Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr1

Orthogroup ID

OG0002642

Physical Location & Seq

Genomic Coordinates Reverse (-)

67740071 .. 67741854

Gene Structure 1784 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw1G040480.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1440 bp

ATGCTGACGCAGTCCCTTTTGTGTCCCAAGTCACCTTCAGTGTCATCGTCCTCAGGTAGCTTCTTCACTTCTCTCTCTCTGTTATGTCCAACTTGTCTCAAATACTCTGAGAAACACAAGCTGCATGCTTCTCTAACTCGCTCAAACCCCAGCGAGGGTGTCAAAGAATTCAACTTTCTAGCTTCAAACGACAAAACTCATCCAGTTACTGACTACCCAAATGTCCCAACTCTCGGAGAGGAAATTTCCTTTGAGTTATACAACCATTTGTTACAAGATTTTTGTAGAGTTGGGCATGTTGATAAGGCCATGGCTCTTCTTGCTCGAATGGAAGCTCTTGGCTTTCGACCCAATTCGATATCCTACACTCGTTTAATTGATGCTCTGGGAAGGTTTTTGAAGAAAGGTTTGTTAGGACTTGCAATTAGAGTTTTGGGAGTAATGGGTGATTTGGGTACTGAAAGAAATCGAGAAACTTATGAGATTTTACTTGATTACTATGTCAATGCTGGGAGGTTGGAGGATACTTGGTCAATGATTAATGAGATGAAGCAGAAGAGGTTTCGGCTGAGCTCATTTGTGTACAGTAAGGTTATTGGTCTTTATAGGGACAATGGGATGTGGAAGAAAGCAATGGACATTGTGGAGGAGATAAAAGAAATGGGGATGGTATTAGACAAACAGATTTACAACAGCATTATTGATACATTTGGGAAATATGATGAGTTGGATGAAGCATTGGAAGTGCCTGATATTTCGACCTTTAATTCGTTGATACGGTGGCACTGCAAGTCTGGTTTGTTAAAGAAGGCCCTTGAGTTGTTTACCGAGATGCAAGAACAAGGATTATATCCTGATCCGAAAATGTTTGTTACTATTATCAGTAGATTGGGGGAGCAAGGGAAGTGGGATATGATACAGAAGACCTTTGAGAATATGAGAAGCCGAGGGCATAAAAAAAGTGGGACTATTTATGCTGCTCTGGTTGACATTTATGGGCAATATGGAAAATTTCAGGACGCAGAAGAGTGTATATCTGCACTAAAGGCAGAAGGTCTTGTTCCCTCTGCCAGTATGTTTTGTGTCTTAGCAAATGCCTATGCCCAGCAGGGATTATGTGATCAGACAGTCAAAGTACTTCAGCTCATGGAAGCCGAGGGAATCGAACCAAATGTGATAATGCTGAATGTTTTGATTAATGCATTTGGTATTGCTGGTAGACATTTGGAGGCTTTGTCCATTTATCACCATATAAAAGAAAGTGGTTTAAGCCCCGATGTAGTTACTTATACTACCCTTATGAAGGCGTTTATTCGAGCAAGGAAGTATGATAAGGTCCCTGAGATATACATGGATATGGAACATGCTGGATGCACCCCAGATAGAAAGGCTAGACAGATGTTAGAAGTCGCTTCATTGGTCCTTCAACAGAGGAATTGA

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

PPR PPR_2 PPR_3

Protein Analysis

479

Amino Acids

54.22

Weight (kDa)

6.62

Isoelectric Point (pI)

38.05

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	87 - 130	3.2e-10	PPR repeat family
TPR_24	PF23276	135 - 249	4.6e-08	Fungal tetratrico peptide repeats
PPR_2	PF13041	158 - 199	7.4e-07	PPR repeat family
PPR_1	PF12854	249 - 279	1e-08	PPR repeat
PPR_2	PF13041	250 - 286	1.8e-10	PPR repeat family
PPR	PF01535	253 - 283	1.4e-08	PPR repeat
PPR_long	PF17177	264 - 401	9.9e-07	Pentacotripeptide-repeat region of PRORP
TPR_24	PF23276	294 - 417	1.5e-08	Fungal tetratrico peptide repeats
PPR_3	PF13812	349 - 403	1.1e-06	Pentatricopeptide repeat domain
PPR_2	PF13041	390 - 438	1.2e-11	PPR repeat family
PPR_3	PF13812	413 - 461	5.3e-09	Pentatricopeptide repeat domain
PPR_2	PF13041	425 - 462	1.9e-08	PPR repeat family

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)	1219
AclWI	GGATC	1 cut(s)	851
AcsI	RAATTY	3 cut(s)	167, 243, 1010
AcuI	CTGAAG	2 cut(s)	21, 1124
AfaI	GTAC	3 cut(s)	457, 584, 1137
AfiI	CCNNNNNNNGG	4 cut(s)	154, 155, 233, 1303
AgsI	TTSAA	4 cut(s)	172, 186, 400, 1427
AluBI	AGCT	6 cut(s)	60, 121, 182, 335, 573, 1144
AluI	AGCT	6 cut(s)	60, 121, 182, 335, 573, 1144
Alw21I	GWGCWC	1 cut(s)	575
Alw26I	GTCTC	1 cut(s)	101
AlwI	GGATC	1 cut(s)	851
AlwNI	CAGNNNCTG	1 cut(s)	209
AoxI	GGCC	2 cut(s)	306, 810
ApeKI	GCWGC	2 cut(s)	121, 977
ApoI	RAATTY	3 cut(s)	167, 243, 1010
ArsI	GACNNNNNNTTYG	2 cut(s)	751, 783
AseI	ATTAAT	2 cut(s)	540, 1197
AspS9I	GGNCC	3 cut(s)	811, 1336, 1420
AsuHPI	GGTGA	3 cut(s)	24, 458, 1238
AvaII	GGWCC	2 cut(s)	1336, 1420
AxyI	CCTNAGG	1 cut(s)	52
BanII	GRGCYC	1 cut(s)	575
BbsI	GAAGAC	1 cut(s)	929
Bbv12I	GWGCWC	1 cut(s)	575
BbvI	GCAGC	2 cut(s)	108, 964
BccI	CCATC	1 cut(s)	661
BciVI	GTATCC	1 cut(s)	517
BclI	TGATCA	1 cut(s)	1120
BcoDI	GTCTC	1 cut(s)	101
BfaI	CTAG	2 cut(s)	179, 1392
BfuI	GTATCC	1 cut(s)	517
BisI	GCNGC	2 cut(s)	122, 978
BlpI	GCTNAGC	1 cut(s)	569
BlsI	GCNGC	2 cut(s)	123, 979
BmcAI	AGTACT	1 cut(s)	1137
Bme18I	GGWCC	2 cut(s)	1336, 1420
BmgT120I	GGNCC	3 cut(s)	811, 1336, 1420
BmiI	GGNNCC	1 cut(s)	1338
BmsI	GCATC	3 cut(s)	370, 822, 1361
BpiI	GAAGAC	1 cut(s)	929
Bpu1102I	GCTNAGC	1 cut(s)	569
BpuEI	CTTGAG	1 cut(s)	836
BsaJI	CCNNGG	3 cut(s)	309, 946, 1155
BsaXI	ACNNNNNCTCC	2 cut(s)	1220, 1250
Bsc4I	CCNNNNNNNGG	4 cut(s)	154, 155, 233, 1303
Bse1I	ACTGG	2 cut(s)	203, 1071
Bse21I	CCTNAGG	1 cut(s)	52
Bse3DI	GCAATG	1 cut(s)	639
BseDI	CCNNGG	3 cut(s)	309, 946, 1155
BseGI	GGATG	5 cut(s)	199, 624, 672, 736, 1376
BseLI	CCNNNNNNNGG	4 cut(s)	154, 155, 233, 1303
BseMI	GCAATG	1 cut(s)	639
BseMII	CTCAG	4 cut(s)	66, 99, 560, 1332
BseNI	ACTGG	2 cut(s)	203, 1071
BseRI	GAGGAG	1 cut(s)	662
BseXI	GCAGC	2 cut(s)	108, 964
BseYI	CCCAGC	3 cut(s)	149, 509, 1104
BsgI	GTGCAG	1 cut(s)	1023
BshFI	GGCC	2 cut(s)	308, 812
BsiHKAI	GWGCWC	1 cut(s)	575
BslFI	GGGAC	5 cut(s)	9, 209, 623, 979, 1322
BslI	CCNNNNNNNGG	4 cut(s)	154, 155, 233, 1303
BsmAI	GTCTC	1 cut(s)	101
BsmFI	GGGAC	5 cut(s)	9, 209, 623, 979, 1322
BsnI	GGCC	2 cut(s)	308, 812
Bsp1286I	GDGCHC	1 cut(s)	575
Bsp1407I	TGTACA	1 cut(s)	582
Bsp143I	GATC	2 cut(s)	856, 1120
Bsp1720I	GCTNAGC	1 cut(s)	569
Bsp19I	CCATGG	1 cut(s)	309
BspANI	GGCC	2 cut(s)	308, 812
BspCNI	CTCAG	4 cut(s)	65, 100, 561, 1333
BspLI	GGNNCC	1 cut(s)	1338
BspPI	GGATC	1 cut(s)	851
BspQI	GCTCTTC	1 cut(s)	321
BsrDI	GCAATG	1 cut(s)	639
BsrGI	TGTACA	1 cut(s)	582
BsrI	ACTGG	2 cut(s)	203, 1071
BssECI	CCNNGG	3 cut(s)	309, 946, 1155
BssMI	GATC	2 cut(s)	856, 1120
BssT1I	CCWWGG	1 cut(s)	309
Bst4CI	ACNGT	3 cut(s)	587, 780, 1129
Bst6I	CTCTTC	3 cut(s)	321, 551, 1020
BstAUI	TGTACA	1 cut(s)	582
BstC8I	GCNNGC	1 cut(s)	126
BstDEI	CTNAG	5 cut(s)	52, 108, 569, 1087, 1341
BstDSI	CCRYGG	1 cut(s)	309
BstENI	CCTNNNNNAGG	1 cut(s)	1301
BstF5I	GGATG	5 cut(s)	199, 624, 672, 736, 1376
BstKTI	GATC	2 cut(s)	859, 1123
BstMAI	GTCTC	1 cut(s)	101
BstMBI	GATC	2 cut(s)	856, 1120
BstMWI	GCNNNNNNNGC	2 cut(s)	320, 1046
BstNSI	RCATGY	3 cut(s)	128, 299, 1367
BstV1I	GCAGC	2 cut(s)	108, 964
BstV2I	GAAGAC	1 cut(s)	929
Bsu36I	CCTNAGG	1 cut(s)	52
BsuI	GTATCC	1 cut(s)	517
BsuRI	GGCC	2 cut(s)	308, 812
BtgI	CCRYGG	1 cut(s)	309
BtsCI	GGATG	5 cut(s)	199, 624, 672, 736, 1376
BtsI	GCAGTG	1 cut(s)	784
BtsIMutI	CAGTG	2 cut(s)	45, 784
Cac8I	GCNNGC	1 cut(s)	126
CaiI	CAGNNNCTG	1 cut(s)	209
Cfr13I	GGNCC	3 cut(s)	811, 1336, 1420
CseI	GACGC	2 cut(s)	16, 1028
Csp6I	GTAC	3 cut(s)	456, 583, 1136
CspCI	CAANNNNNGTGG	2 cut(s)	887, 922
CviAII	CATG	6 cut(s)	125, 296, 310, 1147, 1351, 1364
CviQI	GTAC	3 cut(s)	456, 583, 1136
DdeI	CTNAG	5 cut(s)	52, 108, 569, 1087, 1341
DpnI	GATC	2 cut(s)	858, 1122
DpnII	GATC	2 cut(s)	856, 1120
Eam1104I	CTCTTC	3 cut(s)	321, 551, 1020
EarI	CTCTTC	3 cut(s)	321, 551, 1020
Ecl136II	GAGCTC	1 cut(s)	573
Eco130I	CCWWGG	1 cut(s)	309
Eco24I	GRGCYC	1 cut(s)	575
Eco32I	GATATC	1 cut(s)	360
Eco47I	GGWCC	2 cut(s)	1336, 1420
Eco53kI	GAGCTC	1 cut(s)	573
Eco57I	CTGAAG	2 cut(s)	21, 1124
Eco81I	CCTNAGG	1 cut(s)	52
EcoICRI	GAGCTC	1 cut(s)	573
EcoNI	CCTNNNNNAGG	1 cut(s)	1301
EcoO109I	RGGNCCY	2 cut(s)	811, 1336
EcoRI	GAATTC	1 cut(s)	167
EcoRV	GATATC	1 cut(s)	360
EcoT14I	CCWWGG	1 cut(s)	309
EcoT22I	ATGCAT	1 cut(s)	1204
EcoT38I	GRGCYC	1 cut(s)	575
ErhI	CCWWGG	1 cut(s)	309
FaeI	CATG	6 cut(s)	128, 299, 313, 1150, 1354, 1367
FaqI	GGGAC	5 cut(s)	9, 209, 623, 979, 1322
FatI	CATG	6 cut(s)	124, 295, 309, 1146, 1350, 1363
FbaI	TGATCA	1 cut(s)	1120
FblI	GTMKAC	1 cut(s)	1219
Fnu4HI	GCNGC	2 cut(s)	122, 978
FokI	GGATG	5 cut(s)	186, 631, 679, 743, 1383
FriOI	GRGCYC	1 cut(s)	575
Fsp4HI	GCNGC	2 cut(s)	122, 978
FspBI	CTAG	2 cut(s)	179, 1392
GluI	GCNGC	2 cut(s)	122, 978
GsaI	CCCAGC	3 cut(s)	153, 513, 1108
HaeIII	GGCC	2 cut(s)	308, 812
HgaI	GACGC	2 cut(s)	16, 1028
Hin1II	CATG	6 cut(s)	128, 299, 313, 1150, 1354, 1367
HincII	GTYRAC	1 cut(s)	988
HindII	GTYRAC	1 cut(s)	988
HinfI	GANTC	1 cut(s)	1161
HphI	GGTGA	3 cut(s)	24, 458, 1238
Hpy166II	GTNNAC	4 cut(s)	583, 825, 988, 1220
Hpy188I	TCNGA	4 cut(s)	109, 236, 861, 1125
Hpy188III	TCNNGA	3 cut(s)	470, 854, 1016
Hpy8I	GTNNAC	4 cut(s)	583, 825, 988, 1220
HpyAV	CCTTC	6 cut(s)	45, 384, 802, 1046, 1297, 1433
HpyCH4III	ACNGT	3 cut(s)	587, 780, 1129
HpyCH4V	TGCA	7 cut(s)	124, 422, 789, 835, 1040, 1202, 1374
HpyF10VI	GCNNNNNNNGC	2 cut(s)	320, 1046
HpyF3I	CTNAG	5 cut(s)	52, 108, 569, 1087, 1341
Hsp92II	CATG	6 cut(s)	128, 299, 313, 1150, 1354, 1367
Ksp22I	TGATCA	1 cut(s)	1120
Kzo9I	GATC	2 cut(s)	856, 1120
LguI	GCTCTTC	1 cut(s)	321
LmnI	GCTCC	1 cut(s)	895
Lsp1109I	GCAGC	2 cut(s)	108, 964
LweI	GCATC	3 cut(s)	370, 822, 1361
MaeI	CTAG	2 cut(s)	179, 1392
MaeIII	GTNAC	5 cut(s)	30, 205, 270, 871, 1282
MalI	GATC	2 cut(s)	858, 1122
MboI	GATC	2 cut(s)	856, 1120
MboII	GAAGA	7 cut(s)	55, 308, 412, 568, 637, 934, 1037
MhlI	GDGCHC	1 cut(s)	575
MluCI	AATT	8 cut(s)	167, 243, 352, 375, 423, 766, 1010, 1435
MmeI	TCCRAC	3 cut(s)	113, 498, 708
Mph1103I	ATGCAT	1 cut(s)	1204
MseI	TTAA	6 cut(s)	374, 540, 765, 803, 1197, 1268
MslI	CAYNNNNRTG	1 cut(s)	1355
MwoI	GCNNNNNNNGC	2 cut(s)	320, 1046
NcoI	CCATGG	1 cut(s)	309
NdeII	GATC	2 cut(s)	856, 1120
NlaIII	CATG	6 cut(s)	128, 299, 313, 1150, 1354, 1367
NlaIV	GGNNCC	1 cut(s)	1338
NmeAIII	GCCGAG	2 cut(s)	971, 1180
NmuCI	GTSAC	1 cut(s)	30
NsiI	ATGCAT	1 cut(s)	1204
NspI	RCATGY	3 cut(s)	128, 299, 1367
PaeI	GCATGC	1 cut(s)	128
PciSI	GCTCTTC	1 cut(s)	321
PfeI	GAWTC	1 cut(s)	1161
PflFI	GACNNNGTC	1 cut(s)	10
PkrI	GCNGC	2 cut(s)	123, 979
PpuMI	RGGWCCY	1 cut(s)	1336
PshBI	ATTAAT	2 cut(s)	540, 1197
Psp124BI	GAGCTC	1 cut(s)	575
Psp5II	RGGWCCY	1 cut(s)	1336
PspFI	CCCAGC	3 cut(s)	149, 509, 1104
PspN4I	GGNNCC	1 cut(s)	1338
PspPI	GGNCC	3 cut(s)	811, 1336, 1420
PspPPI	RGGWCCY	1 cut(s)	1336
PstNI	CAGNNNCTG	1 cut(s)	209
PsyI	GACNNNGTC	1 cut(s)	10
RsaI	GTAC	3 cut(s)	457, 584, 1137
RsaNI	GTAC	3 cut(s)	456, 583, 1136
RseI	CAYNNNNRTG	1 cut(s)	1355
SacI	GAGCTC	1 cut(s)	575
SapI	GCTCTTC	1 cut(s)	321
SaqAI	TTAA	6 cut(s)	374, 540, 765, 803, 1197, 1268
SatI	GCNGC	2 cut(s)	122, 978
Sau3AI	GATC	2 cut(s)	856, 1120
Sau96I	GGNCC	3 cut(s)	811, 1336, 1420
ScaI	AGTACT	1 cut(s)	1137
SduI	GDGCHC	1 cut(s)	575
SfaNI	GCATC	3 cut(s)	370, 822, 1361
SinI	GGWCC	2 cut(s)	1336, 1420
SmiMI	CAYNNNNRTG	1 cut(s)	1355
SmlI	CTYRAG	1 cut(s)	815
SmoI	CTYRAG	1 cut(s)	815
SphI	GCATGC	1 cut(s)	128
Sse9I	AATT	8 cut(s)	167, 243, 352, 375, 423, 766, 1010, 1435
SspMI	CTAG	2 cut(s)	179, 1392
SstI	GAGCTC	1 cut(s)	575
StyI	CCWWGG	1 cut(s)	309
TaaI	ACNGT	3 cut(s)	587, 780, 1129
TaqI	TCGA	7 cut(s)	325, 346, 356, 469, 758, 1164, 1315
TasI	AATT	8 cut(s)	167, 243, 352, 375, 423, 766, 1010, 1435
TatI	WGTACW	2 cut(s)	582, 1135
TfiI	GAWTC	1 cut(s)	1161
Tru1I	TTAA	6 cut(s)	374, 540, 765, 803, 1197, 1268
Tru9I	TTAA	6 cut(s)	374, 540, 765, 803, 1197, 1268
TscAI	CASTG	2 cut(s)	45, 791
TseFI	GTSAC	1 cut(s)	30
TseI	GCWGC	2 cut(s)	121, 977
Tsp45I	GTSAC	1 cut(s)	30
TspDTI	ATGAA	4 cut(s)	563, 747, 1316, 1404
TspRI	CASTG	2 cut(s)	45, 791
Tth111I	GACNNNGTC	1 cut(s)	10
VpaK11BI	GGWCC	2 cut(s)	1336, 1420
VspI	ATTAAT	2 cut(s)	540, 1197
XagI	CCTNNNNNAGG	1 cut(s)	1301
XapI	RAATTY	3 cut(s)	167, 243, 1010
XceI	RCATGY	3 cut(s)	128, 299, 1367
XmiI	GTMKAC	1 cut(s)	1219
XspI	CTAG	2 cut(s)	179, 1392
ZrmI	AGTACT	1 cut(s)	1137
Zsp2I	ATGCAT	1 cut(s)	1204

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