Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr1

Orthogroup ID

OG0002642

Physical Location & Seq

Genomic Coordinates Reverse (-)

67717992 .. 67719788

Gene Structure 1797 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw1G040460.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1494 bp

ATGCTGACGCAGTCCATTTTGTGTCCCAAGTCACCTTCAGTGTCATCATCCTCAGGTAGCTTCTTCACTTCTCTCTCTCTGTTCTATCCAACTTGTCTCAATTACTCTGAGAAACACAAGCTGCATGCTTCTCTAACTCGCTCAAATCCGAGCGAGGGTGTCAAAGAATTCAACTTTCTAGCTTCAAACGACGAAACTCATCCAGTTACTGACTACCCAAATGTCCCAACTCTCGGAGAGGAAATTTCCTTTGAGTTATACAACCATTTGTTACAAGATTTTTGTAGAGTTGGGCATGTTGATAAGGCCATGGCTATTCTTGCTCGAATGGAAGCTCTTGGCTTTCGACCCAATTCGATATCCTACACTCGTTTAATTGATGCTCTGGGAAGTATTGGGAGGACTTTGGAGGCTGATGTGTTGTTTCAGGAAATGATATTTGTGGGGTTTAGGCCAAGAATTAAGCTTTACAATGTGTTGCTTAGAGGGTTTTTGAAGAAAGGTTTGTTAGGACTCGCAATTAGAGTTTTGGGGGTAATGGGTGATTTGGGTACTGAGAGAAATCAAGAAACTTATGAGATTTTACTTGATTACTATGTCAATGCTGGGAGGTTGGAGGATACTTGGTCAATGATTAATGAGATGAAGCAGAAGAGGTTTCGGCTGAGCTCATTTGTGTACAGTAAGGTTATTGGTCTTTATAGAGACAATGGGATGTGGAAGAAAGCAATGGACATTGTGGAGGAGATAAAAGAAATGGGGATGGTATTAGACAAACAGATTTACAACAGCATTATTGATACATTTGGGAAATATGGTGAGTTGGATGAAGCATTGGAAGTCTTTGGGAAAATGAAACAAGAAGGTGTAAGGCCTGATATTTCGACCTTTAATTCGTTGATACGGTGGCACTGCAAGTCTGGTTTGTTAAAGAAGGCCCTTGAGTTGTTTACCGAGATGCAAGAACAAGGATTATATCCTGATCCGAAAATGTTTGTTACTATTATCAGTAGATTGGGGGAGCAAGGGAAGTGGGATATGATACAGAAGACCTTTGAGAATATGAGAAGCCGAGGGCATAAAAAAAGTGGGACTATTTATGCTGCTCTGGTTGACATTTATGGGCAATATGGAAAATTTCAGGACGCAGAAGAGTGTATATCTGCACTAAAGGCAGAAGGTCTTGTTCCCTCTGCCAGTATGTTTTGTGTCTTAGCAAATGCCTATGCCCAGCAGGGATTATGTGATCAGACAGTCAAAGTACTTCAGCTCATGGAAGCCGAGGGAATCGAACCAAATGTGATAATGCTGAATGTTTTGATTAATGCATTTGGTATTGCTGGTAGACATTTGGAGGCTTTGTCCATTTATCACCATATAAAAGAAAGTGTCCCTGAGATATACATGGATATGGAACATGCTGGATGCACCCCAGATAGAAAGGCTAGACAGATGTTAGAAGTCGCTTCATTGGTCCTTCAACAGAGGAATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0006082 GO:0006629 GO:0006720 GO:0006721 GO:0008150 GO:0008152 GO:0009685 GO:0009987 GO:0010817 GO:0016101 GO:0016491 GO:0016705 GO:0016706 GO:0019752 GO:0042445 GO:0043436 GO:0044237 GO:0044238 GO:0044255 GO:0044281 GO:0045543 GO:0051213 GO:0052635 GO:0055114 GO:0065007 GO:0065008 GO:0071704

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

2OG-FeII_Oxy DIOX_N

Protein Analysis

497

Amino Acids

56.29

Weight (kDa)

6.18

Isoelectric Point (pI)

39.08

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	85 - 130	5.3e-06	Pentatricopeptide repeat domain
PPR_2	PF13041	87 - 129	1.5e-09	PPR repeat family
PPR_long	PF17177	100 - 217	5.8e-06	Pentacotripeptide-repeat region of PRORP
PPR_2	PF13041	154 - 197	9.9e-06	PPR repeat family
PPR_2	PF13041	188 - 231	5e-07	PPR repeat family
TPR_24	PF23276	236 - 336	1.5e-08	Fungal tetratrico peptide repeats
PPR_3	PF13812	246 - 302	1.6e-10	Pentatricopeptide repeat domain
PPR_1	PF12854	253 - 286	2.6e-06	PPR repeat
PPR_2	PF13041	261 - 302	2.8e-11	PPR repeat family
PPR	PF01535	261 - 290	5e-07	PPR repeat
PPR_1	PF12854	289 - 321	8.1e-10	PPR repeat
PPR_2	PF13041	292 - 328	1.9e-10	PPR repeat family
PPR	PF01535	295 - 325	1.5e-08	PPR repeat
TPR_24	PF23276	336 - 459	1.6e-08	Fungal tetratrico peptide repeats
PPR_long	PF17177	348 - 466	1.4e-06	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	390 - 445	7.8e-07	Pentatricopeptide repeat domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0002642)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G42560 AT5G36300 AT5G36300
fragaria_vesca	FvH4_7g33490 FvH4_7g33490 FvH4_7g33530 FvH4_7g33530 FvH4_7g33530 FvH4_7g33530 FvH4_7g33530 FvH4_7g33530 FvH4_7g33530 FvH4_7g33530
malus_domestica	MD01G1232900.v1.1
prunus_persica	Prupe.2G323300_v2.0.a1
pyrus_communis	pycom01g24130 pycom07g27830
rosa_chinensis	RchiOBHm_Chr1g0383591 RchiOBHm_Chr1g0383651
rosa_laevigata	RLG00000026099
rosa_multiflora	Rmu_sc0012471.1_g000010 Rmu_sc0012471.1_g000013
rosa_roxburghii	Rroxscaffold_2G00116820 Rroxscaffold_2G00117690 Rroxscaffold_3G00229630 Rroxscaffold_4G00277240 Rroxscaffold_4G00302110 Rroxscaffold_5G00350700 Rroxscaffold_5G00350710 Rroxscaffold_7G00181950
rosa_rugosa	Rorug01G0442100 Rorug01G0442200
rosa_samantha	Rh1AG467600 Rh1AG467800 Rh1BG425300 Rh1CG437900 Rh1CG438100 Rh1DG458100
rosa_wichuraiana	Rw1G040460 Rw1G040480

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	1345
AclWI	GGATC	1 cut(s)	977
AcsI	RAATTY	3 cut(s)	167, 243, 1136
AcuI	CTGAAG	2 cut(s)	21, 1250
AfaI	GTAC	3 cut(s)	553, 680, 1263
AfiI	CCNNNNNNNGG	2 cut(s)	155, 233
AgsI	TTSAA	4 cut(s)	172, 186, 496, 1481
AluBI	AGCT	7 cut(s)	60, 121, 182, 335, 466, 669, 1270
AluI	AGCT	7 cut(s)	60, 121, 182, 335, 466, 669, 1270
Alw21I	GWGCWC	1 cut(s)	671
Alw26I	GTCTC	2 cut(s)	101, 699
AlwI	GGATC	1 cut(s)	977
AlwNI	CAGNNNCTG	1 cut(s)	209
AoxI	GGCC	4 cut(s)	306, 452, 872, 936
ApeKI	GCWGC	2 cut(s)	121, 1103
ApoI	RAATTY	3 cut(s)	167, 243, 1136
ArsI	GACNNNNNNTTYG	2 cut(s)	877, 909
AseI	ATTAAT	2 cut(s)	636, 1323
AspS9I	GGNCC	2 cut(s)	937, 1474
AsuHPI	GGTGA	4 cut(s)	24, 554, 830, 1364
AvaII	GGWCC	1 cut(s)	1474
AxyI	CCTNAGG	1 cut(s)	52
BanII	GRGCYC	1 cut(s)	671
BbsI	GAAGAC	1 cut(s)	1055
Bbv12I	GWGCWC	1 cut(s)	671
BbvI	GCAGC	2 cut(s)	108, 1090
BccI	CCATC	1 cut(s)	757
BciVI	GTATCC	1 cut(s)	613
BclI	TGATCA	1 cut(s)	1246
BcoDI	GTCTC	2 cut(s)	101, 699
BfaI	CTAG	2 cut(s)	179, 1446
BfuI	GTATCC	1 cut(s)	613
BisI	GCNGC	2 cut(s)	122, 1104
BlpI	GCTNAGC	1 cut(s)	665
BlsI	GCNGC	2 cut(s)	123, 1105
BmcAI	AGTACT	1 cut(s)	1263
Bme18I	GGWCC	1 cut(s)	1474
BmgT120I	GGNCC	2 cut(s)	937, 1474
BmsI	GCATC	3 cut(s)	370, 948, 1415
BpiI	GAAGAC	1 cut(s)	1055
Bpu1102I	GCTNAGC	1 cut(s)	665
BpuEI	CTTGAG	1 cut(s)	962
BsaJI	CCNNGG	3 cut(s)	309, 1072, 1281
BsaXI	ACNNNNNCTCC	2 cut(s)	1346, 1376
Bsc4I	CCNNNNNNNGG	2 cut(s)	155, 233
Bse1I	ACTGG	2 cut(s)	203, 1197
Bse21I	CCTNAGG	1 cut(s)	52
Bse3DI	GCAATG	1 cut(s)	735
BseDI	CCNNGG	3 cut(s)	309, 1072, 1281
BseGI	GGATG	6 cut(s)	47, 199, 720, 768, 832, 1430
BseLI	CCNNNNNNNGG	2 cut(s)	155, 233
BseMI	GCAATG	1 cut(s)	735
BseMII	CTCAG	5 cut(s)	66, 99, 546, 656, 1386
BseNI	ACTGG	2 cut(s)	203, 1197
BseRI	GAGGAG	1 cut(s)	758
BseXI	GCAGC	2 cut(s)	108, 1090
BseYI	CCCAGC	2 cut(s)	605, 1230
BsgI	GTGCAG	1 cut(s)	1149
BshFI	GGCC	4 cut(s)	308, 454, 874, 938
BsiHKAI	GWGCWC	1 cut(s)	671
BslFI	GGGAC	4 cut(s)	9, 209, 1105, 1376
BslI	CCNNNNNNNGG	2 cut(s)	155, 233
BsmAI	GTCTC	2 cut(s)	101, 699
BsmFI	GGGAC	4 cut(s)	9, 209, 1105, 1376
BsnI	GGCC	4 cut(s)	308, 454, 874, 938
Bsp1286I	GDGCHC	1 cut(s)	671
Bsp1407I	TGTACA	1 cut(s)	678
Bsp143I	GATC	2 cut(s)	982, 1246
Bsp1720I	GCTNAGC	1 cut(s)	665
Bsp19I	CCATGG	1 cut(s)	309
BspANI	GGCC	4 cut(s)	308, 454, 874, 938
BspCNI	CTCAG	5 cut(s)	65, 100, 547, 657, 1387
BspPI	GGATC	1 cut(s)	977
BsrDI	GCAATG	1 cut(s)	735
BsrGI	TGTACA	1 cut(s)	678
BsrI	ACTGG	2 cut(s)	203, 1197
BssECI	CCNNGG	3 cut(s)	309, 1072, 1281
BssMI	GATC	2 cut(s)	982, 1246
BssT1I	CCWWGG	1 cut(s)	309
Bst4CI	ACNGT	3 cut(s)	683, 906, 1255
Bst6I	CTCTTC	2 cut(s)	647, 1146
BstAUI	TGTACA	1 cut(s)	678
BstC8I	GCNNGC	1 cut(s)	126
BstDEI	CTNAG	7 cut(s)	52, 108, 482, 555, 665, 1213, 1395
BstDSI	CCRYGG	1 cut(s)	309
BstF5I	GGATG	6 cut(s)	47, 199, 720, 768, 832, 1430
BstKTI	GATC	2 cut(s)	985, 1249
BstMAI	GTCTC	2 cut(s)	101, 699
BstMBI	GATC	2 cut(s)	982, 1246
BstMWI	GCNNNNNNNGC	2 cut(s)	320, 1172
BstNSI	RCATGY	3 cut(s)	128, 299, 1421
BstV1I	GCAGC	2 cut(s)	108, 1090
BstV2I	GAAGAC	1 cut(s)	1055
Bsu36I	CCTNAGG	1 cut(s)	52
BsuI	GTATCC	1 cut(s)	613
BsuRI	GGCC	4 cut(s)	308, 454, 874, 938
BtgI	CCRYGG	1 cut(s)	309
BtsCI	GGATG	6 cut(s)	47, 199, 720, 768, 832, 1430
BtsI	GCAGTG	1 cut(s)	910
BtsIMutI	CAGTG	2 cut(s)	45, 910
Cac8I	GCNNGC	1 cut(s)	126
CaiI	CAGNNNCTG	1 cut(s)	209
Cfr13I	GGNCC	2 cut(s)	937, 1474
CseI	GACGC	2 cut(s)	16, 1154
Csp6I	GTAC	3 cut(s)	552, 679, 1262
CspCI	CAANNNNNGTGG	2 cut(s)	1013, 1048
CviAII	CATG	6 cut(s)	125, 296, 310, 1273, 1405, 1418
CviQI	GTAC	3 cut(s)	552, 679, 1262
DdeI	CTNAG	7 cut(s)	52, 108, 482, 555, 665, 1213, 1395
DpnI	GATC	2 cut(s)	984, 1248
DpnII	GATC	2 cut(s)	982, 1246
Eam1104I	CTCTTC	2 cut(s)	647, 1146
EarI	CTCTTC	2 cut(s)	647, 1146
Ecl136II	GAGCTC	1 cut(s)	669
Eco130I	CCWWGG	1 cut(s)	309
Eco147I	AGGCCT	1 cut(s)	874
Eco24I	GRGCYC	1 cut(s)	671
Eco32I	GATATC	1 cut(s)	360
Eco47I	GGWCC	1 cut(s)	1474
Eco53kI	GAGCTC	1 cut(s)	669
Eco57I	CTGAAG	2 cut(s)	21, 1250
Eco81I	CCTNAGG	1 cut(s)	52
EcoICRI	GAGCTC	1 cut(s)	669
EcoO109I	RGGNCCY	1 cut(s)	937
EcoRI	GAATTC	1 cut(s)	167
EcoRV	GATATC	1 cut(s)	360
EcoT14I	CCWWGG	1 cut(s)	309
EcoT22I	ATGCAT	1 cut(s)	1330
EcoT38I	GRGCYC	1 cut(s)	671
ErhI	CCWWGG	1 cut(s)	309
FaeI	CATG	6 cut(s)	128, 299, 313, 1276, 1408, 1421
FaqI	GGGAC	4 cut(s)	9, 209, 1105, 1376
FatI	CATG	6 cut(s)	124, 295, 309, 1272, 1404, 1417
FbaI	TGATCA	1 cut(s)	1246
FblI	GTMKAC	1 cut(s)	1345
Fnu4HI	GCNGC	2 cut(s)	122, 1104
FokI	GGATG	6 cut(s)	34, 186, 727, 775, 839, 1437
FriOI	GRGCYC	1 cut(s)	671
Fsp4HI	GCNGC	2 cut(s)	122, 1104
FspBI	CTAG	2 cut(s)	179, 1446
GluI	GCNGC	2 cut(s)	122, 1104
GsaI	CCCAGC	2 cut(s)	609, 1234
HaeIII	GGCC	4 cut(s)	308, 454, 874, 938
HgaI	GACGC	2 cut(s)	16, 1154
Hin1II	CATG	6 cut(s)	128, 299, 313, 1276, 1408, 1421
HincII	GTYRAC	1 cut(s)	1114
HindII	GTYRAC	1 cut(s)	1114
HindIII	AAGCTT	1 cut(s)	464
HinfI	GANTC	2 cut(s)	513, 1287
HphI	GGTGA	4 cut(s)	24, 554, 830, 1364
Hpy166II	GTNNAC	4 cut(s)	679, 951, 1114, 1346
Hpy188I	TCNGA	5 cut(s)	109, 150, 236, 987, 1251
Hpy188III	TCNNGA	4 cut(s)	428, 566, 980, 1142
Hpy8I	GTNNAC	4 cut(s)	679, 951, 1114, 1346
Hpy99I	CGWCG	1 cut(s)	194
HpyAV	CCTTC	5 cut(s)	45, 857, 928, 1172, 1487
HpyCH4III	ACNGT	3 cut(s)	683, 906, 1255
HpyCH4V	TGCA	6 cut(s)	124, 915, 961, 1166, 1328, 1428
HpyF10VI	GCNNNNNNNGC	2 cut(s)	320, 1172
HpyF3I	CTNAG	7 cut(s)	52, 108, 482, 555, 665, 1213, 1395
Hsp92II	CATG	6 cut(s)	128, 299, 313, 1276, 1408, 1421
Ksp22I	TGATCA	1 cut(s)	1246
Kzo9I	GATC	2 cut(s)	982, 1246
LmnI	GCTCC	1 cut(s)	1021
Lsp1109I	GCAGC	2 cut(s)	108, 1090
LweI	GCATC	3 cut(s)	370, 948, 1415
MaeI	CTAG	2 cut(s)	179, 1446
MaeIII	GTNAC	4 cut(s)	30, 205, 270, 997
MalI	GATC	2 cut(s)	984, 1248
MboI	GATC	2 cut(s)	982, 1246
MboII	GAAGA	6 cut(s)	55, 508, 664, 733, 1060, 1163
MhlI	GDGCHC	1 cut(s)	671
MlyI	GAGTC	1 cut(s)	507
MmeI	TCCRAC	3 cut(s)	113, 594, 804
Mph1103I	ATGCAT	1 cut(s)	1330
MseI	TTAA	6 cut(s)	374, 462, 636, 891, 929, 1323
MslI	CAYNNNNRTG	1 cut(s)	1409
MwoI	GCNNNNNNNGC	2 cut(s)	320, 1172
NcoI	CCATGG	1 cut(s)	309
NdeII	GATC	2 cut(s)	982, 1246
NlaIII	CATG	6 cut(s)	128, 299, 313, 1276, 1408, 1421
NmeAIII	GCCGAG	2 cut(s)	1097, 1306
NmuCI	GTSAC	1 cut(s)	30
NsiI	ATGCAT	1 cut(s)	1330
NspI	RCATGY	3 cut(s)	128, 299, 1421
PaeI	GCATGC	1 cut(s)	128
PceI	AGGCCT	1 cut(s)	874
PfeI	GAWTC	1 cut(s)	1287
PflFI	GACNNNGTC	1 cut(s)	10
PkrI	GCNGC	2 cut(s)	123, 1105
PleI	GAGTC	1 cut(s)	507
PpsI	GAGTC	1 cut(s)	507
PshBI	ATTAAT	2 cut(s)	636, 1323
Psp124BI	GAGCTC	1 cut(s)	671
PspFI	CCCAGC	2 cut(s)	605, 1230
PspPI	GGNCC	2 cut(s)	937, 1474
PstNI	CAGNNNCTG	1 cut(s)	209
PsyI	GACNNNGTC	1 cut(s)	10
RsaI	GTAC	3 cut(s)	553, 680, 1263
RsaNI	GTAC	3 cut(s)	552, 679, 1262
RseI	CAYNNNNRTG	1 cut(s)	1409
SacI	GAGCTC	1 cut(s)	671
SaqAI	TTAA	6 cut(s)	374, 462, 636, 891, 929, 1323
SatI	GCNGC	2 cut(s)	122, 1104
Sau3AI	GATC	2 cut(s)	982, 1246
Sau96I	GGNCC	2 cut(s)	937, 1474
ScaI	AGTACT	1 cut(s)	1263
SchI	GAGTC	1 cut(s)	507
SduI	GDGCHC	1 cut(s)	671
SfaNI	GCATC	3 cut(s)	370, 948, 1415
SinI	GGWCC	1 cut(s)	1474
SmiMI	CAYNNNNRTG	1 cut(s)	1409
SmlI	CTYRAG	1 cut(s)	941
SmoI	CTYRAG	1 cut(s)	941
SphI	GCATGC	1 cut(s)	128
SseBI	AGGCCT	1 cut(s)	874
SspMI	CTAG	2 cut(s)	179, 1446
SstI	GAGCTC	1 cut(s)	671
StuI	AGGCCT	1 cut(s)	874
StyI	CCWWGG	1 cut(s)	309
TaaI	ACNGT	3 cut(s)	683, 906, 1255
TaqI	TCGA	5 cut(s)	325, 346, 356, 884, 1290
TatI	WGTACW	2 cut(s)	678, 1261
TfiI	GAWTC	1 cut(s)	1287
Tru1I	TTAA	6 cut(s)	374, 462, 636, 891, 929, 1323
Tru9I	TTAA	6 cut(s)	374, 462, 636, 891, 929, 1323
TscAI	CASTG	2 cut(s)	45, 917
TseFI	GTSAC	1 cut(s)	30
TseI	GCWGC	2 cut(s)	121, 1103
Tsp45I	GTSAC	1 cut(s)	30
TspDTI	ATGAA	4 cut(s)	659, 843, 869, 1458
TspRI	CASTG	2 cut(s)	45, 917
Tth111I	GACNNNGTC	1 cut(s)	10
VpaK11BI	GGWCC	1 cut(s)	1474
VspI	ATTAAT	2 cut(s)	636, 1323
XapI	RAATTY	3 cut(s)	167, 243, 1136
XceI	RCATGY	3 cut(s)	128, 299, 1421
XmiI	GTMKAC	1 cut(s)	1345
XspI	CTAG	2 cut(s)	179, 1446
ZrmI	AGTACT	1 cut(s)	1263
Zsp2I	ATGCAT	1 cut(s)	1330

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