Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0002660

Physical Location & Seq

Genomic Coordinates Reverse (-)

9188711 .. 9192602

Gene Structure 3892 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00288340.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1515 bp

ATGGCTCCCTCAGGTGTCAACCAGCTCTCTCACCCTTGTGTTTATGGGGAGTTTGTTTCTTCATACGCAGAGAGGAAGTCACGCTTTATGAAATGGCTGAGTAAACTTTTCAGGAGCGGGACCAATCGAGGAGGAACTGCTGGGAATCGCAATCATCAGCTTATTGGCGACGAAAACATGGTTTGGCGTGCGCCTTTTACATCTGTGGATGAGCGGTCTAGAACCCAGAAAGAGAAAGAGGAATTAGACCATGCAATTGCGCTCTCTCTGGCTGAAGATTCGAAGAGACCCAGTGGATATAGATGGCAGGACAAAGATAACGAGCTTGCTAGGTCACTTCAGGATATAAATCCACCAATATATCCTCCATATGCCCCTCCAGTTCCTCAGTATAATCTGTATGGAACTAGAATATGTGGTGGTTGTCAGCAAGATATACGTTACGGTAATTATTTGGGCTGCATGGGGACATTTTTTCATCCTCAGTGCTTCTGCTGCCGCTCTTGTGGTCGCCCAATTGTTGAGAATGAGTTTTCTCTATCAGGGAGGGATCCTTATCATAAGTCCTGTTTTAAGGAGCTGGCCCATCCAAAATGTGAAGTTTGTCATCAATTTATTCCAACGAATCGAGCTGGTCTGATCGAGTATAGATGCCATCCATTTTGGTCACAAAAATACTGTCCATCACATGAACATGATAACACAGCTCGTTGCTGTAGTTGTGAACGCTTAGAGTCTTGGGATGCAAGATATATTTCAGTGGGAGATGGACGGAGTCTATGCTTTGAATGTATGGAATCAGCTATCATGGATACTGGTGATTGTCAGCCATTGTATCATGCCATCAGAGATTATTATGAAGGAATGAATATGAAGTTAGATCAGCAAATTCCCATGCTTCTGGTTGAAAGACAAGCACTTAACGAAGCTATTGTCGGGGAGAAGAATGGCCTCCATCACATGCCCGAGACAAGGGGTTTATGCCTTTCTGAAGAGCAGACAGTCACCAGTATACTCAAAAGGCCAAGAATTGGAGGGCATCAACTTATCGGAATGAGAACCCAACCTCAAAAGTTGACTCGAAGATGTGAAGTTACTGCCATTCTTGTTCTCTATAGCCTTCCAAGATTACTAACAGGTGCTATTCTTGCTCATGAGTTGATGCACGGCTGGTTACGTCTCAAAGGCTACCGTAATCTTAATCCTGAAGTAGAGGAAGGTATCTGTCAAGTGCTTTCATACATGTGGCTTGAAACAGAAGTAATGCCAGGATTCAAAAACATGCCATCCACGTCTACATTTGCAGCTTCTTCTTCCACTTCCTCATCCTCATCGAAAAAGGGTGGAAAGTCGAATGTTGAACAGAAGCTTGGTGAATTTTTCATGCATCAAATTGCGAATGATTCTTCCCCAGCATATGGTGGAGGGTTTAGAGCAGCTAATGCAGCTGTCAATAAGTATGGTTTACGTCGTACTCTGGATCACATTCGTCTCACTGGAAATTTCCCATTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005515 GO:0007275 GO:0008150 GO:0009888 GO:0010087 GO:0010088 GO:0022622 GO:0032182 GO:0032501 GO:0032502 GO:0043130 GO:0048364 GO:0048731 GO:0048856 GO:0099402

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DA1-like LIM

Protein Analysis

504

Amino Acids

57.1

Weight (kDa)

8.36

Isoelectric Point (pI)

50.41

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LIM	PF00412	139 - 193	5.2e-08	LIM domain
DA1-like	PF12315	288 - 499	1.6e-100	Protein DA1

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0002660)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G39830 AT2G39830 AT2G39830 AT2G39830
fragaria_vesca	FvH4_7g23550 FvH4_7g23550 FvH4_7g23550 FvH4_7g23550 FvH4_7g23550 FvH4_7g23550 FvH4_7g23550
malus_domestica	MD01G1141300.v1.1 MD07G1205300.v1.1 MD07G1205400.v1.1
prunus_persica	Prupe.2G241500_v2.0.a1 Prupe.2G241500_v2.0.a1 Prupe.2G241500_v2.0.a1 Prupe.2G241500_v2.0.a1 Prupe.2G241500_v2.0.a1 Prupe.2G241500_v2.0.a1
pyrus_communis	pycom01g16160 pycom07g19190 pycom07g19200
rosa_chinensis	RchiOBHm_Chr1g0368711
rosa_laevigata	RLG00000027195
rosa_multiflora	Rmu_sc0001791.1_g000014 Rmu_sc0001791.1_g000015
rosa_roxburghii	Rroxscaffold_4G00288340
rosa_rugosa	Rorug01G0343900 Rorug01G0343900 Rorug01G0344000 Rorug01G0344000 Rorug01G0344100 Rorug01G0344100 Rorug01G0344100 Rorug01G0344100
rosa_samantha	Rh1AG351400 Rh1BG315100 Rh1CG329700 Rh1DG346600

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	2 cut(s)	1031, 1418
AccBSI	CCGCTC	3 cut(s)	117, 214, 501
AccI	GTMKAC	2 cut(s)	1012, 1295
AciI	CCGC	3 cut(s)	117, 214, 499
AclWI	GGATC	3 cut(s)	545, 558, 1488
AcsI	RAATTY	3 cut(s)	888, 1376, 1501
AcuI	CTGAAG	4 cut(s)	294, 323, 1011, 1227
AfaI	GTAC	1 cut(s)	1474
AfiI	CCNNNNNNNGG	3 cut(s)	972, 1031, 1418
AflIII	ACRYGT	1 cut(s)	1242
AgsI	TTSAA	5 cut(s)	788, 908, 1253, 1276, 1361
AjiI	CACGTC	1 cut(s)	1293
AjnI	CCWGG	1 cut(s)	1267
AjuI	GAANNNNNNNTTGG	2 cut(s)	1353, 1385
AleI	CACNNNNGTG	1 cut(s)	36
Alw26I	GTCTC	4 cut(s)	280, 962, 1184, 1496
AlwI	GGATC	3 cut(s)	545, 558, 1488
Ama87I	CYCGRG	1 cut(s)	965
AoxI	GGCC	3 cut(s)	582, 949, 1022
ApeKI	GCWGC	5 cut(s)	459, 495, 1304, 1436, 1445
ApoI	RAATTY	3 cut(s)	888, 1376, 1501
ArsI	GACNNNNNNTTYG	4 cut(s)	664, 696, 918, 950
AspLEI	GCGC	2 cut(s)	193, 262
AspS9I	GGNCC	2 cut(s)	120, 583
AsuHPI	GGTGA	4 cut(s)	23, 830, 997, 1385
AsuII	TTCGAA	1 cut(s)	281
AvaI	CYCGRG	1 cut(s)	965
AvaII	GGWCC	1 cut(s)	120
AxyI	CCTNAGG	1 cut(s)	10
BamHI	GGATCC	1 cut(s)	550
BbvI	GCAGC	5 cut(s)	446, 482, 1316, 1448, 1457
BccI	CCATC	8 cut(s)	297, 594, 663, 691, 761, 851, 963, 1294
BceAI	ACGGC	1 cut(s)	1183
BciT130I	CCWGG	1 cut(s)	1269
BciVI	GTATCC	1 cut(s)	805
BcoDI	GTCTC	4 cut(s)	280, 962, 1184, 1496
BfaI	CTAG	3 cut(s)	219, 330, 408
BfmI	CTRYAG	2 cut(s)	715, 1114
BfuI	GTATCC	1 cut(s)	805
BisI	GCNGC	6 cut(s)	460, 496, 499, 1305, 1437, 1446
BlsI	GCNGC	6 cut(s)	461, 497, 500, 1306, 1438, 1447
Bme1390I	CCNGG	1 cut(s)	1269
Bme18I	GGWCC	1 cut(s)	120
BmeT110I	CYCGRG	1 cut(s)	965
BmgBI	CACGTC	1 cut(s)	1293
BmgT120I	GGNCC	2 cut(s)	120, 583
BmiI	GGNNCC	3 cut(s)	6, 121, 552
BmrFI	CCNGG	1 cut(s)	1269
BmrI	ACTGGG	1 cut(s)	285
BmsI	GCATC	5 cut(s)	641, 733, 1048, 1152, 1396
BmuI	ACTGGG	1 cut(s)	285
BpmI	CTGGAG	1 cut(s)	363
Bpu14I	TTCGAA	1 cut(s)	281
BsaBI	GATNNNNATC	2 cut(s)	348, 555
BsaI	GGTCTC	1 cut(s)	280
Bsc4I	CCNNNNNNNGG	3 cut(s)	972, 1031, 1418
Bse1I	ACTGG	5 cut(s)	291, 380, 820, 1008, 1501
Bse21I	CCTNAGG	1 cut(s)	10
Bse8I	GATNNNNATC	2 cut(s)	348, 555
BseBI	CCWGG	1 cut(s)	1269
BseGI	GGATG	7 cut(s)	214, 478, 586, 655, 748, 1286, 1325
BseJI	GATNNNNATC	2 cut(s)	348, 555
BseLI	CCNNNNNNNGG	3 cut(s)	972, 1031, 1418
BseMII	CTCAG	4 cut(s)	24, 89, 401, 497
BseNI	ACTGG	5 cut(s)	291, 380, 820, 1008, 1501
BseRI	GAGGAG	1 cut(s)	144
BseXI	GCAGC	5 cut(s)	446, 482, 1316, 1448, 1457
BseYI	CCCAGC	2 cut(s)	140, 1411
BshFI	GGCC	3 cut(s)	584, 951, 1024
BsiHKCI	CYCGRG	1 cut(s)	965
BslFI	GGGAC	2 cut(s)	133, 481
BslI	CCNNNNNNNGG	3 cut(s)	972, 1031, 1418
BsmAI	GTCTC	4 cut(s)	280, 962, 1184, 1496
BsmBI	CGTCTC	2 cut(s)	1184, 1496
BsmFI	GGGAC	2 cut(s)	133, 481
BsnI	GGCC	3 cut(s)	584, 951, 1024
Bso31I	GGTCTC	1 cut(s)	280
BsoBI	CYCGRG	1 cut(s)	965
Bsp119I	TTCGAA	1 cut(s)	281
Bsp143I	GATC	4 cut(s)	550, 639, 880, 1480
BspACI	CCGC	3 cut(s)	117, 214, 499
BspANI	GGCC	3 cut(s)	584, 951, 1024
BspCNI	CTCAG	4 cut(s)	23, 90, 400, 496
BspHI	TCATGA	1 cut(s)	1153
BspLI	GGNNCC	3 cut(s)	6, 121, 552
BspPI	GGATC	3 cut(s)	545, 558, 1488
BspQI	GCTCTTC	1 cut(s)	987
BspT104I	TTCGAA	1 cut(s)	281
BspTNI	GGTCTC	1 cut(s)	280
BsrBI	CCGCTC	3 cut(s)	117, 214, 501
BsrI	ACTGG	5 cut(s)	291, 380, 820, 1008, 1501
BssMI	GATC	4 cut(s)	550, 639, 880, 1480
BssNAI	GTATAC	1 cut(s)	1013
Bst1107I	GTATAC	1 cut(s)	1013
Bst2UI	CCWGG	1 cut(s)	1269
Bst4CI	ACNGT	4 cut(s)	446, 680, 1003, 1193
Bst6I	CTCTTC	2 cut(s)	278, 987
BstAPI	GCANNNNNTGC	1 cut(s)	1442
BstBI	TTCGAA	1 cut(s)	281
BstC8I	GCNNGC	3 cut(s)	189, 327, 582
BstDEI	CTNAG	5 cut(s)	10, 98, 387, 483, 730
BstF5I	GGATG	7 cut(s)	214, 478, 586, 655, 748, 1286, 1325
BstHHI	GCGC	2 cut(s)	193, 262
BstKTI	GATC	4 cut(s)	553, 642, 883, 1483
BstMAI	GTCTC	4 cut(s)	280, 962, 1184, 1496
BstMBI	GATC	4 cut(s)	550, 639, 880, 1480
BstMWI	GCNNNNNNNGC	4 cut(s)	495, 1148, 1442, 1445
BstNI	CCWGG	1 cut(s)	1269
BstNSI	RCATGY	3 cut(s)	964, 1246, 1285
BstSCI	CCNGG	1 cut(s)	1267
BstSFI	CTRYAG	2 cut(s)	715, 1114
BstV1I	GCAGC	5 cut(s)	446, 482, 1316, 1448, 1457
BstX2I	RGATCY	1 cut(s)	550
BstXI	CCANNNNNNTGG	1 cut(s)	901
BstYI	RGATCY	1 cut(s)	550
BstZ17I	GTATAC	1 cut(s)	1013
Bsu36I	CCTNAGG	1 cut(s)	10
BsuI	GTATCC	1 cut(s)	805
BsuRI	GGCC	3 cut(s)	584, 951, 1024
BtrI	CACGTC	1 cut(s)	1293
BtsCI	GGATG	7 cut(s)	214, 478, 586, 655, 748, 1286, 1325
BtsIMutI	CAGTG	4 cut(s)	298, 491, 765, 1494
Cac8I	GCNNGC	3 cut(s)	189, 327, 582
CciI	TCATGA	1 cut(s)	1153
CfoI	GCGC	2 cut(s)	193, 262
Cfr13I	GGNCC	2 cut(s)	120, 583
Csp6I	GTAC	1 cut(s)	1473
CviQI	GTAC	1 cut(s)	1473
DdeI	CTNAG	5 cut(s)	10, 98, 387, 483, 730
DpnI	GATC	4 cut(s)	552, 641, 882, 1482
DpnII	GATC	4 cut(s)	550, 639, 880, 1480
Eam1104I	CTCTTC	2 cut(s)	278, 987
EarI	CTCTTC	2 cut(s)	278, 987
Eco31I	GGTCTC	1 cut(s)	280
Eco47I	GGWCC	1 cut(s)	120
Eco57I	CTGAAG	4 cut(s)	294, 323, 1011, 1227
Eco81I	CCTNAGG	1 cut(s)	10
Eco88I	CYCGRG	1 cut(s)	965
EcoRII	CCWGG	1 cut(s)	1267
EcoT22I	ATGCAT	1 cut(s)	1389
Esp3I	CGTCTC	2 cut(s)	1184, 1496
FalI	AAGNNNNNCTT	2 cut(s)	68, 100
FaqI	GGGAC	2 cut(s)	133, 481
FauI	CCCGC	1 cut(s)	110
FauNDI	CATATG	2 cut(s)	370, 1417
FblI	GTMKAC	2 cut(s)	1012, 1295
Fnu4HI	GCNGC	6 cut(s)	460, 496, 499, 1305, 1437, 1446
FokI	GGATG	7 cut(s)	221, 465, 573, 642, 755, 1273, 1312
Fsp4HI	GCNGC	6 cut(s)	460, 496, 499, 1305, 1437, 1446
FspBI	CTAG	3 cut(s)	219, 330, 408
GlaI	GCGC	2 cut(s)	192, 261
GluI	GCNGC	6 cut(s)	460, 496, 499, 1305, 1437, 1446
GsaI	CCCAGC	2 cut(s)	144, 1415
GsuI	CTGGAG	1 cut(s)	363
HaeIII	GGCC	3 cut(s)	584, 951, 1024
HhaI	GCGC	2 cut(s)	193, 262
Hin6I	GCGC	2 cut(s)	191, 260
HinP1I	GCGC	2 cut(s)	191, 260
HincII	GTYRAC	2 cut(s)	19, 1077
HindII	GTYRAC	2 cut(s)	19, 1077
HindIII	AAGCTT	1 cut(s)	1367
HinfI	GANTC	9 cut(s)	145, 278, 625, 734, 775, 797, 1078, 1272, 1403
HphI	GGTGA	4 cut(s)	23, 830, 997, 1385
Hpy166II	GTNNAC	7 cut(s)	19, 104, 725, 1013, 1077, 1296, 1466
Hpy188I	TCNGA	4 cut(s)	639, 848, 991, 1052
Hpy188III	TCNNGA	6 cut(s)	112, 219, 341, 1154, 1205, 1478
Hpy8I	GTNNAC	7 cut(s)	19, 104, 725, 1013, 1077, 1296, 1466
Hpy99I	CGWCG	2 cut(s)	173, 1473
HpyAV	CCTTC	3 cut(s)	854, 1130, 1211
HpyCH4III	ACNGT	4 cut(s)	446, 680, 1003, 1193
HpyCH4IV	ACGT	4 cut(s)	439, 1177, 1292, 1468
HpyCH4V	TGCA	7 cut(s)	254, 462, 746, 1165, 1304, 1387, 1445
HpyF10VI	GCNNNNNNNGC	4 cut(s)	495, 1148, 1442, 1445
HpyF3I	CTNAG	5 cut(s)	10, 98, 387, 483, 730
HpySE526I	ACGT	4 cut(s)	439, 1177, 1292, 1468
HspAI	GCGC	2 cut(s)	191, 260
Kzo9I	GATC	4 cut(s)	550, 639, 880, 1480
LguI	GCTCTTC	1 cut(s)	987
LmnI	GCTCC	3 cut(s)	10, 114, 577
Lsp1109I	GCAGC	5 cut(s)	446, 482, 1316, 1448, 1457
LweI	GCATC	5 cut(s)	641, 733, 1048, 1152, 1396
MaeI	CTAG	3 cut(s)	219, 330, 408
MaeII	ACGT	4 cut(s)	439, 1177, 1292, 1468
MaeIII	GTNAC	7 cut(s)	78, 333, 440, 666, 1003, 1093, 1173
MalI	GATC	4 cut(s)	552, 641, 882, 1482
MbiI	CCGCTC	3 cut(s)	117, 214, 501
MboI	GATC	4 cut(s)	550, 639, 880, 1480
MboII	GAAGA	9 cut(s)	51, 287, 295, 955, 1004, 1095, 1302, 1305, 1398
MfeI	CAATTG	2 cut(s)	255, 516
MflI	RGATCY	1 cut(s)	550
MlyI	GAGTC	3 cut(s)	743, 784, 1072
MmeI	TCCRAC	1 cut(s)	644
Mph1103I	ATGCAT	1 cut(s)	1389
MseI	TTAA	3 cut(s)	573, 921, 1200
MslI	CAYNNNNRTG	3 cut(s)	36, 693, 1243
MspA1I	CMGCKG	1 cut(s)	1448
MspR9I	CCNGG	1 cut(s)	1269
MunI	CAATTG	2 cut(s)	255, 516
MvaI	CCWGG	1 cut(s)	1269
MwoI	GCNNNNNNNGC	4 cut(s)	495, 1148, 1442, 1445
NdeI	CATATG	2 cut(s)	370, 1417
NdeII	GATC	4 cut(s)	550, 639, 880, 1480
NlaIV	GGNNCC	3 cut(s)	6, 121, 552
NmuCI	GTSAC	4 cut(s)	78, 333, 666, 1003
NsiI	ATGCAT	1 cut(s)	1389
NspI	RCATGY	3 cut(s)	964, 1246, 1285
NspV	TTCGAA	1 cut(s)	281
OliI	CACNNNNGTG	1 cut(s)	36
PagI	TCATGA	1 cut(s)	1153
PciI	ACATGT	1 cut(s)	1242
PciSI	GCTCTTC	1 cut(s)	987
PfeI	GAWTC	6 cut(s)	145, 278, 625, 797, 1272, 1403
PflFI	GACNNNGTC	1 cut(s)	774
PflMI	CCANNNNNTGG	2 cut(s)	1031, 1418
PkrI	GCNGC	6 cut(s)	461, 497, 500, 1306, 1438, 1447
PleI	GAGTC	3 cut(s)	742, 783, 1072
PpsI	GAGTC	3 cut(s)	742, 783, 1072
PscI	ACATGT	1 cut(s)	1242
Psp6I	CCWGG	1 cut(s)	1267
PspFI	CCCAGC	2 cut(s)	140, 1411
PspGI	CCWGG	1 cut(s)	1267
PspN4I	GGNNCC	3 cut(s)	6, 121, 552
PspPI	GGNCC	2 cut(s)	120, 583
PsuI	RGATCY	1 cut(s)	550
PsyI	GACNNNGTC	1 cut(s)	774
PvuII	CAGCTG	1 cut(s)	1448
RsaI	GTAC	1 cut(s)	1474
RsaNI	GTAC	1 cut(s)	1473
RseI	CAYNNNNRTG	3 cut(s)	36, 693, 1243
SapI	GCTCTTC	1 cut(s)	987
SaqAI	TTAA	3 cut(s)	573, 921, 1200
SatI	GCNGC	6 cut(s)	460, 496, 499, 1305, 1437, 1446
Sau3AI	GATC	4 cut(s)	550, 639, 880, 1480
Sau96I	GGNCC	2 cut(s)	120, 583
SchI	GAGTC	3 cut(s)	743, 784, 1072
ScrFI	CCNGG	1 cut(s)	1269
SfaNI	GCATC	5 cut(s)	641, 733, 1048, 1152, 1396
SfcI	CTRYAG	2 cut(s)	715, 1114
SfuI	TTCGAA	1 cut(s)	281
SinI	GGWCC	1 cut(s)	120
SmiMI	CAYNNNNRTG	3 cut(s)	36, 693, 1243
SsiI	CCGC	3 cut(s)	117, 214, 499
SspMI	CTAG	3 cut(s)	219, 330, 408
StyD4I	CCNGG	1 cut(s)	1267
TaaI	ACNGT	4 cut(s)	446, 680, 1003, 1193
TaiI	ACGT	4 cut(s)	442, 1180, 1295, 1471
TaqI	TCGA	7 cut(s)	127, 281, 628, 642, 1081, 1334, 1352
TauI	GCSGC	1 cut(s)	501
TfiI	GAWTC	6 cut(s)	145, 278, 625, 797, 1272, 1403
Tru1I	TTAA	3 cut(s)	573, 921, 1200
Tru9I	TTAA	3 cut(s)	573, 921, 1200
TscAI	CASTG	4 cut(s)	298, 491, 765, 1501
TseFI	GTSAC	4 cut(s)	78, 333, 666, 1003
TseI	GCWGC	5 cut(s)	459, 495, 1304, 1436, 1445
Tsp45I	GTSAC	4 cut(s)	78, 333, 666, 1003
TspDTI	ATGAA	9 cut(s)	51, 104, 467, 705, 873, 881, 887, 1227, 1372
TspGWI	ACGGA	1 cut(s)	787
TspRI	CASTG	4 cut(s)	298, 491, 765, 1501
Tth111I	GACNNNGTC	1 cut(s)	774
Van91I	CCANNNNNTGG	2 cut(s)	1031, 1418
VpaK11BI	GGWCC	1 cut(s)	120
XapI	RAATTY	3 cut(s)	888, 1376, 1501
XbaI	TCTAGA	1 cut(s)	218
XceI	RCATGY	3 cut(s)	964, 1246, 1285
XmiI	GTMKAC	2 cut(s)	1012, 1295
XspI	CTAG	3 cut(s)	219, 330, 408
Zsp2I	ATGCAT	1 cut(s)	1389

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