all species →	Domain	Sterol-sensing domain	Interproscan
IPR032190 all species →	Domain	Niemann-Pick C1, N-terminal	Interproscan
IPR003392 all species →	Family	Protein patched/dispatched	Interproscan
IPR004765 all species →	Family	NPC1-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45727 all species →	NPC INTRACELLULAR CHOLESTEROL TRANSPORTER 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0005319 all species →	Molecular Function	lipid transporter activity	Interproscan
GO:0015918 all species →	Biological Process	sterol transport	Interproscan
GO:0032934 all species →	Molecular Function	sterol binding	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K12385	NPC1; Niemann-Pick C1 protein	-	Transporters	ko02000	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of XP_074606933.1 across 84 RNA-seq samples of Acropora palmata. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

84Samples

80TPM > 0

2Conditions

185.6Max TPM

64.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
all_coral_tissue · exposed	46	45	57.36	126.11
all_coral_tissue · baseline	38	35	74.05	185.63

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR8800039	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	126.11
SRR8800075	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	125.96
SRR8800105	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	106.13
SRR8800056	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	103.92
SRR8800045	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	101.60
SRR8800036	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	97.17
SRR8800097	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	96.18
SRR8800068	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	94.12
SRR8800034	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	93.81
SRR8800080	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	93.69
SRR8800042	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	92.04
SRR8800066	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	87.54
SRR8800099	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	86.78
SRR8800051	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	83.88
SRR8800077	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	82.23
SRR8800100	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	81.58
SRR8800083	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	80.95
SRR8800093	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	69.74
SRR8800073	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	68.48
SRR8800053	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	66.60
SRR8800079	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	63.12
SRR8800071	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	60.42
SRR8800038	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	60.37
SRR8800044	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	58.12
SRR8800033	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	55.71
SRR8800092	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	49.06
SRR8800062	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	34.80
SRR8800060	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	34.67
SRR8800094	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	34.52
SRR8800063	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	30.39
SRR8800047	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	29.90
SRR8800091	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	29.40
SRR8800107	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	28.62
SRR8800026	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	26.70
SRR8800058	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	25.83
SRR8800028	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	25.81
SRR8800040	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	22.72
SRR8800065	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	20.33
SRR8800088	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	19.87
SRR8800061	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	18.31
SRR8800087	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	15.88
SRR8800095	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	15.40
SRR8800029	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	15.35
SRR8800027	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	13.88
SRR8800089	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	10.76
SRR8800086	all_coral_tissue · exposed	all_coral_tissue	not recorded	exposed	SRP189781	0.00
SRR8800043	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	185.63
SRR8800041	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	165.11
SRR8800109	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	155.20
SRR8800106	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	135.20
SRR8800076	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	130.25
SRR8800057	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	127.68
SRR8800048	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	125.08
SRR8800104	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	119.23
SRR8800074	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	118.97
SRR8800037	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	117.90
SRR8800108	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	111.76
SRR8800069	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	102.99
SRR8800101	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	101.24
SRR8800049	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	99.41
SRR8800081	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	96.30
SRR8800050	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	86.07
SRR8800032	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	80.76
SRR8800067	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	75.36
SRR8800096	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	74.90
SRR8800078	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	74.80
SRR8800098	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	73.40
SRR8800035	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	72.41
SRR8800082	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	65.93
SRR8800072	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	59.26
SRR8800103	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	50.99
SRR8800046	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	37.12
SRR8800031	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	34.95
SRR8800102	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	22.41
SRR8800070	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	20.60
SRR8800030	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	19.50
SRR8800090	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	17.01
SRR8800055	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	16.23
SRR8800064	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	15.47
SRR8800084	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	14.53
SRR8800085	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	10.28
SRR8800052	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	0.00
SRR8800054	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	0.00
SRR8800059	all_coral_tissue · baseline	all_coral_tissue	not recorded	baseline	SRP189781	0.00

Source: CnidoSite RNA-seq expression matrices (APALM_TPM, StringTie quantification over 84 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.