Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr16

Orthogroup ID

OG0014393

Physical Location & Seq

Genomic Coordinates Reverse (-)

9472636 .. 9473680

Gene Structure 1045 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD16G1129900.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 426 bp

ATGCAGGCCACTCTACGTCTCTCACCAATTTCATCAGTATCACCTCTTGCTTTTGTAACCACCAAGTCCCTGGCCTTGCCATGCAGCTCCCTTCCGAGGCCACTACAACCCTCAAGGTGCCCTCCCCTCAGGGTAACCAATGTGACAGGGGGCGATCCTTCATCTGTCGATTACAGCTCCATCACTTCTGTTTTCCCGGCAGAGGCTTGCGAAACAGTCGGAGGAGAAGCTTGTGATGCCGAAATGTATCCCGAAGTGAAGCTTAAACCGGAAGAGGGCAGGAGCAGCACAGCCAGGACTGTTTCTGAGCAACTGGATAGAGATTATCTAGAGTATGATAGTCCCAAGACGGTCTTTCCTGGGGAGGCTTGTGATGATCTGGGAGGAGAATTCTGTGAGCCAGAGTATCAGAGAGGGGTAAACTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0007623 GO:0008150 GO:0009314 GO:0009416 GO:0009507 GO:0009526 GO:0009532 GO:0009534 GO:0009535 GO:0009536 GO:0009570 GO:0009579 GO:0009628 GO:0009941 GO:0009987 GO:0016020 GO:0031967 GO:0031975 GO:0031976 GO:0031984 GO:0032991 GO:0034357 GO:0042651 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044425 GO:0044434 GO:0044435 GO:0044436 GO:0044444 GO:0044446 GO:0044464 GO:0048511 GO:0050896 GO:0051716 GO:0055035 GO:0071214 GO:0071478 GO:0071482 GO:0098796 GO:0098807 GO:0104004

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Lir1

Protein Analysis

142

Amino Acids

15.18

Weight (kDa)

4.44

Isoelectric Point (pI)

69.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Lir1	PF07207	1 - 133	2.2e-44	Light regulated protein Lir1

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0014393)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G26740
fragaria_vesca	FvH4_4g22790 FvH4_4g22790 FvH4_4g22790
malus_domestica	MD16G1129900.v1.1
prunus_persica	Prupe.1G216700_v2.0.a1
pyrus_communis	pycom16g11020
rosa_chinensis	RchiOBHm_Chr4g0429011
rosa_laevigata	RLG00000007104
rosa_multiflora	Rmu_sc0008629.1_g000017
rosa_rugosa	Rorug04G0232000
rosa_samantha	Rh4AG288000 Rh4BG294200 Rh4CG309700 Rh4DG291100
rosa_wichuraiana	Rw0G014070 Rw4G024960

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	117
AclWI	GGATC	1 cut(s)	149
AcsI	RAATTY	1 cut(s)	389
AfiI	CCNNNNNNNGG	3 cut(s)	96, 202, 275
AjnI	CCWGG	3 cut(s)	69, 293, 358
AluBI	AGCT	4 cut(s)	87, 177, 230, 262
AluI	AGCT	4 cut(s)	87, 177, 230, 262
Alw26I	GTCTC	1 cut(s)	23
AlwI	GGATC	1 cut(s)	149
AoxI	GGCC	3 cut(s)	6, 72, 98
ApeKI	GCWGC	2 cut(s)	84, 285
ApoI	RAATTY	1 cut(s)	389
AsuC2I	CCSGG	1 cut(s)	197
AsuHPI	GGTGA	2 cut(s)	15, 33
AxyI	CCTNAGG	1 cut(s)	128
BaeGI	GKGCMC	1 cut(s)	122
BanI	GGYRCC	1 cut(s)	117
BbvI	GCAGC	2 cut(s)	96, 297
BccI	CCATC	1 cut(s)	188
BciT130I	CCWGG	3 cut(s)	71, 295, 360
BciVI	GTATCC	1 cut(s)	258
BcnI	CCSGG	1 cut(s)	197
BcoDI	GTCTC	1 cut(s)	23
BfaI	CTAG	2 cut(s)	329, 424
BfuI	GTATCC	1 cut(s)	258
BisI	GCNGC	2 cut(s)	85, 286
BlsI	GCNGC	2 cut(s)	86, 287
Bme1390I	CCNGG	4 cut(s)	71, 197, 295, 360
BmiI	GGNNCC	1 cut(s)	119
BmrFI	CCNGG	4 cut(s)	71, 197, 295, 360
BmsI	GCATC	1 cut(s)	226
BpuEI	CTTGAG	1 cut(s)	97
BpuMI	CCSGG	1 cut(s)	197
BsaJI	CCNNGG	3 cut(s)	69, 95, 359
BsaWI	WCCGGW	1 cut(s)	268
Bsc4I	CCNNNNNNNGG	3 cut(s)	96, 202, 275
Bse1I	ACTGG	1 cut(s)	318
Bse21I	CCTNAGG	1 cut(s)	128
BseBI	CCWGG	3 cut(s)	71, 295, 360
BseDI	CCNNGG	3 cut(s)	69, 95, 359
BseLI	CCNNNNNNNGG	3 cut(s)	96, 202, 275
BseMII	CTCAG	2 cut(s)	142, 297
BseNI	ACTGG	1 cut(s)	318
BseRI	GAGGAG	2 cut(s)	237, 399
BseSI	GKGCMC	1 cut(s)	122
BseXI	GCAGC	2 cut(s)	96, 297
BshFI	GGCC	3 cut(s)	8, 74, 100
BshNI	GGYRCC	1 cut(s)	117
BsiSI	CCGG	2 cut(s)	197, 269
BslFI	GGGAC	2 cut(s)	52, 327
BslI	CCNNNNNNNGG	3 cut(s)	96, 202, 275
BsmAI	GTCTC	1 cut(s)	23
BsmBI	CGTCTC	1 cut(s)	23
BsmFI	GGGAC	2 cut(s)	52, 327
BsnI	GGCC	3 cut(s)	8, 74, 100
Bsp1286I	GDGCHC	1 cut(s)	122
Bsp143I	GATC	2 cut(s)	154, 376
BspANI	GGCC	3 cut(s)	8, 74, 100
BspCNI	CTCAG	2 cut(s)	141, 298
BspLI	GGNNCC	1 cut(s)	119
BspPI	GGATC	1 cut(s)	149
BspT107I	GGYRCC	1 cut(s)	117
BsrI	ACTGG	1 cut(s)	318
BssECI	CCNNGG	3 cut(s)	69, 95, 359
BssMI	GATC	2 cut(s)	154, 376
Bst2UI	CCWGG	3 cut(s)	71, 295, 360
Bst4CI	ACNGT	3 cut(s)	217, 301, 352
Bst6I	CTCTTC	1 cut(s)	267
BstC8I	GCNNGC	2 cut(s)	6, 208
BstDEI	CTNAG	2 cut(s)	128, 306
BstEII	GGTNACC	1 cut(s)	133
BstKTI	GATC	2 cut(s)	157, 379
BstMAI	GTCTC	1 cut(s)	23
BstMBI	GATC	2 cut(s)	154, 376
BstMWI	GCNNNNNNNGC	2 cut(s)	236, 285
BstNI	CCWGG	3 cut(s)	71, 295, 360
BstPI	GGTNACC	1 cut(s)	133
BstSCI	CCNGG	4 cut(s)	69, 195, 293, 358
BstSLI	GKGCMC	1 cut(s)	122
BstV1I	GCAGC	2 cut(s)	96, 297
BstXI	CCANNNNNNTGG	1 cut(s)	70
Bsu36I	CCTNAGG	1 cut(s)	128
BsuI	GTATCC	1 cut(s)	258
BsuRI	GGCC	3 cut(s)	8, 74, 100
Cac8I	GCNNGC	2 cut(s)	6, 208
CviAII	CATG	1 cut(s)	81
DdeI	CTNAG	2 cut(s)	128, 306
DpnI	GATC	2 cut(s)	156, 378
DpnII	GATC	2 cut(s)	154, 376
Eam1104I	CTCTTC	1 cut(s)	267
EarI	CTCTTC	1 cut(s)	267
Eco81I	CCTNAGG	1 cut(s)	128
Eco91I	GGTNACC	1 cut(s)	133
EcoO65I	GGTNACC	1 cut(s)	133
EcoRI	GAATTC	1 cut(s)	389
EcoRII	CCWGG	3 cut(s)	69, 293, 358
Esp3I	CGTCTC	1 cut(s)	23
FaeI	CATG	1 cut(s)	84
FaiI	YATR	2 cut(s)	82, 336
FalI	AAGNNNNNCTT	4 cut(s)	246, 278, 338, 370
FaqI	GGGAC	2 cut(s)	52, 327
FatI	CATG	1 cut(s)	80
Fnu4HI	GCNGC	2 cut(s)	85, 286
Fsp4HI	GCNGC	2 cut(s)	85, 286
FspBI	CTAG	2 cut(s)	329, 424
GluI	GCNGC	2 cut(s)	85, 286
HaeIII	GGCC	3 cut(s)	8, 74, 100
HapII	CCGG	2 cut(s)	197, 269
Hin1II	CATG	1 cut(s)	84
HindIII	AAGCTT	2 cut(s)	228, 260
HpaII	CCGG	2 cut(s)	197, 269
HphI	GGTGA	2 cut(s)	15, 33
Hpy166II	GTNNAC	1 cut(s)	421
Hpy188I	TCNGA	4 cut(s)	96, 221, 307, 411
Hpy188III	TCNNGA	2 cut(s)	251, 329
Hpy8I	GTNNAC	1 cut(s)	421
HpyAV	CCTTC	2 cut(s)	101, 168
HpyCH4III	ACNGT	3 cut(s)	217, 301, 352
HpyCH4IV	ACGT	1 cut(s)	16
HpyCH4V	TGCA	2 cut(s)	4, 84
HpyF10VI	GCNNNNNNNGC	2 cut(s)	236, 285
HpyF3I	CTNAG	2 cut(s)	128, 306
HpySE526I	ACGT	1 cut(s)	16
Hsp92II	CATG	1 cut(s)	84
Kzo9I	GATC	2 cut(s)	154, 376
LmnI	GCTCC	3 cut(s)	92, 182, 282
Lsp1109I	GCAGC	2 cut(s)	96, 297
LweI	GCATC	1 cut(s)	226
MaeI	CTAG	2 cut(s)	329, 424
MaeII	ACGT	1 cut(s)	16
MaeIII	GTNAC	3 cut(s)	55, 133, 142
MalI	GATC	2 cut(s)	156, 378
MboI	GATC	2 cut(s)	154, 376
MboII	GAAGA	1 cut(s)	284
MhlI	GDGCHC	1 cut(s)	122
MluCI	AATT	2 cut(s)	27, 389
MmeI	TCCRAC	1 cut(s)	199
MseI	TTAA	1 cut(s)	264
MspI	CCGG	2 cut(s)	197, 269
MspR9I	CCNGG	4 cut(s)	71, 197, 295, 360
MvaI	CCWGG	3 cut(s)	71, 295, 360
MwoI	GCNNNNNNNGC	2 cut(s)	236, 285
NciI	CCSGG	1 cut(s)	197
NdeII	GATC	2 cut(s)	154, 376
NlaIII	CATG	1 cut(s)	84
NlaIV	GGNNCC	1 cut(s)	119
NmuCI	GTSAC	1 cut(s)	142
PkrI	GCNGC	2 cut(s)	86, 287
Psp6I	CCWGG	3 cut(s)	69, 293, 358
PspEI	GGTNACC	1 cut(s)	133
PspGI	CCWGG	3 cut(s)	69, 293, 358
PspN4I	GGNNCC	1 cut(s)	119
SaqAI	TTAA	1 cut(s)	264
SatI	GCNGC	2 cut(s)	85, 286
Sau3AI	GATC	2 cut(s)	154, 376
ScrFI	CCNGG	4 cut(s)	71, 197, 295, 360
SduI	GDGCHC	1 cut(s)	122
SetI	ASST	7 cut(s)	19, 46, 89, 119, 179, 232, 264
SfaNI	GCATC	1 cut(s)	226
SmlI	CTYRAG	1 cut(s)	112
SmoI	CTYRAG	1 cut(s)	112
Sse9I	AATT	2 cut(s)	27, 389
SspMI	CTAG	2 cut(s)	329, 424
StyD4I	CCNGG	4 cut(s)	69, 195, 293, 358
TaaI	ACNGT	3 cut(s)	217, 301, 352
TaiI	ACGT	1 cut(s)	19
TaqI	TCGA	1 cut(s)	168
TasI	AATT	2 cut(s)	27, 389
Tru1I	TTAA	1 cut(s)	264
Tru9I	TTAA	1 cut(s)	264
TseFI	GTSAC	1 cut(s)	142
TseI	GCWGC	2 cut(s)	84, 285
Tsp45I	GTSAC	1 cut(s)	142
TspDTI	ATGAA	2 cut(s)	21, 150
XapI	RAATTY	1 cut(s)	389
XbaI	TCTAGA	1 cut(s)	328
XcmI	CCANNNNNNNNNTGG	1 cut(s)	67
XspI	CTAG	2 cut(s)	329, 424

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.