Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0003353

Physical Location & Seq

Genomic Coordinates Reverse (-)

5886463 .. 5887377

Gene Structure 915 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00284250.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 750 bp

ATGTCCTCTCTCTTCTTCGGTTCTTCCCAATCTTCACCAACTCTCTCTCTCTCTCTCGTCGAGCCTCCTCCACCACCGTCGTCGCCCGCCTCTCGAAGTTCGAGCATTACGATCGGCTCCGGCTACTCTCTCTCTGCCGTCACGCCTTCCATGTATCGTGCATCGACACGTGGCTCCACTCCCGGCGGACCGCCCGCTCCGCCGGTCGCCGATTTCCACATCCGACTCCGAGCTCATGACTCTCGTCGAAAATGCAGCTCCTCCGCCCGCGGCGGCGGCGATAACTTCGACACGAGATTGGCAACGTCGGCCCGCCGCCAAACAACTACGACGTCCACCTCCGGCGCGCGCCGCTCCTACTCCATCGGATCGTTCGACTCTCTCTCGCTTCGGTGGCGGGAACCGATTTGTTCAAATGCGTTGATAAATGGGTATTTGAAGGCGGGAAGAATCGAAGAGGCGGTTAGAGTTTTCGAGGGAATGGCGAGGACCGTGGTTACTTGGACGGCAATGATTGATGGGTACATGAAGAAGGGAATGTTCGAAAGGGGTTTTGAATTGTTTTTGGATATGAGAAGGGAGGGTATAGTGGAGGTCAATTCCACTACCATGAGCATAATGTTTGATGCTTGTGGTGGTTTTGGTAGATGTGGAGAAGGGATTCGTATGCACGGGTTTGGTTTTGTAGATGAAGCTACTAAGATAATACGTATGATGAGCAAGACAAATATAGTTTCCGGAATTCCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000959 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1900864 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2

Protein Analysis

249

Amino Acids

26.87

Weight (kDa)

9.95

Isoelectric Point (pI)

63.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR	PF01535	139 - 161	8.7e-06	PPR repeat
PPR_2	PF13041	164 - 211	1.7e-13	PPR repeat family
PPR	PF01535	166 - 196	1.4e-09	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0003353)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G04780
fragaria_vesca	FvH4_7g02270
malus_domestica	MD05G1362900.v1.1 MD05G1363000.v1.1 MD10G1340500.v1.1
prunus_persica	Prupe.2G071000_v2.0.a1 Prupe.2G073400_v2.0.a1
pyrus_communis	pycom05g32940 pycom10g29030
rosa_chinensis	RchiOBHm_Chr1g0319571 RchiOBHm_Chr6g0267541 RchiOBHm_Chr7g0197341
rosa_laevigata	RLG00000030470
rosa_multiflora	Rmu_sc0001522.1_g000010 Rmu_sc0002539.1_g000062 Rmu_sc0031493.1_g000001
rosa_roxburghii	Rroxscaffold_4G00284250 Rroxscaffold_4G00328280 Rroxscaffold_7G00200640
rosa_rugosa	Rorug01G0028300 Rorug01G0028400 Rorug01G0028500 Rorug01G0028600 Rorug06G0033600 Rorug06G0033600
rosa_samantha	Rh1AG040400 Rh1BG037600 Rh1CG041600 Rh1DG028300 Rh6AG155100 Rh6BG155700 Rh6CG150900 Rh6DG141000
rosa_wichuraiana	Rw0G012790 Rw1G003340 Rw6G013310

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	335
AccBSI	CCGCTC	2 cut(s)	197, 354
AccII	CGCG	3 cut(s)	270, 347, 349
AccIII	TCCGGA	1 cut(s)	737
AclWI	GGATC	1 cut(s)	376
AcsI	RAATTY	1 cut(s)	741
AcvI	CACGTG	1 cut(s)	170
AcyI	GRCGYC	1 cut(s)	332
AfaI	GTAC	1 cut(s)	524
AflIII	ACRYGT	1 cut(s)	167
AgsI	TTSAA	3 cut(s)	414, 439, 557
AluBI	AGCT	3 cut(s)	233, 258, 695
AluI	AGCT	3 cut(s)	233, 258, 695
Alw21I	GWGCWC	1 cut(s)	235
AlwI	GGATC	1 cut(s)	376
Aor13HI	TCCGGA	1 cut(s)	737
AoxI	GGCC	1 cut(s)	309
ApeKI	GCWGC	1 cut(s)	255
ApoI	RAATTY	1 cut(s)	741
Asp700I	GAANNNNTTC	1 cut(s)	660
AspLEI	GCGC	3 cut(s)	347, 349, 351
AspS9I	GGNCC	3 cut(s)	188, 310, 489
AsuC2I	CCSGG	1 cut(s)	183
AsuHPI	GGTGA	1 cut(s)	27
AsuII	TTCGAA	1 cut(s)	543
AvaII	GGWCC	2 cut(s)	188, 489
BanII	GRGCYC	1 cut(s)	235
BauI	CACGAG	1 cut(s)	292
BbrPI	CACGTG	1 cut(s)	170
Bbv12I	GWGCWC	1 cut(s)	235
BbvI	GCAGC	1 cut(s)	267
BccI	CCATC	2 cut(s)	371, 512
BceAI	ACGGC	2 cut(s)	122, 522
BcgI	CGANNNNNNTGC	2 cut(s)	94, 128
BcnI	CCSGG	1 cut(s)	183
BisI	GCNGC	6 cut(s)	256, 271, 274, 277, 316, 352
BlsI	GCNGC	6 cut(s)	257, 272, 275, 278, 317, 353
Bme1390I	CCNGG	1 cut(s)	183
Bme18I	GGWCC	2 cut(s)	188, 489
BmgT120I	GGNCC	3 cut(s)	188, 310, 489
BmiI	GGNNCC	3 cut(s)	118, 175, 402
BmrFI	CCNGG	1 cut(s)	183
BmsI	GCATC	2 cut(s)	170, 616
BoxI	GACNNNNGTC	1 cut(s)	243
Bpu14I	TTCGAA	1 cut(s)	543
BpuMI	CCSGG	1 cut(s)	183
BsaAI	YACGTR	2 cut(s)	170, 710
BsaHI	GRCGYC	1 cut(s)	332
BsaJI	CCNNGG	2 cut(s)	268, 492
BsaWI	WCCGGW	1 cut(s)	737
Bse118I	RCCGGY	1 cut(s)	202
Bse3DI	GCAATG	1 cut(s)	516
BseAI	TCCGGA	1 cut(s)	737
BseDI	CCNNGG	2 cut(s)	268, 492
BseGI	GGATG	1 cut(s)	219
BseMI	GCAATG	1 cut(s)	516
BsePI	GCGCGC	2 cut(s)	345, 347
BseRI	GAGGAG	2 cut(s)	57, 250
BseXI	GCAGC	1 cut(s)	267
Bsh1236I	CGCG	3 cut(s)	270, 347, 349
Bsh1285I	CGRYCG	2 cut(s)	114, 207
BshFI	GGCC	1 cut(s)	311
BsiEI	CGRYCG	2 cut(s)	114, 207
BsiHKAI	GWGCWC	1 cut(s)	235
BsiSI	CCGG	5 cut(s)	120, 183, 203, 342, 738
BsnI	GGCC	1 cut(s)	311
Bsp119I	TTCGAA	1 cut(s)	543
Bsp1286I	GDGCHC	1 cut(s)	235
Bsp13I	TCCGGA	1 cut(s)	737
Bsp143I	GATC	2 cut(s)	111, 368
BspANI	GGCC	1 cut(s)	311
BspEI	TCCGGA	1 cut(s)	737
BspFNI	CGCG	3 cut(s)	270, 347, 349
BspHI	TCATGA	1 cut(s)	235
BspLI	GGNNCC	3 cut(s)	118, 175, 402
BspPI	GGATC	1 cut(s)	376
BspT104I	TTCGAA	1 cut(s)	543
BsrBI	CCGCTC	2 cut(s)	197, 354
BsrDI	GCAATG	1 cut(s)	516
BsrFI	RCCGGY	1 cut(s)	202
BssAI	RCCGGY	1 cut(s)	202
BssECI	CCNNGG	2 cut(s)	268, 492
BssHII	GCGCGC	2 cut(s)	345, 347
BssMI	GATC	2 cut(s)	111, 368
BssNI	GRCGYC	1 cut(s)	332
BssSI	CACGAG	1 cut(s)	292
Bst2BI	CACGAG	1 cut(s)	292
Bst4CI	ACNGT	2 cut(s)	78, 493
Bst6I	CTCTTC	2 cut(s)	17, 450
BstACI	GRCGYC	1 cut(s)	332
BstBAI	YACGTR	2 cut(s)	170, 710
BstBI	TTCGAA	1 cut(s)	543
BstC8I	GCNNGC	6 cut(s)	87, 195, 268, 313, 347, 349
BstDEI	CTNAG	1 cut(s)	699
BstDSI	CCRYGG	2 cut(s)	268, 492
BstF5I	GGATG	1 cut(s)	219
BstFNI	CGCG	3 cut(s)	270, 347, 349
BstHHI	GCGC	3 cut(s)	347, 349, 351
BstKTI	GATC	2 cut(s)	114, 371
BstMBI	GATC	2 cut(s)	111, 368
BstMCI	CGRYCG	2 cut(s)	114, 207
BstMWI	GCNNNNNNNGC	5 cut(s)	199, 276, 308, 351, 394
BstPAI	GACNNNNGTC	1 cut(s)	243
BstSCI	CCNGG	1 cut(s)	181
BstSNI	TACGTA	1 cut(s)	710
BstUI	CGCG	3 cut(s)	270, 347, 349
BstV1I	GCAGC	1 cut(s)	267
BsuRI	GGCC	1 cut(s)	311
BtgI	CCRYGG	2 cut(s)	268, 492
BtsCI	GGATG	1 cut(s)	219
Cac8I	GCNNGC	6 cut(s)	87, 195, 268, 313, 347, 349
CciI	TCATGA	1 cut(s)	235
CfoI	GCGC	3 cut(s)	347, 349, 351
Cfr10I	RCCGGY	1 cut(s)	202
Cfr13I	GGNCC	3 cut(s)	188, 310, 489
Cfr42I	CCGCGG	1 cut(s)	271
CpoI	CGGWCCG	1 cut(s)	188
Csp6I	GTAC	1 cut(s)	523
CspI	CGGWCCG	1 cut(s)	188
CviAII	CATG	4 cut(s)	151, 236, 526, 610
CviJI	RGCY	8 cut(s)	64, 117, 123, 174, 233, 258, 311, 695
CviKI_1	RGCY	8 cut(s)	64, 117, 123, 174, 233, 258, 311, 695
CviQI	GTAC	1 cut(s)	523
DdeI	CTNAG	1 cut(s)	699
DpnI	GATC	2 cut(s)	113, 370
DpnII	GATC	2 cut(s)	111, 368
Eam1104I	CTCTTC	2 cut(s)	17, 450
EarI	CTCTTC	2 cut(s)	17, 450
EciI	GGCGGA	3 cut(s)	189, 201, 253
Ecl136II	GAGCTC	1 cut(s)	233
Eco105I	TACGTA	1 cut(s)	710
Eco24I	GRGCYC	1 cut(s)	235
Eco47I	GGWCC	2 cut(s)	188, 489
Eco53kI	GAGCTC	1 cut(s)	233
Eco72I	CACGTG	1 cut(s)	170
EcoICRI	GAGCTC	1 cut(s)	233
EcoRI	GAATTC	1 cut(s)	741
EcoT38I	GRGCYC	1 cut(s)	235
FaeI	CATG	4 cut(s)	154, 239, 529, 613
FatI	CATG	4 cut(s)	150, 235, 525, 609
FauI	CCCGC	6 cut(s)	94, 202, 275, 320, 390, 436
Fnu4HI	GCNGC	6 cut(s)	256, 271, 274, 277, 316, 352
FokI	GGATG	1 cut(s)	206
FriOI	GRGCYC	1 cut(s)	235
Fsp4HI	GCNGC	6 cut(s)	256, 271, 274, 277, 316, 352
GlaI	GCGC	3 cut(s)	346, 348, 350
GluI	GCNGC	6 cut(s)	256, 271, 274, 277, 316, 352
HaeIII	GGCC	1 cut(s)	311
HapII	CCGG	5 cut(s)	120, 183, 203, 342, 738
HhaI	GCGC	3 cut(s)	347, 349, 351
Hin1I	GRCGYC	1 cut(s)	332
Hin1II	CATG	4 cut(s)	154, 239, 529, 613
Hin6I	GCGC	3 cut(s)	345, 347, 349
HinP1I	GCGC	3 cut(s)	345, 347, 349
HinfI	GANTC	5 cut(s)	225, 239, 377, 450, 661
HpaII	CCGG	5 cut(s)	120, 183, 203, 342, 738
HphI	GGTGA	1 cut(s)	27
Hpy166II	GTNNAC	1 cut(s)	336
Hpy188I	TCNGA	3 cut(s)	224, 230, 368
Hpy188III	TCNNGA	3 cut(s)	93, 236, 738
Hpy8I	GTNNAC	1 cut(s)	336
Hpy99I	CGWCG	6 cut(s)	62, 82, 85, 249, 310, 334
HpyAV	CCTTC	5 cut(s)	156, 433, 526, 570, 650
HpyCH4III	ACNGT	2 cut(s)	78, 493
HpyCH4IV	ACGT	4 cut(s)	169, 305, 332, 709
HpyCH4V	TGCA	3 cut(s)	161, 255, 670
HpyF10VI	GCNNNNNNNGC	5 cut(s)	199, 276, 308, 351, 394
HpyF3I	CTNAG	1 cut(s)	699
HpySE526I	ACGT	4 cut(s)	169, 305, 332, 709
Hsp92I	GRCGYC	1 cut(s)	332
Hsp92II	CATG	4 cut(s)	154, 239, 529, 613
HspAI	GCGC	3 cut(s)	345, 347, 349
Kpn2I	TCCGGA	1 cut(s)	737
KspI	CCGCGG	1 cut(s)	271
Kzo9I	GATC	2 cut(s)	111, 368
LmnI	GCTCC	5 cut(s)	122, 179, 202, 263, 359
LpnPI	CCDG	4 cut(s)	133, 196, 216, 355
Lsp1109I	GCAGC	1 cut(s)	267
LweI	GCATC	2 cut(s)	170, 616
MaeII	ACGT	4 cut(s)	169, 305, 332, 709
MaeIII	GTNAC	2 cut(s)	139, 496
MalI	GATC	2 cut(s)	113, 370
MbiI	CCGCTC	2 cut(s)	197, 354
MboI	GATC	2 cut(s)	111, 368
MboII	GAAGA	7 cut(s)	4, 7, 15, 24, 459, 467, 541
MhlI	GDGCHC	1 cut(s)	235
MluCI	AATT	3 cut(s)	557, 598, 741
MlyI	GAGTC	3 cut(s)	219, 233, 371
MmeI	TCCRAC	1 cut(s)	247
MroI	TCCGGA	1 cut(s)	737
MroXI	GAANNNNTTC	1 cut(s)	660
MseI	TTAA	1 cut(s)	748
MslI	CAYNNNNRTG	1 cut(s)	608
MspA1I	CMGCKG	1 cut(s)	270
MspI	CCGG	5 cut(s)	120, 183, 203, 342, 738
MspR9I	CCNGG	1 cut(s)	183
MvnI	CGCG	3 cut(s)	270, 347, 349
MwoI	GCNNNNNNNGC	5 cut(s)	199, 276, 308, 351, 394
NciI	CCSGG	1 cut(s)	183
NdeII	GATC	2 cut(s)	111, 368
NlaIII	CATG	4 cut(s)	154, 239, 529, 613
NlaIV	GGNNCC	3 cut(s)	118, 175, 402
NmuCI	GTSAC	1 cut(s)	139
NspV	TTCGAA	1 cut(s)	543
PagI	TCATGA	1 cut(s)	235
PauI	GCGCGC	2 cut(s)	345, 347
PcsI	WCGNNNNNNNCGW	2 cut(s)	107, 372
PdmI	GAANNNNTTC	1 cut(s)	660
PfeI	GAWTC	2 cut(s)	450, 661
PkrI	GCNGC	6 cut(s)	257, 272, 275, 278, 317, 353
Ple19I	CGATCG	1 cut(s)	114
PleI	GAGTC	3 cut(s)	219, 233, 371
PmaCI	CACGTG	1 cut(s)	170
PmlI	CACGTG	1 cut(s)	170
PpsI	GAGTC	3 cut(s)	219, 233, 371
Ppu21I	YACGTR	2 cut(s)	170, 710
PshAI	GACNNNNGTC	1 cut(s)	243
Psp124BI	GAGCTC	1 cut(s)	235
PspCI	CACGTG	1 cut(s)	170
PspN4I	GGNNCC	3 cut(s)	118, 175, 402
PspPI	GGNCC	3 cut(s)	188, 310, 489
PteI	GCGCGC	2 cut(s)	345, 347
PvuI	CGATCG	1 cut(s)	114
RsaI	GTAC	1 cut(s)	524
RsaNI	GTAC	1 cut(s)	523
RseI	CAYNNNNRTG	1 cut(s)	608
Rsr2I	CGGWCCG	1 cut(s)	188
RsrII	CGGWCCG	1 cut(s)	188
SacI	GAGCTC	1 cut(s)	235
SacII	CCGCGG	1 cut(s)	271
SaqAI	TTAA	1 cut(s)	748
SatI	GCNGC	6 cut(s)	256, 271, 274, 277, 316, 352
Sau3AI	GATC	2 cut(s)	111, 368
Sau96I	GGNCC	3 cut(s)	188, 310, 489
SchI	GAGTC	3 cut(s)	219, 233, 371
ScrFI	CCNGG	1 cut(s)	183
SduI	GDGCHC	1 cut(s)	235
SetI	ASST	9 cut(s)	172, 235, 260, 308, 335, 341, 597, 697, 712
SfaNI	GCATC	2 cut(s)	170, 616
Sfr303I	CCGCGG	1 cut(s)	271
SfuI	TTCGAA	1 cut(s)	543
SgrBI	CCGCGG	1 cut(s)	271
SinI	GGWCC	2 cut(s)	188, 489
SmiMI	CAYNNNNRTG	1 cut(s)	608
SnaBI	TACGTA	1 cut(s)	710
Sse9I	AATT	3 cut(s)	557, 598, 741
SstI	GAGCTC	1 cut(s)	235
StyD4I	CCNGG	1 cut(s)	181
TaaI	ACNGT	2 cut(s)	78, 493
TaiI	ACGT	4 cut(s)	172, 308, 335, 712
TasI	AATT	3 cut(s)	557, 598, 741
TauI	GCSGC	5 cut(s)	273, 276, 279, 318, 354
TfiI	GAWTC	2 cut(s)	450, 661
Tru1I	TTAA	1 cut(s)	748
Tru9I	TTAA	1 cut(s)	748
TseFI	GTSAC	1 cut(s)	139
TseI	GCWGC	1 cut(s)	255
Tsp45I	GTSAC	1 cut(s)	139
TspDTI	ATGAA	2 cut(s)	542, 705
VpaK11BI	GGWCC	2 cut(s)	188, 489
XapI	RAATTY	1 cut(s)	741
XmnI	GAANNNNTTC	1 cut(s)	660
ZraI	GACGTC	1 cut(s)	333

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