Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000002

Orthogroup ID

OG0002692

Physical Location & Seq

Genomic Coordinates Forward (+)

31810079 .. 31817448

Gene Structure 7370 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug02G0290300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1311 bp

ATGGCAGAACAACAAGTTTCTGCTCCAATTCGTCGTGTCCTTCTCATCTCCGCTGGTGCAAGTCACTCTGTTGCTCTTCTCTCTGGTAATGTCGTTTGCTCTTGGGGACGAGGAGAGGATGGGCAGTTAGGCCATGCTGATGCCGAAGATCGATTTTCACCTACACATTTAAGTGCATTGGATGGCCATCAAATAGTATCTCTTACTTGTGGAGCTGATCATACAACTGCTTACTCTGACTCACGTTTGGAAGTCTATAGTTGGGGCTGGGGTGACTTTGGGAGATTAGGTCATGGCAATTCTAGCGACTTGTTTACACCTCAGCCAATAAAGGCATTACATGGTCTGAAGATAAGGCAGATTGCTTGTGGAGACAGCCATTGTTTAGCAGTGACGATGGAAGGTCAGGTACAAAGTTGGGGGCGGAATCAAAATGGTCAACTTGGTCTTGGCACCACAGAAGATTCTCTTGTGCCACAGAAGATTCAAGCGTTTCAGGGAGAGTTTATCAAAATGGTTGCTGCTGGTGCTGAACATACAGCAGCTGTTACAGAAGATGGGACATTGTATGGATGGGGATGGGGCCGCTATGGTAATTTGGGCTTAGGTGATAGAAATGATCGCTTGGTTCCAGAAAAGGTTTCTCTTGGTAATAGTGAGAAGATGGTTATGGTTGCATGTGGGTGGCGGCATACAATATCGGTTTCCTCGTCAGGTCAATTATACACATATGGGTGGAGCAAATATGGTCAACTTGGACATGGTGATTTTGAGGATCACCTTGTACCTCACAAGCTAGAAGCCTTGAGTGACAAATTTATTTCTGAGGTTGCAGGTGGTTGGAGGCATACTATGGCATTAACATCTGATGGAAAACTTTATGGCTGGGGATGGAATAAGTTTGGACAGGTTGGAGTTGGTGACAATTTGGATCACTGTTCCCCTTTGCAAGTTAAATTTCCCAATGAGCAGAAAGTAGTTAAAATATCTTGTGGATGGAGACACACACTTGCTGTTACTGAAAGGCAAAATGTATTTTCATGGGGGAGAGGCACAAATGGACAGCTTGGGCATGGGGAATCTGTTGACCGGAATATTCCAAAGATTATAGACTCTTTGAGTGCTGATGGATGTAGTGGGCAACAGATAGAATCTTCAACAGTTGATCCATCATCAGGGAAAACTTGGGTGTCACCATCAGAGAGATATGCAGTTGTTCCCGATGAAACTGTTCGAGGGCAAACAGCTGTTCCAGTCAAAGGGAATGATGCAAGTGTTCCTGAAACTGACGTGAAACGCGTACGGCTTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003727 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006081 GO:0006082 GO:0006084 GO:0006090 GO:0006139 GO:0006163 GO:0006629 GO:0006637 GO:0006644 GO:0006720 GO:0006725 GO:0006732 GO:0006753 GO:0006790 GO:0006793 GO:0006796 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0008202 GO:0008299 GO:0008610 GO:0008654 GO:0009058 GO:0009117 GO:0009150 GO:0009240 GO:0009259 GO:0009451 GO:0009987 GO:0016070 GO:0016125 GO:0016787 GO:0016788 GO:0019287 GO:0019288 GO:0019637 GO:0019682 GO:0019693 GO:0019752 GO:0022622 GO:0032501 GO:0032502 GO:0032787 GO:0033865 GO:0033875 GO:0034032 GO:0034046 GO:0034641 GO:0035383 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043436 GO:0043603 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0044281 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0046490 GO:0048364 GO:0048731 GO:0048856 GO:0050790 GO:0051186 GO:0055086 GO:0065007 GO:0065009 GO:0070717 GO:0071704 GO:0072521 GO:0090304 GO:0090305 GO:0090407 GO:0097159 GO:0099402 GO:1901135 GO:1901360 GO:1901363 GO:1901564 GO:1901576 GO:1901615

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase PPR PPR_2

Protein Analysis

436

Amino Acids

47.15

Weight (kDa)

6.09

Isoelectric Point (pI)

32.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WD40_RLD	PF25390	9 - 113	1.1e-23	RCC1-like domain
RCC1	PF00415	32 - 77	5.4e-12	Regulator of chromosome condensation (RCC1) repeat
RCC1	PF00415	84 - 131	4.2e-16	Regulator of chromosome condensation (RCC1) repeat
WD40_RLD	PF25390	107 - 373	1.4e-79	RCC1-like domain
RCC1_2	PF13540	118 - 147	9.2e-10	Regulator of chromosome condensation (RCC1) repeat
RCC1	PF00415	134 - 183	1.3e-16	Regulator of chromosome condensation (RCC1) repeat
RCC1_2	PF13540	173 - 198	8e-09	Regulator of chromosome condensation (RCC1) repeat
RCC1	PF00415	186 - 234	9.2e-16	Regulator of chromosome condensation (RCC1) repeat
RCC1_2	PF13540	225 - 251	1.9e-06	Regulator of chromosome condensation (RCC1) repeat
RCC1	PF00415	238 - 287	1e-14	Regulator of chromosome condensation (RCC1) repeat
Alsin_RLD	PF25384	239 - 324	4.4e-09	Alsin RCC1-like domain
RCC1_2	PF13540	274 - 303	1.5e-11	Regulator of chromosome condensation (RCC1) repeat
RCC1	PF00415	290 - 339	9.2e-17	Regulator of chromosome condensation (RCC1) repeat
RCC1_2	PF13540	326 - 355	2.4e-10	Regulator of chromosome condensation (RCC1) repeat
RCC1	PF00415	345 - 374	7.2e-08	Regulator of chromosome condensation (RCC1) repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0002692)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g27511 FvH4_6g27521 FvH4_6g27522 FvH4_6g27540 FvH4_6g42280
malus_domestica	MD07G1009600.v1.1
prunus_persica	Prupe.3G114200_v2.0.a1 Prupe.3G114200_v2.0.a1 Prupe.3G114200_v2.0.a1 Prupe.3G116800_v2.0.a1 Prupe.3G116900_v2.0.a1 Prupe.3G117200_v2.0.a1 Prupe.3G117200_v2.0.a1 Prupe.3G117300_v2.0.a1 Prupe.3G117400_v2.0.a1
pyrus_communis	pycom17g26580
rosa_chinensis	RchiOBHm_Chr2g0129811 RchiOBHm_Chr2g0129911 RchiOBHm_Chr2g0129941
rosa_laevigata	RLG00000019105 RLG00000019110 RLG00000019114 RLG00000022932
rosa_roxburghii	Rroxscaffold_2G00114190 Rroxscaffold_2G00114240 Rroxscaffold_2G00114280 Rroxscaffold_2G00114290
rosa_rugosa	Rorug02G0290200 Rorug02G0290200 Rorug02G0290200 Rorug02G0290300
rosa_samantha	Rh2AG340800 Rh2AG340900 Rh2BG349500 Rh2BG349900 Rh2CG328100 Rh2CG328600 Rh2CG328800 Rh2DG367500
rosa_wichuraiana	Rw2G027740

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	824
Acc36I	ACCTGC	1 cut(s)	824
AccB1I	GGYRCC	1 cut(s)	452
AccII	CGCG	1 cut(s)	1299
AciI	CCGC	4 cut(s)	51, 424, 586, 688
AclWI	GGATC	3 cut(s)	783, 939, 1160
AcoI	YGGCCR	1 cut(s)	184
AcsI	RAATTY	2 cut(s)	815, 956
AcuI	CTGAAG	1 cut(s)	368
AfaI	GTAC	3 cut(s)	411, 786, 1302
AfiI	CCNNNNNNNGG	2 cut(s)	1175, 1259
AflIII	ACRYGT	1 cut(s)	1297
AgsI	TTSAA	2 cut(s)	488, 1158
AjiI	CACGTC	1 cut(s)	1291
AluBI	AGCT	5 cut(s)	215, 545, 796, 1066, 1247
AluI	AGCT	5 cut(s)	215, 545, 796, 1066, 1247
Alw26I	GTCTC	2 cut(s)	366, 994
AlwI	GGATC	3 cut(s)	783, 939, 1160
AlwNI	CAGNNNCTG	1 cut(s)	545
AoxI	GGCC	3 cut(s)	130, 184, 583
ApeKI	GCWGC	2 cut(s)	521, 542
ApoI	RAATTY	2 cut(s)	815, 956
Asp700I	GAANNNNTTC	1 cut(s)	1230
AspS9I	GGNCC	1 cut(s)	583
AsuHPI	GGTGA	7 cut(s)	150, 284, 620, 770, 776, 932, 1185
BalI	TGGCCA	1 cut(s)	186
BanI	GGYRCC	1 cut(s)	452
BarI	GAAGNNNNNNTAC	2 cut(s)	393, 425
BbvCI	CCTCAGC	1 cut(s)	321
BbvI	GCAGC	2 cut(s)	508, 554
BclI	TGATCA	1 cut(s)	217
BcoDI	GTCTC	2 cut(s)	366, 994
BfaI	CTAG	2 cut(s)	303, 797
BfmI	CTRYAG	1 cut(s)	256
BfuAI	ACCTGC	1 cut(s)	824
BisI	GCNGC	4 cut(s)	522, 543, 586, 689
BlsI	GCNGC	4 cut(s)	523, 544, 587, 690
BmgBI	CACGTC	1 cut(s)	1291
BmgT120I	GGNCC	1 cut(s)	583
BmiI	GGNNCC	3 cut(s)	454, 584, 630
BmsI	GCATC	2 cut(s)	130, 1258
Bpu10I	CCTNAGC	2 cut(s)	321, 604
BpuEI	CTTGAG	1 cut(s)	826
Bsa29I	ATCGAT	1 cut(s)	151
BsaBI	GATNNNNATC	1 cut(s)	186
BsaWI	WCCGGW	1 cut(s)	1089
BsaXI	ACNNNNNCTCC	2 cut(s)	274, 304
Bsc4I	CCNNNNNNNGG	2 cut(s)	1175, 1259
Bse1I	ACTGG	1 cut(s)	1253
Bse8I	GATNNNNATC	1 cut(s)	186
BseCI	ATCGAT	1 cut(s)	151
BseGI	GGATG	7 cut(s)	124, 187, 578, 584, 896, 1001, 1136
BseJI	GATNNNNATC	1 cut(s)	186
BseLI	CCNNNNNNNGG	2 cut(s)	1175, 1259
BseMII	CTCAG	2 cut(s)	335, 816
BseNI	ACTGG	1 cut(s)	1253
BseRI	GAGGAG	1 cut(s)	126
BseXI	GCAGC	2 cut(s)	508, 554
BseYI	CCCAGC	2 cut(s)	267, 885
Bsh1236I	CGCG	1 cut(s)	1299
BshFI	GGCC	3 cut(s)	132, 186, 585
BshNI	GGYRCC	1 cut(s)	452
BshVI	ATCGAT	1 cut(s)	151
BsiSI	CCGG	1 cut(s)	1090
BsiWI	CGTACG	1 cut(s)	1300
BslFI	GGGAC	2 cut(s)	120, 574
BslI	CCNNNNNNNGG	2 cut(s)	1175, 1259
BsmAI	GTCTC	2 cut(s)	366, 994
BsmFI	GGGAC	2 cut(s)	120, 574
BsnI	GGCC	3 cut(s)	132, 186, 585
Bsp143I	GATC	6 cut(s)	148, 217, 619, 775, 931, 1165
BspACI	CCGC	4 cut(s)	51, 424, 586, 688
BspANI	GGCC	3 cut(s)	132, 186, 585
BspCNI	CTCAG	2 cut(s)	334, 817
BspDI	ATCGAT	1 cut(s)	151
BspFNI	CGCG	1 cut(s)	1299
BspLI	GGNNCC	3 cut(s)	454, 584, 630
BspMI	ACCTGC	1 cut(s)	824
BspPI	GGATC	3 cut(s)	783, 939, 1160
BspQI	GCTCTTC	1 cut(s)	81
BspT107I	GGYRCC	1 cut(s)	452
BsrI	ACTGG	1 cut(s)	1253
BssMI	GATC	6 cut(s)	148, 217, 619, 775, 931, 1165
Bst4CI	ACNGT	3 cut(s)	938, 1162, 1231
Bst6I	CTCTTC	1 cut(s)	81
BstDEI	CTNAG	3 cut(s)	321, 604, 825
BstF5I	GGATG	7 cut(s)	124, 187, 578, 584, 896, 1001, 1136
BstFNI	CGCG	1 cut(s)	1299
BstKTI	GATC	6 cut(s)	151, 220, 622, 778, 934, 1168
BstMAI	GTCTC	2 cut(s)	366, 994
BstMBI	GATC	6 cut(s)	148, 217, 619, 775, 931, 1165
BstMWI	GCNNNNNNNGC	2 cut(s)	303, 527
BstNSI	RCATGY	1 cut(s)	681
BstSFI	CTRYAG	1 cut(s)	256
BstUI	CGCG	1 cut(s)	1299
BstV1I	GCAGC	2 cut(s)	508, 554
Bsu15I	ATCGAT	1 cut(s)	151
BsuRI	GGCC	3 cut(s)	132, 186, 585
BsuTUI	ATCGAT	1 cut(s)	151
BtrI	CACGTC	1 cut(s)	1291
BtsCI	GGATG	7 cut(s)	124, 187, 578, 584, 896, 1001, 1136
BtsI	GCAGTG	1 cut(s)	396
BtsIMutI	CAGTG	2 cut(s)	396, 934
BveI	ACCTGC	1 cut(s)	824
CaiI	CAGNNNCTG	1 cut(s)	545
Cfr13I	GGNCC	1 cut(s)	583
ClaI	ATCGAT	1 cut(s)	151
Csp6I	GTAC	3 cut(s)	410, 785, 1301
CviAII	CATG	7 cut(s)	134, 293, 341, 678, 761, 1041, 1073
CviQI	GTAC	3 cut(s)	410, 785, 1301
DdeI	CTNAG	3 cut(s)	321, 604, 825
DpnI	GATC	6 cut(s)	150, 219, 621, 777, 933, 1167
DpnII	GATC	6 cut(s)	148, 217, 619, 775, 931, 1165
EaeI	YGGCCR	1 cut(s)	184
Eam1104I	CTCTTC	1 cut(s)	81
EarI	CTCTTC	1 cut(s)	81
EciI	GGCGGA	1 cut(s)	439
Eco57I	CTGAAG	1 cut(s)	368
FaeI	CATG	7 cut(s)	137, 296, 344, 681, 764, 1044, 1076
FalI	AAGNNNNNCTT	2 cut(s)	453, 485
FaqI	GGGAC	2 cut(s)	120, 574
FatI	CATG	7 cut(s)	133, 292, 340, 677, 760, 1040, 1072
FauNDI	CATATG	1 cut(s)	730
FbaI	TGATCA	1 cut(s)	217
Fnu4HI	GCNGC	4 cut(s)	522, 543, 586, 689
FokI	GGATG	7 cut(s)	131, 194, 585, 591, 903, 1008, 1143
Fsp4HI	GCNGC	4 cut(s)	522, 543, 586, 689
FspBI	CTAG	2 cut(s)	303, 797
GluI	GCNGC	4 cut(s)	522, 543, 586, 689
GsaI	CCCAGC	2 cut(s)	271, 889
HaeIII	GGCC	3 cut(s)	132, 186, 585
HapII	CCGG	1 cut(s)	1090
Hin1II	CATG	7 cut(s)	137, 296, 344, 681, 764, 1044, 1076
HincII	GTYRAC	3 cut(s)	440, 752, 1087
HindII	GTYRAC	3 cut(s)	440, 752, 1087
HinfI	GANTC	7 cut(s)	239, 427, 464, 484, 1079, 1112, 1151
HpaII	CCGG	1 cut(s)	1090
HphI	GGTGA	7 cut(s)	150, 284, 620, 770, 776, 932, 1185
Hpy166II	GTNNAC	4 cut(s)	315, 440, 752, 1087
Hpy188I	TCNGA	5 cut(s)	238, 348, 826, 868, 1201
Hpy188III	TCNNGA	3 cut(s)	632, 1220, 1280
Hpy8I	GTNNAC	4 cut(s)	315, 440, 752, 1087
Hpy99I	CGWCG	1 cut(s)	36
HpyAV	CCTTC	2 cut(s)	50, 395
HpyCH4III	ACNGT	3 cut(s)	938, 1162, 1231
HpyCH4IV	ACGT	2 cut(s)	244, 1290
HpyCH4V	TGCA	7 cut(s)	59, 176, 677, 833, 949, 1211, 1271
HpyF10VI	GCNNNNNNNGC	2 cut(s)	303, 527
HpyF3I	CTNAG	3 cut(s)	321, 604, 825
HpySE526I	ACGT	2 cut(s)	244, 1290
Hsp92II	CATG	7 cut(s)	137, 296, 344, 681, 764, 1044, 1076
Ksp22I	TGATCA	1 cut(s)	217
Kzo9I	GATC	6 cut(s)	148, 217, 619, 775, 931, 1165
LguI	GCTCTTC	1 cut(s)	81
LmnI	GCTCC	3 cut(s)	28, 212, 738
Lsp1109I	GCAGC	2 cut(s)	508, 554
LweI	GCATC	2 cut(s)	130, 1258
MaeI	CTAG	2 cut(s)	303, 797
MaeII	ACGT	2 cut(s)	244, 1290
MaeIII	GTNAC	8 cut(s)	62, 272, 391, 547, 809, 920, 1015, 1191
MalI	GATC	6 cut(s)	150, 219, 621, 777, 933, 1167
MboI	GATC	6 cut(s)	148, 217, 619, 775, 931, 1165
MboII	GAAGA	8 cut(s)	68, 158, 361, 473, 493, 566, 673, 1146
MlsI	TGGCCA	1 cut(s)	186
MluCI	AATT	7 cut(s)	27, 298, 595, 719, 815, 925, 956
MluI	ACGCGT	1 cut(s)	1297
MluNI	TGGCCA	1 cut(s)	186
MlyI	GAGTC	2 cut(s)	233, 1106
MmeI	TCCRAC	2 cut(s)	821, 892
Mox20I	TGGCCA	1 cut(s)	186
MroXI	GAANNNNTTC	1 cut(s)	1230
MscI	TGGCCA	1 cut(s)	186
MseI	TTAA	5 cut(s)	170, 860, 954, 981, 1309
MslI	CAYNNNNRTG	4 cut(s)	138, 171, 682, 733
Msp20I	TGGCCA	1 cut(s)	186
MspA1I	CMGCKG	3 cut(s)	53, 545, 1247
MspI	CCGG	1 cut(s)	1090
MvnI	CGCG	1 cut(s)	1299
MwoI	GCNNNNNNNGC	2 cut(s)	303, 527
NdeI	CATATG	1 cut(s)	730
NdeII	GATC	6 cut(s)	148, 217, 619, 775, 931, 1165
NlaIII	CATG	7 cut(s)	137, 296, 344, 681, 764, 1044, 1076
NlaIV	GGNNCC	3 cut(s)	454, 584, 630
NmuCI	GTSAC	6 cut(s)	62, 272, 391, 809, 920, 1191
NspI	RCATGY	1 cut(s)	681
PaqCI	CACCTGC	1 cut(s)	824
PciSI	GCTCTTC	1 cut(s)	81
PcsI	WCGNNNNNNNCGW	2 cut(s)	707, 1296
PdmI	GAANNNNTTC	1 cut(s)	1230
PfeI	GAWTC	5 cut(s)	427, 464, 484, 1079, 1151
Pfl23II	CGTACG	1 cut(s)	1300
PkrI	GCNGC	4 cut(s)	523, 544, 587, 690
PleI	GAGTC	2 cut(s)	233, 1106
PpsI	GAGTC	2 cut(s)	233, 1106
PspFI	CCCAGC	2 cut(s)	267, 885
PspLI	CGTACG	1 cut(s)	1300
PspN4I	GGNNCC	3 cut(s)	454, 584, 630
PspPI	GGNCC	1 cut(s)	583
PstNI	CAGNNNCTG	1 cut(s)	545
PvuII	CAGCTG	2 cut(s)	545, 1247
RsaI	GTAC	3 cut(s)	411, 786, 1302
RsaNI	GTAC	3 cut(s)	410, 785, 1301
RseI	CAYNNNNRTG	4 cut(s)	138, 171, 682, 733
SapI	GCTCTTC	1 cut(s)	81
SaqAI	TTAA	5 cut(s)	170, 860, 954, 981, 1309
SatI	GCNGC	4 cut(s)	522, 543, 586, 689
Sau3AI	GATC	6 cut(s)	148, 217, 619, 775, 931, 1165
Sau96I	GGNCC	1 cut(s)	583
SchI	GAGTC	2 cut(s)	233, 1106
SfaNI	GCATC	2 cut(s)	130, 1258
SfcI	CTRYAG	1 cut(s)	256
SmiMI	CAYNNNNRTG	4 cut(s)	138, 171, 682, 733
SmlI	CTYRAG	1 cut(s)	805
SmoI	CTYRAG	1 cut(s)	805
Sse9I	AATT	7 cut(s)	27, 298, 595, 719, 815, 925, 956
SsiI	CCGC	4 cut(s)	51, 424, 586, 688
SspI	AATATT	1 cut(s)	1096
SspMI	CTAG	2 cut(s)	303, 797
TaaI	ACNGT	3 cut(s)	938, 1162, 1231
TaiI	ACGT	2 cut(s)	247, 1293
TaqI	TCGA	2 cut(s)	151, 1234
TasI	AATT	7 cut(s)	27, 298, 595, 719, 815, 925, 956
TauI	GCSGC	2 cut(s)	588, 691
TfiI	GAWTC	5 cut(s)	427, 464, 484, 1079, 1151
Tru1I	TTAA	5 cut(s)	170, 860, 954, 981, 1309
Tru9I	TTAA	5 cut(s)	170, 860, 954, 981, 1309
TscAI	CASTG	2 cut(s)	396, 941
TseFI	GTSAC	6 cut(s)	62, 272, 391, 809, 920, 1191
TseI	GCWGC	2 cut(s)	521, 542
Tsp45I	GTSAC	6 cut(s)	62, 272, 391, 809, 920, 1191
TspDTI	ATGAA	2 cut(s)	1029, 1239
TspRI	CASTG	2 cut(s)	396, 941
XapI	RAATTY	2 cut(s)	815, 956
XceI	RCATGY	1 cut(s)	681
XmnI	GAANNNNTTC	1 cut(s)	1230
XspI	CTAG	2 cut(s)	303, 797

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