Gene detail

Detailed information of agem_s0033.g55.t2 in Acropora gemmifera

Genomic Location: sc0000033_pilon:661925...689041
NR annotation: XP_029190659.2, very low-density lipoprotein receptor-like [Acropora millepora]
Species Acropora gemmifera · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

agem_s0033.g55.t2

ATGCACTTTTTATTTGGTATACACATTATCCAATCAGACACTAGCAAAGTACTTTTGTATGTTTCGTTCCATCAAAGAGTGCGGATTCACTGGATTGAGATTGTTCACCTTTTAAGGAATCCCTCCAACTTAGATGGCTATTTTGAAGAAGCAGGGAACGTATTTGATCATGGTAACACTTGCCAACGGGTCCACTGGGAAGGAATTGACGGCTTCGAATGTTACCCGGCGTGTAAAGCCCACAAGTTGGTCTCGTTAAAAATAAGAAGAAGAAGTTCAAAGAAAGTTTGTGGCTGGTCTGGTTCTTCTTTTGGACGAAACATGACTATTTTGGCCAAGGCTGTTGTGGTGTTGTACGTTGTACACTCTGTTGTTGTGGCTACTTCCTCCTCTAATGCTTCAGCACCTTTCCATTGTGGAGATGGCAAGTTTGCCTGTGGAAGTCAGAAGTGTATACCTGATCGTTGGAGGTGTGATGACTATGATGACTGTGGAGATCAATCAGATGAAGCTGGATGCCCTGAGAAGACTTGTCTGGATCATCACTTCAATTGTACCAATGGACGCTGTGTCTGGAAATCATTTGTGTGTGACTTTGATGATGATTGTGGAGATGGATCGGATGAAGTTGGTTGTGATCGTAACCACACCTGTCCTGATAAAAAGTTTAAATGTAAAAGTGGAAAATGCATTGATATCTTGTGGAAGTGCGATGGAGAAAATGATTGTTTGGATAATTCAGATGAAACCAGTTGTGAAACAGCAACATGCCCACCCAACAAGTTTACTTGTAATAACAACAATTGTGTACCACGGCCCCATCTTTGTGATGGAGATGATGATTGCGAAGATAATTCAGATGAAACAACTGACCAATGTGCAATTTTGACTTGCAGCAGCAACCAATTTACTTGTCCCAATCACAAATGTATTCCAAGCCGCTGGAGATGCGATGGAGATGCAGACTGTTCAGACGGCTCTGATGAGAATGGCTGTGACGCACATATTACACGTTCTCCTCGAGTTTGCGCAGAACAAATGTTCAGTTGTAATGATGGAAATTGCATCAGAAACAGTTGGCGCTGCGATGGGGAAAATGATTGCGAAGATGGATCTGATGAAGAAAGATGTTCATCATGCTCATCTGACAAATTCAAGTGTGGCAATGCCTCTCTGTGCATTCCACAAAGCCAAAGATGCAATGGTAAGAGAGACTGTCCAAATGGAGAGGATGAGCCAATGAACTGCGAAATTAATGAATGCGAGTATTTCAATGGTCATTGTCAACAAGTTTGCACAGATCTTAAAGTTGGCTTTGAATGTTCGTGTCATCCTGGGTTCAAACTTGCTAATGACCAGAAAACATGTGAAGATATTGATGAATGTGAGGTGTTTGGACAGTGTAGTCAAGACTGCATCAACATGAAGGGAACGTTCGAATGTTCCTGTAAACCTGGCTATCACTTGGATGCCAACAAAATGCTTTGCAGAGCAGCTGAGACTACACCATATTTGATGTTCTCAACACAGCGCACTATTCGCAAACTTGCAATTGGGAGATCGTTTCATGACTACAGCGATGTTGTCAGAAGTCAGAAAGGAATTGCAGCACTGGACTATGACTATCGTGAAAATTATTTGTTCTGGACAGATATAAGAGATGAAAGGATTTGTGGTGCTCGCATTCCAAGCCAAGATACCAGGGCAGCTGTTTGTGAGCGGACAGTAGTTTCAAGTGTCAATTCTCCTGAAGGCATTGCTGTTGACTGGGCTACAAAGAAAATATATTGGACTGATGGAGGCCACAATGTGATTGAGGTTGCTGAATTTGATGGCTCACAGAGACTCACCTTGTTTTATAATGACATATATGATCCAAGAGCCATTGTGGTCGATCCTTTTCATGGGTATCTGTTTTGGACAGACTGGTTCACTAACAGCCCAAGAATCGAAAGATCAGGGATGGACGGAAATCCATCGACAAGAACAGTGGTTGTATCTGAGAACTTGGGTTGGCCAAATGCACTGGCTATTGATTATACTTTGCAACGAATTTTCTGGGCTGATGCGAAACTCAAGAAGATAGAATCAAGCACCTATGATGGCACTGATCGCCGTGTGATTGCCGTCATTACGCCACATCACCCTTACAGTATGGATTTGTTCGAGAATCATCTGTACTACACGGACTGGTATAGATTTGACAGAGGGATCAGGAGCATGAACAAATTCAATGGAAGTGATGAACACAAGATCTCGTCTGTTCGATTTTGGACAAACATGGGTATTCGAGTATACCACCCCCTTCGTCAGCCAAACGAAAGGGTATTTGTAATTTTATTATAA

Transcript

agem_s0033.g55.t2

TTACTCACAGATAAGTCGTCAAAGGATCTATCCACCGGAGCAATCATTGGTATTTGTGCAGCTGGTTTGTTTGTGATCCTCATTGTTATGGGAGCTGCGGTGTACTGGAAAAAGTACCATCGCCGTACCAGGCTGCGAGCCGCTTATTATAACGATATATCCATGCACGATCCGTTATGCGGCGAAGATTTTGGCCCAGAGGTTGCTTAACTCAATGCGCTTAAATCAGGTGGAGAACTGAGTCGAAAAGTTGTGTCTGTCATTGCATGAGCGTTGCGCCCCTCACGATTGGAAAGCTTAAGGCGCTATTACATTGCTTTTCTTTGTTAACCTTGTCTCGCAACGCCAATGCAAGACACGTTGCACTGAGACATAGAACGGTTTTGGACCGTACCATTTCAGCTACTATTGTCGGCTACTATTGACGCCGATCCCAAAGAGACGAGTCACACATGTAGGTGTGGCCAAGGAAAGTACTCCAGCATTGCACACACACTGCAATACAGAAAGTTTCGAGACAAGGTTCACAAAATCTTTCACGGTGTAATAGCGCCTTTACAAAATTTTTGTGATTTTTCTTCATGTGCACTAGTAGTAAAATTTCCTCAGAGTCTTTAATTCTTTAAGGATTTTGGGTTTAGCGCGGACTCTCTTCTCTCTCGAGGGATATATAGGGACTCCAGTAAGTCTAACTACACCCCATTTCAGTCTACAGACATAGACTCCCTCGCAACCCAACTCGATGCTCAGTTCTCTACTTGTTTACAAGGCTTGTAGATATTCGCACGCACGGGAACTCGTTTCTTGGCTGTTTCAGTTTTTGACAATTCTCCTTCCATGTAAAATAGCATTGTAGAATCTTCCTGTAGAACAAGGACGAAGGGCAAATTTTAAGAAAATTGTAATTTTCGTCGTTCTGAAATTCGTAGATCGGCAATTTTCAATTAAGCAAGAAAACGCACCCATTGCTAAGTAAAACTAGAGCGATATGGTCCAAGAATGTCATGCACAGGGATTTGGCTGTGTCCTAGTTTTTTGAAGCAGACAAAATTATCAGTCTTCTTTTTTAATATCACGAAACCTAATGTAGGGCACCTATTTGGACGTAAAAAAAAACTAAATAGTTCTGTGGATAACAGTTAATCAACGTAGTTACATTTGTTTCCCTCCGAGGAAAGCCGTACCAGTTATTGCAGGTATCAGCGGTTATTTaacaaagaaagaagcctaagccgtgtattacactgtgataaaacacgacgggcatttgagaacaccaaggaaatgtagaaaacccgagccgcaggcattatgatatagaggtaatgtggcgaaaaacaataaaccacgctttttctatggtttctactctgaggaaccatgagtttttgaccaatcagggcacacaccgggtcctacccataATATAACGACACAAAAACGAGGCTAATAGGTCATTTTCATTGAATCGACGCATAGGCCATTATCGACAGAAGCATTGCCTGCTGGCTTAACTGTAATAACAGCTTTTACCTTTGTTTTTTTTTCTAATTTTATATTTGTCGCGTAGCGAAGTTTTAGTGTGTAATTTGAAGCTCGACAATTTAGTTTGGAGCGGTTAACGAGGTCAGCAAAAAGATCCAGAGTTTGGCAAAGATCTCCTTGCTCCCATGGTAGAGAGAGGACTTAGGAAAATGGACCGCACCATGTGACAGTTGTTGTAAATAAAAAGTCAAGTTAGTGTCTTAAGCAGGGATCGAAAATTATGACCTGTTCAATGGCTTCATGCACTTTTTATTTGGTATACACATTATCCAATCAGACACTAGCAAAGTACTTTTGTATGTTTCGTTCCATCAAAGAGTGCGGATTCACTGGATTGAGATTGTTCACCTTTTAAGGAATCCCTCCAACTTAGATGGCTATTTTGAAGAAGCAGGGAACGTATTTGATCATGGTAACACTTGCCAACGGGTCCACTGGGAAGGAATTGACGGCTTCGAATGTTACCCGGCGTGTAAAGCCCACAAGTTGGTCTCGTTAAAAATAAGAAGAAGAAGTTCAAAGAAAGTTTGTGGCTGGTCTGGTTCTTCTTTTGGACGAAACATGACTATTTTGGCCAAGGCTGTTGTGGTGTTGTACGTTGTACACTCTGTTGTTGTGGCTACTTCCTCCTCTAATGCTTCAGCACCTTTCCATTGTGGAGATGGCAAGTTTGCCTGTGGAAGTCAGAAGTGTATACCTGATCGTTGGAGGTGTGATGACTATGATGACTGTGGAGATCAATCAGATGAAGCTGGATGCCCTGAGAAGACTTGTCTGGATCATCACTTCAATTGTACCAATGGACGCTGTGTCTGGAAATCATTTGTGTGTGACTTTGATGATGATTGTGGAGATGGATCGGATGAAGTTGGTTGTGATCGTAACCACACCTGTCCTGATAAAAAGTTTAAATGTAAAAGTGGAAAATGCATTGATATCTTGTGGAAGTGCGATGGAGAAAATGATTGTTTGGATAATTCAGATGAAACCAGTTGTGAAACAGCAACATGCCCACCCAACAAGTTTACTTGTAATAACAACAATTGTGTACCACGGCCCCATCTTTGTGATGGAGATGATGATTGCGAAGATAATTCAGATGAAACAACTGACCAATGTGCAATTTTGACTTGCAGCAGCAACCAATTTACTTGTCCCAATCACAAATGTATTCCAAGCCGCTGGAGATGCGATGGAGATGCAGACTGTTCAGACGGCTCTGATGAGAATGGCTGTGACGCACATATTACACGTTCTCCTCGAGTTTGCGCAGAACAAATGTTCAGTTGTAATGATGGAAATTGCATCAGAAACAGTTGGCGCTGCGATGGGGAAAATGATTGCGAAGATGGATCTGATGAAGAAAGATGTTCATCATGCTCATCTGACAAATTCAAGTGTGGCAATGCCTCTCTGTGCATTCCACAAAGCCAAAGATGCAATGGTAAGAGAGACTGTCCAAATGGAGAGGATGAGCCAATGAACTGCGAAATTAATGAATGCGAGTATTTCAATGGTCATTGTCAACAAGTTTGCACAGATCTTAAAGTTGGCTTTGAATGTTCGTGTCATCCTGGGTTCAAACTTGCTAATGACCAGAAAACATGTGAAGATATTGATGAATGTGAGGTGTTTGGACAGTGTAGTCAAGACTGCATCAACATGAAGGGAACGTTCGAATGTTCCTGTAAACCTGGCTATCACTTGGATGCCAACAAAATGCTTTGCAGAGCAGCTGAGACTACACCATATTTGATGTTCTCAACACAGCGCACTATTCGCAAACTTGCAATTGGGAGATCGTTTCATGACTACAGCGATGTTGTCAGAAGTCAGAAAGGAATTGCAGCACTGGACTATGACTATCGTGAAAATTATTTGTTCTGGACAGATATAAGAGATGAAAGGATTTGTGGTGCTCGCATTCCAAGCCAAGATACCAGGGCAGCTGTTTGTGAGCGGACAGTAGTTTCAAGTGTCAATTCTCCTGAAGGCATTGCTGTTGACTGGGCTACAAAGAAAATATATTGGACTGATGGAGGCCACAATGTGATTGAGGTTGCTGAATTTGATGGCTCACAGAGACTCACCTTGTTTTATAATGACATATATGATCCAAGAGCCATTGTGGTCGATCCTTTTCATGGGTATCTGTTTTGGACAGACTGGTTCACTAACAGCCCAAGAATCGAAAGATCAGGGATGGACGGAAATCCATCGACAAGAACAGTGGTTGTATCTGAGAACTTGGGTTGGCCAAATGCACTGGCTATTGATTATACTTTGCAACGAATTTTCTGGGCTGATGCGAAACTCAAGAAGATAGAATCAAGCACCTATGATGGCACTGATCGCCGTGTGATTGCCGTCATTACGCCACATCACCCTTACAGTATGGATTTGTTCGAGAATCATCTGTACTACACGGACTGGTATAGATTTGACAGAGGGATCAGGAGCATGAACAAATTCAATGGAAGTGATGAACACAAGATCTCGTCTGTTCGATTTTGGACAAACATGGGTATTCGAGTATACCACCCCCTTCGTCAGCCAAACGAAAGGGTATTTGTAATTTTATTATAATTTCTAGCTTGATATAATATTTTCTCAACAGGATTCCTTTTGACGAAATGCACCTCTAAATTGCACTGAGAAATAAGCAATAATATTGCAAGTCAATTGAGGAGTGTGGAATCAACTTATACCGAAATTTCTCTTCCAAAAATAATAATAGTGAATCAGAGACTAAATTATCAAGTGAGCATGTTTGTCGTTGTCGAGTTCGCCACGTGTGGCGCGAAGGAATCGTTTCAGCAATGTTGTTTTGATTGCTTTGCACAAAATAATGTTGGCATATCCATTGAATTACCCTTGGAGTCAACAATGCTACAGCTCCTCTGCTGTGGTCATCTCTGGAAAAGCACCACGTTATGATTGTGCTGAACGTAGAATTGCTGTATATATATATAATATGATAAGAGTGATGTCAACGGTATTGATAAGTGAAAATTATTCGAGTCTACTTATTTTGAGTTAATCTCCCACGTAAGAGAGAAGAAAAATCCCTTCATTCTGTAATtttatttaattatttatttttttCGGTAATGAATTGACATGCTGGACATAGCACTTGTTCAGTATTAAATTAATTAGCAAAGTTATTTTACAGAAAATAAGAAAAGTGAACACATAAAAATAATTTTAAGGGAAATGTCGAAGATCACGAGCGAATCTAATCTATTAAATTTAACACTGAAAAGTATTGTTTCGATGTGCAGTTTTACGATTAACACTGCCATTAATGAGTTTTGTTTCACTTGTGTACAAGCTGTAGAACCTTTTTGACGTCAACAGTACGTATTTAAAACAAGGCAAAAACTAATATTTGCTGCTATGGTGAAAGAACTTGTAGATTCGGACAGGAGGGTGTATAGCTGAGAATCGCTGTTTTGTTTTTTGTTTTTCCCTATAGTTTGCTGTGTTCTCGTAAaattatacgttactctctctatttcgtaaagaatgtttttgaggcctaggctgaagtattcttatttctctgccgaattaaggctgaaatgttcttgtgaccattcttagataatagagaagagtatgccttattttttcaccttgacaggtttattttagatcttcaacatgcaaaaatatagtctgaaaactcttagcctaagacacttcctcaacatatttgtaaaattccagcctcaatgttcttgtaaattatactcttatgaagaaaagagtgTAAAGAATGAGAGCGCTCTTGTGTTTCAAATATAACAGTTAACGTTTCTTTTCACAGTTAGTTGGGAATTTTCACTTCATTTTTCTTATCATAGTCAAGAACCCAGAACGATTCTTCAAACTTACCACGCCATCAATAATGTCAAGGTTATGTATGTTTAATTCggaagcttaagcaaagacgacggcaacgacgacgccagaaaacaatcctctgattggttgaatgaggaaaaataatcgtgctgcacgtatagcacgcactgtaattcaattctttgacgtagtctgccaaatgacaacgtgaaatttccaaatttaagtccatttcccgcgtgctctgtcaaaaacaagggatgcgaggaagaagcaaaattaaccaaatagtcgccatttctcaaatgtgtattttcaagtgacattttcgttgccgttgctgttgttgctgcttaagctccctaTTAGTTTAGTCGGGGACGGTGCTTCCTTTTGTCTCTAAGTATTCGTTCTTTCAGGAAAAGTTGGTAAACTGTATCTTTTGTTGATTTTTGCGCGGTTTGTCCTAAAAATACAATCATAGTGACACAATCAAAGAGGAAACTACGAGGCCAGTTGTTTCTTGTCATCGTTTGTCAATTCTCTAGTCATGTCTGCATGCCCTATTGTCCCTAAAGGTTTTTTTCTTTATTTTCAACTTATATTTCAGTGTTCTTGCTGAAAGCTGCGTTGCCTGCATAGTAGTAGCCTGATCACAGTAAATTTTACAATGTTCTAGTCGTCAGGAGTTTTCGCCAGGAACCATGTCATCGCTTCAATTTTATCAAGCTCCGACACCTTTCCAGCTTAACGAACAAGAACATTTCTGTAACGAATTGACAGTTGTCGAGAATTTCTAGATGCGAAATTAGCAGGATGCACCGTCCCCCGTTAGAAAAGTTCATAATGATGTTTCATACTGAAACTGTTCGTAAGCAACTTGAGTTCAATTGTTGACTCAAAGTGTTCGTTACTGTAGCAGGACGTTTTAGTATAATGTATATCTTTTCCTCTGTACTGTTAAAAATAAATGAAAGTTTCAGTT

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
C0HL13	Low-density lipoprotein receptor-related protein 2 OS=Sus scrofa OX=9823 GN=LRP2 PE=1 SV=1
Q98931	Low-density lipoprotein receptor-related protein 8 OS=Gallus gallus OX=9031 GN=LRP8 PE=2 SV=1
P35951	Low-density lipoprotein receptor OS=Mus musculus OX=10090 GN=Ldlr PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000278 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00058 all species →	Ldl_recept_b	Low-density lipoprotein receptor repeat class B	Repeat	Interproscan
PF00057 all species →	Ldl_recept_a	Low-density lipoprotein receptor domain class A	Repeat	Interproscan
PF12662 all species →	cEGF	Complement Clr-like EGF-like	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR023415 all species →	Conserved_site	Low-density lipoprotein (LDL) receptor class A, conserved site	Interproscan
IPR000033 all species →	Repeat	LDLR class B repeat	Interproscan
IPR000742 all species →	Domain	EGF-like domain	Interproscan
IPR002172 all species →	Repeat	Low-density lipoprotein (LDL) receptor class A repeat	Interproscan
IPR036055 all species →	Homologous_superfamily	LDL receptor-like superfamily	Interproscan
IPR018097 all species →	Conserved_site	EGF-like calcium-binding, conserved site	Interproscan
IPR000152 all species →	PTM	EGF-type aspartate/asparagine hydroxylation site	Interproscan
IPR051221 all species →	Family	Low-density lipoprotein receptor-related	Interproscan
IPR026823 all species →	Domain	Complement Clr-like EGF domain	Interproscan
IPR011042 all species →	Homologous_superfamily	Six-bladed beta-propeller, TolB-like	Interproscan
IPR001881 all species →	Domain	EGF-like calcium-binding domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22722 all species →	LOW-DENSITY LIPOPROTEIN RECEPTOR-RELATED PROTEIN 2-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0006898 all species →	Biological Process	receptor-mediated endocytosis	Interproscan
GO:0016324 all species →	Cellular Component	apical plasma membrane	Interproscan
GO:0042562 all species →	Molecular Function	hormone binding	Interproscan
GO:0043235 all species →	Cellular Component	receptor complex	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
K20053	VLDLR; very low-density lipoprotein receptor	-	Membrane trafficking	ko04131	deepkoala

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