Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0004389

Physical Location & Seq

Genomic Coordinates Reverse (-)

507469 .. 509948

Gene Structure 2480 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000026095

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1581 bp

ATGGCCTTTCCTCCATCGGAAATTTCACTCCGGCTGTCGGATTCTGTGGCAAATTTCTTCAAAGTTATACTGCCCCCCACCATTGAGAATCAGAAACTGGATATCCCACTAAAGTCTGCACTAGAATTTGGGGATGAACTGTCTAATGTTGCTACACTAATTGTTCCAGCTGGTCGTGTTTGGCAAGTGGATTTGGAAAGAGCTCACAAGAGGATTTGGTTTGTTGGCCGTTGGCAAAAATTCGCAGAATATTACTCCTTAACTGATGGTCAGTTCTTAGTCTTTAGTTATCAAGGAAATTCGACATTCCATGTTCGCATTTTTGATTTCAGTTGTTGTGAGATCGAGTACCCTTGTGTTGGTCAAAGTATCAAACATGAAGAGGATGTTGAAGATGATGTTTGTGGAACTCTCCCTTCTTCCAGCAAAGGCAAAGGCAAATGTGTAGATCAACATTTTAAGAGGAAGAGGAAAAGTGTTGCTATTGCCAAGAGATTTGAAGAGGATGTTGAAGATCATGTTTGTGGAACTGTCCCTTCTTCCAGCAAAGGCAAAGGCAAAGGCAAAGGCAAATGTGTAGATCAACATGTTAAGAGGAAGAGGGAAAGCGTTGCTATTGCCAAGAGATTTAAGCGAGCCAAGTTGAAGGTACAGAGAATGCCTAGCTCACAGGATTTTCCCACAAGAAAGAAGAAATATAAGGAAATATTTGTTAAGAACATAGCTGCTTACACTTATCCTAATTGCAAAATTAGGATTGCCAAAGAACATCAGAAAGTGATTCATGCTACCAAAATGTTCAACTTGGAAAATCCTTTTTTCGCAGTTATCTTGCAGCAATGCAATCTTGACAAGTACTATATGTATGTTCCAACTGCCTTTGGAAGGAGATATATGAGAGGGTGTCCAGAATATATCAAGTTTGAGGATTCTAATGAAAAGCAGTGGGATATCCGATGCTTTTTCCCAACAAATACAAAGGTCATGAGGAGAATAGGCAAGGGATGTGGTGAATTTTTCAGAGACAATAATTTCAAGATTGGAGATGTCTGTTTCTTTGAGCTGATCAAAAGGAAGGATGTTGTGCTAAAATTTTCGGTATTGCGCAACGCTGAATATGCAGTCAGGGTCGGTGGGAAAAAGAAAAATCCAAAGATTCTTGATAGTGGAACCTTGTACTTCTCTAAGAAGATTAAATTGATGGTATTATCCAGAGAAACCAAGAAGGCCATGAAGGCTGCGGGAGCTTTGAAGATTGAAAATCCTGCTTTCATGGTCATCTTGCGAGCGCACAACATGCACAACTCTTTTGTGCATGTGCCTGCTGAGTTTGTGAAGGATCATCTGCTTGGATGTGGTAACTCCATCAACCTTAAGGCCTCTAGTGACAAGTGGGGCGTGCGCTGCACAGTCCGCACTTATGAGCCTCTACGCCACAGAATGGAGATACGCTCAGGATTTTATGAATTTGCTAAGGATAATAATTTGGAGGAAGGAGATGTTTGTGTGTTTGAGCTGATCAAGAGTGAGGCTGATGCGCTCAGAGTTTCAATATTCCATGCCAGTGACTATGCAAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Protein Analysis

527

Amino Acids

60.56

Weight (kDa)

9.51

Isoelectric Point (pI)

43.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
B3	PF02362	19 - 109	2.5e-12	B3 DNA binding domain
B3	PF02362	273 - 370	3.8e-12	B3 DNA binding domain
B3	PF02362	425 - 521	3.1e-12	B3 DNA binding domain

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

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0004389)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G17170 AT5G17170
fragaria_vesca	FvH4_7g33550 FvH4_7g33550 FvH4_7g33560 FvH4_7g33560 FvH4_7g33560
malus_domestica	MD01G1233200.v1.1 MD07G1305400.v1.1
prunus_persica	Prupe.2G323500_v2.0.a1
pyrus_communis	pycom01g24150 pycom07g27870
rosa_chinensis	RchiOBHm_Chr1g0383771 RchiOBHm_Chr1g0383811
rosa_laevigata	RLG00000026095 RLG00000026096
rosa_multiflora	Rmu_co8230175.1_g000001 Rmu_sc0012471.1_g000008 Rmu_sc0019101.1_g000001
rosa_roxburghii	Rroxscaffold_4G00277220
rosa_rugosa	Rorug01G0442300 Rorug01G0442300
rosa_samantha	Rh1AG468000 Rh1AG468100 Rh1BG425700 Rh1BG425800 Rh1CG438400 Rh1CG438500 Rh1DG458500 Rh1DG458600
rosa_wichuraiana	Rw1G040430 Rw1G040440

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	1106
AccB7I	CCANNNNNTGG	1 cut(s)	1441
AciI	CCGC	2 cut(s)	1241, 1414
AclWI	GGATC	1 cut(s)	1347
AcoI	YGGCCR	1 cut(s)	226
AcsI	RAATTY	8 cut(s)	21, 52, 125, 239, 298, 1013, 1091, 1466
AfaI	GTAC	4 cut(s)	350, 651, 857, 1178
AfiI	CCNNNNNNNGG	4 cut(s)	37, 359, 885, 1441
AflII	CTTAAG	1 cut(s)	1373
AflIII	ACRYGT	1 cut(s)	586
AluBI	AGCT	7 cut(s)	170, 203, 666, 725, 1063, 1247, 1516
AluI	AGCT	7 cut(s)	170, 203, 666, 725, 1063, 1247, 1516
Alw21I	GWGCWC	1 cut(s)	205
Alw26I	GTCTC	1 cut(s)	1017
AlwI	GGATC	1 cut(s)	1347
AlwNI	CAGNNNCTG	1 cut(s)	97
AoxI	GGCC	4 cut(s)	3, 226, 1227, 1377
ApeKI	GCWGC	4 cut(s)	725, 835, 1238, 1404
ApoI	RAATTY	8 cut(s)	21, 52, 125, 239, 298, 1013, 1091, 1466
AspLEI	GCGC	4 cut(s)	1107, 1291, 1404, 1540
AsuHPI	GGTGA	1 cut(s)	1022
BanII	GRGCYC	1 cut(s)	205
Bbv12I	GWGCWC	1 cut(s)	205
BbvI	GCAGC	4 cut(s)	712, 847, 1225, 1391
BccI	CCATC	4 cut(s)	22, 260, 1195, 1373
BceAI	ACGGC	1 cut(s)	213
BclI	TGATCA	2 cut(s)	1065, 1518
BcoDI	GTCTC	1 cut(s)	1017
BfaI	CTAG	3 cut(s)	122, 663, 1383
BfrI	CTTAAG	1 cut(s)	1373
BglI	GCCNNNNNGGC	1 cut(s)	1235
BisI	GCNGC	4 cut(s)	726, 836, 1239, 1405
BlsI	GCNGC	4 cut(s)	727, 837, 1240, 1406
BmcAI	AGTACT	1 cut(s)	857
BmiI	GGNNCC	1 cut(s)	1171
BmsI	GCATC	2 cut(s)	947, 1525
BplI	GAGNNNNNCTC	2 cut(s)	1436, 1468
Bpu10I	CCTNAGC	2 cut(s)	1453, 1473
Bsc4I	CCNNNNNNNGG	4 cut(s)	37, 359, 885, 1441
Bse1I	ACTGG	2 cut(s)	102, 1563
Bse3DI	GCAATG	1 cut(s)	845
BseGI	GGATG	6 cut(s)	139, 391, 511, 1010, 1084, 1358
BseLI	CCNNNNNNNGG	4 cut(s)	37, 359, 885, 1441
BseMI	GCAATG	1 cut(s)	845
BseMII	CTCAG	3 cut(s)	1317, 1467, 1555
BseNI	ACTGG	2 cut(s)	102, 1563
BseRI	GAGGAG	1 cut(s)	1003
BseXI	GCAGC	4 cut(s)	712, 847, 1225, 1391
BsgI	GTGCAG	2 cut(s)	102, 1390
BshFI	GGCC	4 cut(s)	5, 228, 1229, 1379
BsiHKAI	GWGCWC	1 cut(s)	205
BsiSI	CCGG	1 cut(s)	31
BslFI	GGGAC	1 cut(s)	518
BslI	CCNNNNNNNGG	4 cut(s)	37, 359, 885, 1441
BsmAI	GTCTC	1 cut(s)	1017
BsmFI	GGGAC	1 cut(s)	518
BsmI	GAATGC	1 cut(s)	663
BsnI	GGCC	4 cut(s)	5, 228, 1229, 1379
Bsp1286I	GDGCHC	1 cut(s)	205
Bsp143I	GATC	7 cut(s)	342, 448, 514, 580, 1065, 1339, 1518
BspACI	CCGC	2 cut(s)	1241, 1414
BspANI	GGCC	4 cut(s)	5, 228, 1229, 1379
BspCNI	CTCAG	3 cut(s)	1318, 1466, 1554
BspHI	TCATGA	1 cut(s)	984
BspLI	GGNNCC	1 cut(s)	1171
BspPI	GGATC	1 cut(s)	1347
BspTI	CTTAAG	1 cut(s)	1373
BsrDI	GCAATG	1 cut(s)	845
BsrI	ACTGG	2 cut(s)	102, 1563
BssMI	GATC	7 cut(s)	342, 448, 514, 580, 1065, 1339, 1518
Bst4CI	ACNGT	3 cut(s)	141, 532, 1411
Bst6I	CTCTTC	4 cut(s)	375, 461, 495, 593
BstAFI	CTTAAG	1 cut(s)	1373
BstAPI	GCANNNNNTGC	1 cut(s)	1297
BstC8I	GCNNGC	4 cut(s)	636, 1287, 1323, 1400
BstDEI	CTNAG	6 cut(s)	277, 1185, 1326, 1453, 1473, 1541
BstENI	CCTNNNNNAGG	1 cut(s)	883
BstF5I	GGATG	6 cut(s)	139, 391, 511, 1010, 1084, 1358
BstHHI	GCGC	4 cut(s)	1107, 1291, 1404, 1540
BstKTI	GATC	7 cut(s)	345, 451, 517, 583, 1068, 1342, 1521
BstMAI	GTCTC	1 cut(s)	1017
BstMBI	GATC	7 cut(s)	342, 448, 514, 580, 1065, 1339, 1518
BstMWI	GCNNNNNNNGC	6 cut(s)	1118, 1235, 1244, 1297, 1404, 1413
BstNSI	RCATGY	3 cut(s)	590, 1300, 1319
BstV1I	GCAGC	4 cut(s)	712, 847, 1225, 1391
BsuRI	GGCC	4 cut(s)	5, 228, 1229, 1379
BtsCI	GGATG	6 cut(s)	139, 391, 511, 1010, 1084, 1358
BtsI	GCAGTG	1 cut(s)	950
BtsIMutI	CAGTG	2 cut(s)	950, 1570
Cac8I	GCNNGC	4 cut(s)	636, 1287, 1323, 1400
CaiI	CAGNNNCTG	1 cut(s)	97
CciI	TCATGA	1 cut(s)	984
CfoI	GCGC	4 cut(s)	1107, 1291, 1404, 1540
Csp6I	GTAC	4 cut(s)	349, 650, 856, 1177
CspCI	CAANNNNNGTGG	2 cut(s)	988, 1023
CviQI	GTAC	4 cut(s)	349, 650, 856, 1177
DdeI	CTNAG	6 cut(s)	277, 1185, 1326, 1453, 1473, 1541
DpnI	GATC	7 cut(s)	344, 450, 516, 582, 1067, 1341, 1520
DpnII	GATC	7 cut(s)	342, 448, 514, 580, 1065, 1339, 1518
EaeI	YGGCCR	1 cut(s)	226
Eam1104I	CTCTTC	4 cut(s)	375, 461, 495, 593
EarI	CTCTTC	4 cut(s)	375, 461, 495, 593
Ecl136II	GAGCTC	1 cut(s)	203
Eco147I	AGGCCT	1 cut(s)	1379
Eco24I	GRGCYC	1 cut(s)	205
Eco32I	GATATC	2 cut(s)	103, 952
Eco53kI	GAGCTC	1 cut(s)	203
EcoICRI	GAGCTC	1 cut(s)	203
EcoNI	CCTNNNNNAGG	1 cut(s)	883
EcoRV	GATATC	2 cut(s)	103, 952
EcoT38I	GRGCYC	1 cut(s)	205
FaqI	GGGAC	1 cut(s)	518
FauI	CCCGC	1 cut(s)	1234
FbaI	TGATCA	2 cut(s)	1065, 1518
Fnu4HI	GCNGC	4 cut(s)	726, 836, 1239, 1405
FokI	GGATG	6 cut(s)	146, 398, 518, 1017, 1091, 1365
FriOI	GRGCYC	1 cut(s)	205
Fsp4HI	GCNGC	4 cut(s)	726, 836, 1239, 1405
FspBI	CTAG	3 cut(s)	122, 663, 1383
FspI	TGCGCA	1 cut(s)	1106
GlaI	GCGC	4 cut(s)	1106, 1290, 1403, 1539
GluI	GCNGC	4 cut(s)	726, 836, 1239, 1405
HaeIII	GGCC	4 cut(s)	5, 228, 1229, 1379
HapII	CCGG	1 cut(s)	31
HhaI	GCGC	4 cut(s)	1107, 1291, 1404, 1540
Hin6I	GCGC	4 cut(s)	1105, 1289, 1402, 1538
HinP1I	GCGC	4 cut(s)	1105, 1289, 1402, 1538
HinfI	GANTC	5 cut(s)	41, 88, 781, 929, 1156
HpaII	CCGG	1 cut(s)	31
HphI	GGTGA	1 cut(s)	1022
Hpy188I	TCNGA	7 cut(s)	19, 40, 93, 774, 956, 1022, 1544
Hpy188III	TCNNGA	8 cut(s)	848, 908, 985, 1036, 1160, 1212, 1455, 1522
HpyAV	CCTTC	9 cut(s)	426, 546, 640, 879, 1069, 1219, 1228, 1330, 1487
HpyCH4III	ACNGT	3 cut(s)	141, 532, 1411
HpyCH4V	TGCA	9 cut(s)	119, 747, 835, 843, 1121, 1300, 1315, 1407, 1574
HpyF10VI	GCNNNNNNNGC	6 cut(s)	1118, 1235, 1244, 1297, 1404, 1413
HpyF3I	CTNAG	6 cut(s)	277, 1185, 1326, 1453, 1473, 1541
HspAI	GCGC	4 cut(s)	1105, 1289, 1402, 1538
Ksp22I	TGATCA	2 cut(s)	1065, 1518
Kzo9I	GATC	7 cut(s)	342, 448, 514, 580, 1065, 1339, 1518
LmnI	GCTCC	1 cut(s)	1244
Lsp1109I	GCAGC	4 cut(s)	712, 847, 1225, 1391
LweI	GCATC	2 cut(s)	947, 1525
MaeI	CTAG	3 cut(s)	122, 663, 1383
MaeIII	GTNAC	3 cut(s)	1358, 1385, 1565
MalI	GATC	7 cut(s)	344, 450, 516, 582, 1067, 1341, 1520
MboI	GATC	7 cut(s)	342, 448, 514, 580, 1065, 1339, 1518
MhlI	GDGCHC	1 cut(s)	205
MmeI	TCCRAC	2 cut(s)	18, 896
MseI	TTAA	7 cut(s)	260, 459, 591, 630, 714, 1194, 1374
MslI	CAYNNNNRTG	2 cut(s)	522, 1563
MspA1I	CMGCKG	1 cut(s)	170
MspCI	CTTAAG	1 cut(s)	1373
MspI	CCGG	1 cut(s)	31
Mva1269I	GAATGC	1 cut(s)	663
MwoI	GCNNNNNNNGC	6 cut(s)	1118, 1235, 1244, 1297, 1404, 1413
NdeII	GATC	7 cut(s)	342, 448, 514, 580, 1065, 1339, 1518
NlaIV	GGNNCC	1 cut(s)	1171
NmuCI	GTSAC	2 cut(s)	1385, 1565
NsbI	TGCGCA	1 cut(s)	1106
NspI	RCATGY	3 cut(s)	590, 1300, 1319
PagI	TCATGA	1 cut(s)	984
PceI	AGGCCT	1 cut(s)	1379
PciI	ACATGT	1 cut(s)	586
PctI	GAATGC	1 cut(s)	663
PfeI	GAWTC	5 cut(s)	41, 88, 781, 929, 1156
PflMI	CCANNNNNTGG	1 cut(s)	1441
PkrI	GCNGC	4 cut(s)	727, 837, 1240, 1406
PscI	ACATGT	1 cut(s)	586
Psp124BI	GAGCTC	1 cut(s)	205
PspN4I	GGNNCC	1 cut(s)	1171
PstNI	CAGNNNCTG	1 cut(s)	97
PvuII	CAGCTG	1 cut(s)	170
RsaI	GTAC	4 cut(s)	350, 651, 857, 1178
RsaNI	GTAC	4 cut(s)	349, 650, 856, 1177
RseI	CAYNNNNRTG	2 cut(s)	522, 1563
SacI	GAGCTC	1 cut(s)	205
SaqAI	TTAA	7 cut(s)	260, 459, 591, 630, 714, 1194, 1374
SatI	GCNGC	4 cut(s)	726, 836, 1239, 1405
Sau3AI	GATC	7 cut(s)	342, 448, 514, 580, 1065, 1339, 1518
ScaI	AGTACT	1 cut(s)	857
SduI	GDGCHC	1 cut(s)	205
SfaNI	GCATC	2 cut(s)	947, 1525
SmiMI	CAYNNNNRTG	2 cut(s)	522, 1563
SmlI	CTYRAG	1 cut(s)	1373
SmoI	CTYRAG	1 cut(s)	1373
SseBI	AGGCCT	1 cut(s)	1379
SsiI	CCGC	2 cut(s)	1241, 1414
SspI	AATATT	3 cut(s)	251, 708, 1554
SspMI	CTAG	3 cut(s)	122, 663, 1383
SstI	GAGCTC	1 cut(s)	205
StuI	AGGCCT	1 cut(s)	1379
TaaI	ACNGT	3 cut(s)	141, 532, 1411
TaqI	TCGA	2 cut(s)	302, 345
TatI	WGTACW	2 cut(s)	855, 1176
TfiI	GAWTC	5 cut(s)	41, 88, 781, 929, 1156
Tru1I	TTAA	7 cut(s)	260, 459, 591, 630, 714, 1194, 1374
Tru9I	TTAA	7 cut(s)	260, 459, 591, 630, 714, 1194, 1374
TscAI	CASTG	2 cut(s)	950, 1570
TseFI	GTSAC	2 cut(s)	1385, 1565
TseI	GCWGC	4 cut(s)	725, 835, 1238, 1404
Tsp45I	GTSAC	2 cut(s)	1385, 1565
TspDTI	ATGAA	7 cut(s)	150, 393, 773, 951, 1247, 1261, 1479
TspRI	CASTG	2 cut(s)	950, 1570
Van91I	CCANNNNNTGG	1 cut(s)	1441
Vha464I	CTTAAG	1 cut(s)	1373
XagI	CCTNNNNNAGG	1 cut(s)	883
XapI	RAATTY	8 cut(s)	21, 52, 125, 239, 298, 1013, 1091, 1466
XceI	RCATGY	3 cut(s)	590, 1300, 1319
XspI	CTAG	3 cut(s)	122, 663, 1383
ZrmI	AGTACT	1 cut(s)	857

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