Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr7

Orthogroup ID

OG0001045

Physical Location & Seq

Genomic Coordinates Reverse (-)

74008774 .. 74009699

Gene Structure 926 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000035955

Sequence Viewer

CDS Protein Promoter (2k)

Length: 450 bp

ATGGAGTACTTGTCCAAAATCCAGAGGGGCGGCCATATCCAGCCGTTCGGCTGCACGATTGCGGTGGAAGAGTCCACCTTCGGGGTCATTGCCTACAACGAGAACGCCCGGGACCTGCTCGACCTGATGCCCCAGTCGGTTCAAGTGCTCGAGAGACGGGAGATCCTCACAATCGAGGTCGTCATCCTCTCCGTCGATCTGAAGGCATGCCCGGCAACCGCTACTACACCTTCGTGTTCCAGCCCCACGACTGCATCATGGGCTCCCCTCCGGCGGTCACTTGACCACCCATGGTTACTACACCTCGATCTACTTGGAGAGTCTGCCCTATATGGTGATTCCTCCACTGGGTCATTGACTAACGACAAGCTAGGGGAGAAAGCCTTGGATTTCAGGTCAAGATTGACACCTAGGGAGGTTGTAATCGGAATCTGCGGAAAATGGGGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006996 GO:0008150 GO:0009657 GO:0009658 GO:0009902 GO:0009903 GO:0009987 GO:0016043 GO:0019750 GO:0044424 GO:0044464 GO:0051179 GO:0051234 GO:0051640 GO:0051641 GO:0051644 GO:0051649 GO:0051656 GO:0051667 GO:0071840

KEGG Pathways

Metabolic & Signaling

ko04712 map04712

Pfam Domains

Protein Families

GAF HATPase_c HisKA PAS PAS_2 PHY

Protein Analysis

150

Amino Acids

16.33

Weight (kDa)

5.33

Isoelectric Point (pI)

60.47

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PAS_2	PF08446	3 - 56	3.5e-13	PAS fold

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

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Publication-ready

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Orthologous Genes (Group: OG0001045)

Species	Orthologous Gene IDs
pyrus_communis	pycom02g04540
rosa_chinensis	RchiOBHm_Chr1g0338921 RchiOBHm_Chr1g0342131 RchiOBHm_Chr2g0159881 RchiOBHm_Chr5g0002061 RchiOBHm_Chr5g0051771 RchiOBHm_Chr5g0076941 RchiOBHm_Chr6g0282081 RchiOBHm_Chr7g0198131
rosa_laevigata	RLG00000003496 RLG00000019204 RLG00000019210 RLG00000031093 RLG00000034339 RLG00000035955
rosa_multiflora	Rmu_co8265413.1_g000001 Rmu_sc0000569.1_g000024 Rmu_sc0000585.1_g000006 Rmu_sc0000780.1_g000015 Rmu_sc0001192.1_g000043 Rmu_sc0001700.1_g000048 Rmu_sc0003092.1_g000032 Rmu_sc0004502.1_g000020 Rmu_sc0004991.1_g000005 Rmu_sc0041726.1_g000001
rosa_roxburghii	Rroxscaffold_1G00033570 Rroxscaffold_1G00035950 Rroxscaffold_1G00047770 Rroxscaffold_2G00124770 Rroxscaffold_2G00143760 Rroxscaffold_3G00227140 Rroxscaffold_5G00341620
rosa_rugosa	Rorug01G0102800 Rorug02G0472100 Rorug03G0011600 Rorug04G0024700 Rorug05G0042700
rosa_samantha	Rh1AG421900 Rh2AG356700 Rh2BG577700 Rh2CG210300 Rh2DG229300 Rh2DG624300 Rh3CG229200 Rh4AG386800 Rh4CG238600 Rh4DG226600 Rh4DG393700 Rh5AG380700 Rh5BG360500 Rh5DG260600 Rh6AG053500 Rh6AG258300 Rh6BG316700 Rh6CG120500 Rh6CG260600 Rh6DG252700 Rh6DG497500 Rh7AG364300 Rh7CG383100
rosa_wichuraiana	Rw6G022360

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	123
AciI	CCGC	5 cut(s)	30, 62, 219, 274, 435
AclWI	GGATC	1 cut(s)	157
AcoI	YGGCCR	1 cut(s)	31
AcuI	CTGAAG	1 cut(s)	221
AfaI	GTAC	1 cut(s)	8
AfiI	CCNNNNNNNGG	3 cut(s)	81, 273, 348
AgsI	TTSAA	1 cut(s)	143
AleI	CACNNNNGTG	1 cut(s)	232
AluBI	AGCT	1 cut(s)	370
AluI	AGCT	1 cut(s)	370
Alw21I	GWGCWC	1 cut(s)	150
Alw26I	GTCTC	1 cut(s)	148
AlwI	GGATC	1 cut(s)	157
Ama87I	CYCGRG	2 cut(s)	108, 149
AoxI	GGCC	1 cut(s)	31
ApeKI	GCWGC	1 cut(s)	51
AspA2I	CCTAGG	1 cut(s)	410
AspS9I	GGNCC	1 cut(s)	112
AsuC2I	CCSGG	3 cut(s)	109, 110, 212
AsuHPI	GGTGA	1 cut(s)	347
AvaI	CYCGRG	2 cut(s)	108, 149
AvaII	GGWCC	1 cut(s)	112
AvrII	CCTAGG	1 cut(s)	410
BanII	GRGCYC	1 cut(s)	265
Bbv12I	GWGCWC	1 cut(s)	150
BbvI	GCAGC	1 cut(s)	38
BceAI	ACGGC	1 cut(s)	28
BcnI	CCSGG	3 cut(s)	109, 110, 212
BcoDI	GTCTC	1 cut(s)	148
BfaI	CTAG	2 cut(s)	371, 411
BfuAI	ACCTGC	1 cut(s)	123
BisI	GCNGC	2 cut(s)	31, 52
BlnI	CCTAGG	1 cut(s)	410
BlsI	GCNGC	2 cut(s)	32, 53
BmcAI	AGTACT	1 cut(s)	8
Bme1390I	CCNGG	3 cut(s)	109, 110, 212
Bme18I	GGWCC	1 cut(s)	112
BmeT110I	CYCGRG	2 cut(s)	108, 149
BmgT120I	GGNCC	1 cut(s)	112
BmiI	GGNNCC	2 cut(s)	113, 264
BmrFI	CCNGG	3 cut(s)	109, 110, 212
BmrI	ACTGGG	2 cut(s)	127, 357
BmsI	GCATC	2 cut(s)	117, 263
BmuI	ACTGGG	2 cut(s)	127, 357
BpuMI	CCSGG	3 cut(s)	109, 110, 212
BsaJI	CCNNGG	4 cut(s)	108, 290, 384, 410
BsaXI	ACNNNNNCTCC	1 cut(s)	26
Bsc4I	CCNNNNNNNGG	3 cut(s)	81, 273, 348
Bse1I	ACTGG	2 cut(s)	133, 352
Bse3DI	GCAATG	1 cut(s)	87
BseDI	CCNNGG	4 cut(s)	108, 290, 384, 410
BseGI	GGATG	1 cut(s)	183
BseLI	CCNNNNNNNGG	3 cut(s)	81, 273, 348
BseMI	GCAATG	1 cut(s)	87
BseNI	ACTGG	2 cut(s)	133, 352
BseXI	GCAGC	1 cut(s)	38
BsgI	GTGCAG	1 cut(s)	37
BshFI	GGCC	1 cut(s)	33
BsiHKAI	GWGCWC	1 cut(s)	150
BsiHKCI	CYCGRG	2 cut(s)	108, 149
BsiSI	CCGG	3 cut(s)	109, 212, 271
BslFI	GGGAC	1 cut(s)	125
BslI	CCNNNNNNNGG	3 cut(s)	81, 273, 348
BsmAI	GTCTC	1 cut(s)	148
BsmBI	CGTCTC	1 cut(s)	148
BsmFI	GGGAC	1 cut(s)	125
BsnI	GGCC	1 cut(s)	33
BsoBI	CYCGRG	2 cut(s)	108, 149
Bsp1286I	GDGCHC	2 cut(s)	150, 265
Bsp143I	GATC	3 cut(s)	162, 196, 307
Bsp19I	CCATGG	1 cut(s)	290
BspACI	CCGC	5 cut(s)	30, 62, 219, 274, 435
BspANI	GGCC	1 cut(s)	33
BspLI	GGNNCC	2 cut(s)	113, 264
BspMI	ACCTGC	1 cut(s)	123
BspPI	GGATC	1 cut(s)	157
BsrDI	GCAATG	1 cut(s)	87
BsrI	ACTGG	2 cut(s)	133, 352
BssECI	CCNNGG	4 cut(s)	108, 290, 384, 410
BssMI	GATC	3 cut(s)	162, 196, 307
BssT1I	CCWWGG	3 cut(s)	290, 384, 410
Bst6I	CTCTTC	1 cut(s)	63
BstC8I	GCNNGC	1 cut(s)	208
BstDSI	CCRYGG	1 cut(s)	290
BstF5I	GGATG	1 cut(s)	183
BstKTI	GATC	3 cut(s)	165, 199, 310
BstMAI	GTCTC	1 cut(s)	148
BstMBI	GATC	3 cut(s)	162, 196, 307
BstMWI	GCNNNNNNNGC	2 cut(s)	212, 260
BstNSI	RCATGY	1 cut(s)	210
BstSCI	CCNGG	3 cut(s)	107, 108, 210
BstV1I	GCAGC	1 cut(s)	38
BstX2I	RGATCY	1 cut(s)	162
BstYI	RGATCY	1 cut(s)	162
BsuRI	GGCC	1 cut(s)	33
BtgI	CCRYGG	1 cut(s)	290
BtsCI	GGATG	1 cut(s)	183
BtsIMutI	CAGTG	1 cut(s)	345
BveI	ACCTGC	1 cut(s)	123
Cac8I	GCNNGC	1 cut(s)	208
Cfr13I	GGNCC	1 cut(s)	112
Cfr9I	CCCGGG	1 cut(s)	108
Csp6I	GTAC	1 cut(s)	7
CviAII	CATG	3 cut(s)	207, 258, 291
CviJI	RGCY	7 cut(s)	33, 43, 51, 243, 263, 370, 383
CviKI_1	RGCY	7 cut(s)	33, 43, 51, 243, 263, 370, 383
CviQI	GTAC	1 cut(s)	7
DpnI	GATC	3 cut(s)	164, 198, 309
DpnII	GATC	3 cut(s)	162, 196, 307
EaeI	YGGCCR	1 cut(s)	31
Eam1104I	CTCTTC	1 cut(s)	63
EarI	CTCTTC	1 cut(s)	63
Eco130I	CCWWGG	3 cut(s)	290, 384, 410
Eco24I	GRGCYC	1 cut(s)	265
Eco47I	GGWCC	1 cut(s)	112
Eco57I	CTGAAG	1 cut(s)	221
Eco88I	CYCGRG	2 cut(s)	108, 149
EcoO109I	RGGNCCY	1 cut(s)	112
EcoT14I	CCWWGG	3 cut(s)	290, 384, 410
EcoT38I	GRGCYC	1 cut(s)	265
ErhI	CCWWGG	3 cut(s)	290, 384, 410
Esp3I	CGTCTC	1 cut(s)	148
FaeI	CATG	3 cut(s)	210, 261, 294
FaiI	YATR	6 cut(s)	36, 208, 259, 292, 331, 333
FaqI	GGGAC	1 cut(s)	125
FatI	CATG	3 cut(s)	206, 257, 290
Fnu4HI	GCNGC	2 cut(s)	31, 52
FokI	GGATG	1 cut(s)	170
FriOI	GRGCYC	1 cut(s)	265
Fsp4HI	GCNGC	2 cut(s)	31, 52
FspBI	CTAG	2 cut(s)	371, 411
GluI	GCNGC	2 cut(s)	31, 52
HaeIII	GGCC	1 cut(s)	33
HapII	CCGG	3 cut(s)	109, 212, 271
Hin1II	CATG	3 cut(s)	210, 261, 294
HinfI	GANTC	4 cut(s)	71, 320, 338, 429
HpaII	CCGG	3 cut(s)	109, 212, 271
HphI	GGTGA	1 cut(s)	347
Hpy166II	GTNNAC	1 cut(s)	75
Hpy188I	TCNGA	2 cut(s)	201, 428
Hpy188III	TCNNGA	3 cut(s)	22, 151, 399
Hpy8I	GTNNAC	1 cut(s)	75
Hpy99I	CGWCG	1 cut(s)	197
HpyAV	CCTTC	3 cut(s)	88, 196, 240
HpyCH4V	TGCA	2 cut(s)	54, 254
HpyF10VI	GCNNNNNNNGC	2 cut(s)	212, 260
Hsp92II	CATG	3 cut(s)	210, 261, 294
Kzo9I	GATC	3 cut(s)	162, 196, 307
LmnI	GCTCC	1 cut(s)	268
Lsp1109I	GCAGC	1 cut(s)	38
LweI	GCATC	2 cut(s)	117, 263
MaeI	CTAG	2 cut(s)	371, 411
MaeIII	GTNAC	2 cut(s)	276, 294
MalI	GATC	3 cut(s)	164, 198, 309
MboI	GATC	3 cut(s)	162, 196, 307
MboII	GAAGA	1 cut(s)	80
MflI	RGATCY	1 cut(s)	162
MhlI	GDGCHC	2 cut(s)	150, 265
MlyI	GAGTC	2 cut(s)	80, 329
MnlI	CCTC	8 cut(s)	18, 169, 176, 197, 278, 314, 352, 409
MslI	CAYNNNNRTG	1 cut(s)	232
MspI	CCGG	3 cut(s)	109, 212, 271
MspR9I	CCNGG	3 cut(s)	109, 110, 212
MwoI	GCNNNNNNNGC	2 cut(s)	212, 260
NciI	CCSGG	3 cut(s)	109, 110, 212
NcoI	CCATGG	1 cut(s)	290
NdeII	GATC	3 cut(s)	162, 196, 307
NlaIII	CATG	3 cut(s)	210, 261, 294
NlaIV	GGNNCC	2 cut(s)	113, 264
NmuCI	GTSAC	1 cut(s)	276
NspI	RCATGY	1 cut(s)	210
OliI	CACNNNNGTG	1 cut(s)	232
PaeI	GCATGC	1 cut(s)	210
PaeR7I	CTCGAG	1 cut(s)	149
PfeI	GAWTC	2 cut(s)	338, 429
PkrI	GCNGC	2 cut(s)	32, 53
PleI	GAGTC	2 cut(s)	79, 328
PpsI	GAGTC	2 cut(s)	79, 328
PpuMI	RGGWCCY	1 cut(s)	112
Psp5II	RGGWCCY	1 cut(s)	112
PspN4I	GGNNCC	2 cut(s)	113, 264
PspPI	GGNCC	1 cut(s)	112
PspPPI	RGGWCCY	1 cut(s)	112
PsuI	RGATCY	1 cut(s)	162
RsaI	GTAC	1 cut(s)	8
RsaNI	GTAC	1 cut(s)	7
RseI	CAYNNNNRTG	1 cut(s)	232
SatI	GCNGC	2 cut(s)	31, 52
Sau3AI	GATC	3 cut(s)	162, 196, 307
Sau96I	GGNCC	1 cut(s)	112
ScaI	AGTACT	1 cut(s)	8
SchI	GAGTC	2 cut(s)	80, 329
ScrFI	CCNGG	3 cut(s)	109, 110, 212
SduI	GDGCHC	2 cut(s)	150, 265
SfaNI	GCATC	2 cut(s)	117, 263
Sfr274I	CTCGAG	1 cut(s)	149
SinI	GGWCC	1 cut(s)	112
SlaI	CTCGAG	1 cut(s)	149
SmaI	CCCGGG	1 cut(s)	110
SmiMI	CAYNNNNRTG	1 cut(s)	232
SmlI	CTYRAG	1 cut(s)	149
SmoI	CTYRAG	1 cut(s)	149
SphI	GCATGC	1 cut(s)	210
SsiI	CCGC	5 cut(s)	30, 62, 219, 274, 435
SspMI	CTAG	2 cut(s)	371, 411
StyD4I	CCNGG	3 cut(s)	107, 108, 210
StyI	CCWWGG	3 cut(s)	290, 384, 410
TaqI	TCGA	5 cut(s)	120, 150, 174, 195, 306
TatI	WGTACW	1 cut(s)	6
TauI	GCSGC	1 cut(s)	33
TfiI	GAWTC	2 cut(s)	338, 429
TscAI	CASTG	1 cut(s)	352
TseFI	GTSAC	1 cut(s)	276
TseI	GCWGC	1 cut(s)	51
Tsp45I	GTSAC	1 cut(s)	276
TspGWI	ACGGA	1 cut(s)	181
TspMI	CCCGGG	1 cut(s)	108
TspRI	CASTG	1 cut(s)	352
VpaK11BI	GGWCC	1 cut(s)	112
XceI	RCATGY	1 cut(s)	210
XhoI	CTCGAG	1 cut(s)	149
XmaI	CCCGGG	1 cut(s)	108
XmaJI	CCTAGG	1 cut(s)	410
XspI	CTAG	2 cut(s)	371, 411
ZrmI	AGTACT	1 cut(s)	8

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