Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr4

Orthogroup ID

OG0014393

Physical Location & Seq

Genomic Coordinates Forward (+)

50958437 .. 50959048

Gene Structure 612 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw4G024960.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 429 bp

ATGCAGGCCACTCTACAGCTCTCACCACCATCACTCCTTGCCCTTCTAACACCGACCACCACCACCAAGTCCCTGGTCTTGCCGTGTAGGTCCACTACTCCAAGGGCAAAATCTTCGAGATACCCCCTGCTCAAGGCAACCAATAATGTGACCTCCGATCCTTCAACAGTTGATTACAGCTCCAATGCGACTTCGGTTTTTCCAGCAGAGGCTTGTGAGACTGTCGGAGGAGATGCTTGTGATGCCGAAATGTATCCTGAAGTGAAGCTTGAACCACAAGAGAAGAGCACCGCAGCTAAAACTGGTAAAGAGCTACAGGATAGAGATTATCTAGAGTATGACAGCCCCAAGACGGTCTTCCCTGCAGAGGCTTGTGATGATCTCGGAGGAGAGTTTTGTGAGCCGGAGTATCAGAAAGGAGTATACTAG

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

15.38

Weight (kDa)

4.51

Isoelectric Point (pI)

57.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Lir1	PF07207	1 - 134	2.6e-48	Light regulated protein Lir1

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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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)
AccI	GTMKAC	1 cut(s)	423
AciI	CCGC	1 cut(s)	291
AclWI	GGATC	1 cut(s)	152
AcuI	CTGAAG	1 cut(s)	279
AfiI	CCNNNNNNNGG	3 cut(s)	133, 352, 367
AgsI	TTSAA	2 cut(s)	165, 272
AjnI	CCWGG	1 cut(s)	72
AjuI	GAANNNNNNNTTGG	2 cut(s)	341, 373
AluBI	AGCT	5 cut(s)	19, 180, 268, 296, 313
AluI	AGCT	5 cut(s)	19, 180, 268, 296, 313
Alw21I	GWGCWC	1 cut(s)	290
Alw26I	GTCTC	1 cut(s)	212
AlwI	GGATC	1 cut(s)	152
AoxI	GGCC	1 cut(s)	6
ApeKI	GCWGC	1 cut(s)	293
AspS9I	GGNCC	1 cut(s)	90
AsuHPI	GGTGA	1 cut(s)	15
AvaII	GGWCC	1 cut(s)	90
BbsI	GAAGAC	1 cut(s)	349
Bbv12I	GWGCWC	1 cut(s)	290
BbvI	GCAGC	1 cut(s)	305
BccI	CCATC	1 cut(s)	37
BceAI	ACGGC	1 cut(s)	67
BcgI	CGANNNNNNTGC	2 cut(s)	96, 130
BciT130I	CCWGG	1 cut(s)	74
BciVI	GTATCC	1 cut(s)	264
BcoDI	GTCTC	1 cut(s)	212
BfaI	CTAG	2 cut(s)	332, 427
BfmI	CTRYAG	3 cut(s)	14, 314, 363
BfuI	GTATCC	1 cut(s)	264
BisI	GCNGC	1 cut(s)	294
BlsI	GCNGC	1 cut(s)	295
Bme1390I	CCNGG	1 cut(s)	74
Bme18I	GGWCC	1 cut(s)	90
BmgT120I	GGNCC	1 cut(s)	90
BmrFI	CCNGG	1 cut(s)	74
BmsI	GCATC	2 cut(s)	223, 232
BpiI	GAAGAC	1 cut(s)	349
BpuEI	CTTGAG	1 cut(s)	116
BsaJI	CCNNGG	2 cut(s)	72, 101
BsaXI	ACNNNNNCTCC	2 cut(s)	18, 48
Bsc4I	CCNNNNNNNGG	3 cut(s)	133, 352, 367
Bse1I	ACTGG	1 cut(s)	307
BseBI	CCWGG	1 cut(s)	74
BseDI	CCNNGG	2 cut(s)	72, 101
BseLI	CCNNNNNNNGG	3 cut(s)	133, 352, 367
BseNI	ACTGG	1 cut(s)	307
BseRI	GAGGAG	2 cut(s)	243, 402
BseXI	GCAGC	1 cut(s)	305
BshFI	GGCC	1 cut(s)	8
BsiHKAI	GWGCWC	1 cut(s)	290
BsiSI	CCGG	1 cut(s)	404
BslFI	GGGAC	1 cut(s)	55
BslI	CCNNNNNNNGG	3 cut(s)	133, 352, 367
BsmAI	GTCTC	1 cut(s)	212
BsmFI	GGGAC	1 cut(s)	55
BsnI	GGCC	1 cut(s)	8
Bsp1286I	GDGCHC	1 cut(s)	290
Bsp143I	GATC	2 cut(s)	157, 379
BspACI	CCGC	1 cut(s)	291
BspANI	GGCC	1 cut(s)	8
BspMAI	CTGCAG	1 cut(s)	367
BspPI	GGATC	1 cut(s)	152
BspQI	GCTCTTC	1 cut(s)	278
BsrI	ACTGG	1 cut(s)	307
BssECI	CCNNGG	2 cut(s)	72, 101
BssMI	GATC	2 cut(s)	157, 379
BssNAI	GTATAC	1 cut(s)	424
BssT1I	CCWWGG	1 cut(s)	101
Bst1107I	GTATAC	1 cut(s)	424
Bst2UI	CCWGG	1 cut(s)	74
Bst4CI	ACNGT	3 cut(s)	169, 223, 355
Bst6I	CTCTTC	1 cut(s)	278
BstC8I	GCNNGC	1 cut(s)	6
BstENI	CCTNNNNNAGG	1 cut(s)	131
BstKTI	GATC	2 cut(s)	160, 382
BstMAI	GTCTC	1 cut(s)	212
BstMBI	GATC	2 cut(s)	157, 379
BstMWI	GCNNNNNNNGC	1 cut(s)	242
BstNI	CCWGG	1 cut(s)	74
BstSCI	CCNGG	1 cut(s)	72
BstSFI	CTRYAG	3 cut(s)	14, 314, 363
BstV1I	GCAGC	1 cut(s)	305
BstV2I	GAAGAC	1 cut(s)	349
BstXI	CCANNNNNNTGG	1 cut(s)	73
BstZ17I	GTATAC	1 cut(s)	424
BsuI	GTATCC	1 cut(s)	264
BsuRI	GGCC	1 cut(s)	8
Cac8I	GCNNGC	1 cut(s)	6
Cfr13I	GGNCC	1 cut(s)	90
DpnI	GATC	2 cut(s)	159, 381
DpnII	GATC	2 cut(s)	157, 379
Eam1104I	CTCTTC	1 cut(s)	278
EarI	CTCTTC	1 cut(s)	278
Eco130I	CCWWGG	1 cut(s)	101
Eco47I	GGWCC	1 cut(s)	90
Eco57I	CTGAAG	1 cut(s)	279
EcoNI	CCTNNNNNAGG	1 cut(s)	131
EcoRII	CCWGG	1 cut(s)	72
EcoT14I	CCWWGG	1 cut(s)	101
ErhI	CCWWGG	1 cut(s)	101
FaiI	YATR	2 cut(s)	339, 424
FalI	AAGNNNNNCTT	4 cut(s)	252, 284, 341, 373
FaqI	GGGAC	1 cut(s)	55
FblI	GTMKAC	1 cut(s)	423
Fnu4HI	GCNGC	1 cut(s)	294
Fsp4HI	GCNGC	1 cut(s)	294
FspBI	CTAG	2 cut(s)	332, 427
GluI	GCNGC	1 cut(s)	294
HaeIII	GGCC	1 cut(s)	8
HapII	CCGG	1 cut(s)	404
HindIII	AAGCTT	1 cut(s)	266
HpaII	CCGG	1 cut(s)	404
HphI	GGTGA	1 cut(s)	15
Hpy166II	GTNNAC	2 cut(s)	93, 424
Hpy188I	TCNGA	4 cut(s)	157, 227, 386, 414
Hpy188III	TCNNGA	3 cut(s)	117, 257, 332
Hpy8I	GTNNAC	2 cut(s)	93, 424
HpyAV	CCTTC	2 cut(s)	53, 171
HpyCH4III	ACNGT	3 cut(s)	169, 223, 355
HpyCH4V	TGCA	2 cut(s)	4, 365
HpyF10VI	GCNNNNNNNGC	1 cut(s)	242
Kzo9I	GATC	2 cut(s)	157, 379
LguI	GCTCTTC	1 cut(s)	278
LmnI	GCTCC	1 cut(s)	185
LpnPI	CCDG	9 cut(s)	59, 86, 140, 216, 270, 288, 302, 375, 417
Lsp1109I	GCAGC	1 cut(s)	305
LweI	GCATC	2 cut(s)	223, 232
MaeI	CTAG	2 cut(s)	332, 427
MaeIII	GTNAC	1 cut(s)	148
MalI	GATC	2 cut(s)	159, 381
MboI	GATC	2 cut(s)	157, 379
MboII	GAAGA	3 cut(s)	105, 295, 349
MhlI	GDGCHC	1 cut(s)	290
MmeI	TCCRAC	1 cut(s)	205
MnlI	CCTC	5 cut(s)	163, 202, 221, 361, 380
MspI	CCGG	1 cut(s)	404
MspR9I	CCNGG	1 cut(s)	74
MvaI	CCWGG	1 cut(s)	74
MwoI	GCNNNNNNNGC	1 cut(s)	242
NdeII	GATC	2 cut(s)	157, 379
NmuCI	GTSAC	1 cut(s)	148
PciSI	GCTCTTC	1 cut(s)	278
PkrI	GCNGC	1 cut(s)	295
Psp6I	CCWGG	1 cut(s)	72
PspGI	CCWGG	1 cut(s)	72
PspPI	GGNCC	1 cut(s)	90
PstI	CTGCAG	1 cut(s)	367
SapI	GCTCTTC	1 cut(s)	278
SatI	GCNGC	1 cut(s)	294
Sau3AI	GATC	2 cut(s)	157, 379
Sau96I	GGNCC	1 cut(s)	90
ScrFI	CCNGG	1 cut(s)	74
SduI	GDGCHC	1 cut(s)	290
SetI	ASST	7 cut(s)	21, 92, 155, 182, 270, 298, 315
SfaNI	GCATC	2 cut(s)	223, 232
SfcI	CTRYAG	3 cut(s)	14, 314, 363
SinI	GGWCC	1 cut(s)	90
SmlI	CTYRAG	1 cut(s)	131
SmoI	CTYRAG	1 cut(s)	131
SsiI	CCGC	1 cut(s)	291
SspMI	CTAG	2 cut(s)	332, 427
StyD4I	CCNGG	1 cut(s)	72
StyI	CCWWGG	1 cut(s)	101
TaaI	ACNGT	3 cut(s)	169, 223, 355
TaqI	TCGA	1 cut(s)	116
TseFI	GTSAC	1 cut(s)	148
TseI	GCWGC	1 cut(s)	293
Tsp45I	GTSAC	1 cut(s)	148
VpaK11BI	GGWCC	1 cut(s)	90
XagI	CCTNNNNNAGG	1 cut(s)	131
XbaI	TCTAGA	1 cut(s)	331
XcmI	CCANNNNNNNNNTGG	1 cut(s)	70
XmiI	GTMKAC	1 cut(s)	423
XspI	CTAG	2 cut(s)	332, 427

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