Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0006215

Physical Location & Seq

Genomic Coordinates Reverse (-)

68125544 .. 68128125

Gene Structure 2582 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0499900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1782 bp

ATGATGCCCAGAGCGACTTGTTATTATTCTGATTGCAGCAGCACAAGAGGTATGCTGTTGCTTCACTCTACTTGTCTTGTTGCTTTGCTTCATTTTCAATCCTCAAACCCAGCCAAATCTAGACAAACCCAGCTAGGAAATCGGCCCTCAAAGCCCAGAGTGAGTAATGTTGAGCATGCCTTGAAGGTGTTCGATGAAATGCTTCACTCGCGCCCTCTGCCTTCTGTTGTCCGCTTCAATCAACTCTTGGGCCAACTTGCCAGACTGAAACAATATTCGGCAGTCATCTCTTTGAATAGAAAAATGAGTCTGCTAGGAATCGCTTCTGATGTTTATACCCTGAGCATTATCATCAATTGCTACTGTCATTTGAACCAAATGGGTTTTAGTTTGTCTGTCTTGGGCCAATTCTTCAAATTGGGTCTTCAACCAAATGTCACCACCTTCAACACTCTGATCAACGGCTTTGTTCTCCAAAATAGAGAGGCTGAGGCAGCAAGACTTTTCAGCAAAATGGTAGGGGGAGGTCATTCTCAGCCCAATGGGGTTACTTTCAACATACTAATAAAGGGCTTTTGCGTGATGGGAAACAACACTGTGGCTATTCAGTTACTTGGGAAGATGGAAGAAAGAGGATGCCAGCCTGACATAGTTGCCTATAGCACCATAATCGACAGTCTTTGTAAGGATACACTAGTTGATGAAGCCTTGAAGGTCTTCTCAGAAATGATTAGCAGAGGTATTGCTCCAGTCGTTGTTACTTACAACTCTTTGATTGACGGAGTCTGCAAACTAGGCAAGTGGAAAGAAGCTAAAAGGTTGTTGAATGAAATGGTGAGTCAAAATATCTTTCCAGATGTCTTCACCTTCAGTGTCTTGGTTGATGCACTTTGTAAGGAGGGGATGGTCGTGGAAGCCAAAACTGTGGTTGACATGATGATTCAAAGAGGAATTGAACCTAATGTGGTTACATACAATTCCCTTATGGATGGTTACTGTCTGCGAGGAGAAATGGACAAGGCGAGACAAGTTTTTGATCTAATAGTTAGCAAGGGCTACATGGTTAATGTTCAAAGTTGTAGCATATTGATTAACGGATATTGTAAGCGTAAAAAGATGCATGAGGCAAAAAAAGTTTTCGACGAAATGCATCTTAGGGGACTTGTTCCAGATACCGTTACTTATAACACTCTTATCGATGGTTTTTACAAAGCAGGGAGAATACAAGAGGCAGAAAAGTTGTTCTCTGAGATGCAAGGTTGTGGCCCACTTCCAGATCTTCAAACTTATAATATTATACTTGATGGCCTATGTAGCAATCAACAACTTCCTAAGGCAATAGAATTGCTTAGAGAGATTAAAGACAAGAAGTTGGAACTAAATATTGTGGTTTACAATATTATCATTGAAGGTTTGTGCAAAGCTGGGAAAATTGAATCTGCAATAGAGATCTTCTCTGGTTTGTCATCAAAAGGAGTTCAGCCTGTTGTGAGGACATACAATATAATGATTAAGGGACTTTGTAATGGTGGCCTCTTAGTTGAAGCAGAAAAGTTGTTTAGAGAAATGGGAGAGAAAGGCTGTTCTGCTGATGGGGGGATCTATAACACAATTATCCGGGGGTTTATCAATAATAATGAGGCATCAAGGGCTATGGGACTTATTCAAGAAATGGTTGAGAGGGGTTTCTCTGCAGACGCATCAACTGTGGAATTGATAGTTAATTTATTGTCTGAGGATAGAGTAGATCCCGCTTTGTTGCCATTGTTGAAAAGTTCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005618 GO:0005622 GO:0005623 GO:0005737 GO:0005794 GO:0005886 GO:0005911 GO:0009505 GO:0009506 GO:0012505 GO:0016020 GO:0030054 GO:0030312 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0055044 GO:0071944

KEGG Pathways

Metabolic & Signaling

ko00500 ko01100 map00500 map01100

Pfam Domains

Protein Families

Glyco_hydro_9

Protein Analysis

593

Amino Acids

65.72

Weight (kDa)

8.41

Isoelectric Point (pI)

35.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	74 - 123	2.6e-06	PPR repeat family
PPR_1	PF12854	141 - 173	2.3e-07	PPR repeat
PPR_2	PF13041	144 - 193	6.2e-12	PPR repeat family
PPR_3	PF13812	179 - 225	4.4e-09	Pentatricopeptide repeat domain
PPR_1	PF12854	179 - 209	1.6e-07	PPR repeat
PPR_2	PF13041	180 - 229	2.3e-14	PPR repeat family
PPR_1	PF12854	211 - 243	9.7e-13	PPR repeat
PPR_2	PF13041	215 - 261	3.2e-14	PPR repeat family
PPR	PF01535	218 - 248	2.7e-07	PPR repeat
PPR_long	PF17177	230 - 330	3.9e-07	Pentacotripeptide-repeat region of PRORP
PPR_1	PF12854	246 - 279	5.3e-12	PPR repeat
PPR_2	PF13041	250 - 299	1.2e-18	PPR repeat family
PPR	PF01535	253 - 283	7e-09	PPR repeat
PPR_3	PF13812	273 - 331	3.2e-10	Pentatricopeptide repeat domain
PPR_1	PF12854	282 - 313	4e-09	PPR repeat
PPR_2	PF13041	293 - 333	5.2e-11	PPR repeat family
PPR_1	PF12854	316 - 346	4.1e-12	PPR repeat
PPR_2	PF13041	320 - 369	9.6e-15	PPR repeat family
PPR	PF01535	323 - 352	1.4e-07	PPR repeat
PPR_3	PF13812	344 - 399	4.7e-07	Pentatricopeptide repeat domain
PPR_1	PF12854	352 - 383	1.9e-07	PPR repeat
PPR_2	PF13041	356 - 404	2.4e-16	PPR repeat family
PPR	PF01535	359 - 388	1.9e-07	PPR repeat
TPR_24	PF23276	376 - 486	1.9e-10	Fungal tetratrico peptide repeats
PPR_3	PF13812	378 - 435	1.8e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	386 - 419	1.3e-13	PPR repeat
PPR_2	PF13041	390 - 438	2.4e-18	PPR repeat family
PPR	PF01535	393 - 422	1.5e-09	PPR repeat
PPR_1	PF12854	422 - 453	1e-06	PPR repeat
PPR_2	PF13041	425 - 462	1.5e-06	PPR repeat family
PPR_3	PF13812	449 - 505	1.9e-09	Pentatricopeptide repeat domain
PPR_1	PF12854	458 - 485	7.1e-09	PPR repeat
PPR_2	PF13041	461 - 509	4.5e-16	PPR repeat family
PPR_1	PF12854	491 - 523	1e-11	PPR repeat
PPR_2	PF13041	497 - 531	5.7e-08	PPR repeat family
PPR	PF01535	499 - 528	4.2e-09	PPR repeat
PPR_2	PF13041	534 - 575	2e-06	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

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Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0006215)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G22880 AT1G22880 AT1G71380
fragaria_vesca	FvH4_2g00590 FvH4_2g00590 FvH4_2g00600 FvH4_2g00610
malus_domestica	MD05G1002700.v1.1 MD10G1003400.v1.1
prunus_persica	Prupe.8G005900_v2.0.a1
pyrus_communis	pycom10g00290
rosa_chinensis	RchiOBHm_Chr6g0251051 RchiOBHm_Chr6g0251081
rosa_laevigata	RLG00000015486 RLG00000015487
rosa_multiflora	Rmu_sc0002219.1_g000005
rosa_roxburghii	Rroxscaffold_7G00217070 Rroxscaffold_7G00217080
rosa_rugosa	Rorug05G0499800 Rorug05G0499900
rosa_samantha	Rh6AG008000 Rh6AG008100 Rh6BG003000 Rh6BG003100 Rh6DG005800
rosa_wichuraiana	Rw6G000890 Rw6G000900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	1185, 1290
AccII	CGCG	1 cut(s)	211
AciI	CCGC	2 cut(s)	232, 1752
AclWI	GGATC	2 cut(s)	1607, 1742
AcuI	CTGAAG	1 cut(s)	853
AhlI	ACTAGT	1 cut(s)	694
AluBI	AGCT	3 cut(s)	133, 812, 1424
AluI	AGCT	3 cut(s)	133, 812, 1424
Alw26I	GTCTC	1 cut(s)	1018
AlwI	GGATC	2 cut(s)	1607, 1742
AoxI	GGCC	6 cut(s)	143, 250, 403, 1264, 1306, 1531
ApeKI	GCWGC	3 cut(s)	36, 39, 494
Asp700I	GAANNNNTTC	4 cut(s)	188, 201, 322, 716
AspLEI	GCGC	1 cut(s)	213
AspS9I	GGNCC	4 cut(s)	144, 250, 403, 1265
AsuC2I	CCSGG	1 cut(s)	1619
AsuHPI	GGTGA	3 cut(s)	430, 847, 856
AxyI	CCTNAGG	1 cut(s)	1332
BaeI	ACNNNNGTAYC	2 cut(s)	681, 714
BbsI	GAAGAC	3 cut(s)	416, 709, 853
BbvCI	CCTCAGC	1 cut(s)	489
BbvI	GCAGC	3 cut(s)	48, 51, 506
BccI	CCATC	7 cut(s)	577, 616, 898, 983, 1193, 1298, 1586
BceAI	ACGGC	1 cut(s)	478
BcgI	CGANNNNNNTGC	2 cut(s)	652, 686
BciVI	GTATCC	1 cut(s)	682
BclI	TGATCA	1 cut(s)	456
BcnI	CCSGG	1 cut(s)	1619
BcoDI	GTCTC	1 cut(s)	1018
BcuI	ACTAGT	1 cut(s)	694
BfaI	CTAG	5 cut(s)	120, 134, 314, 695, 794
BfmI	CTRYAG	2 cut(s)	658, 1692
BfuI	GTATCC	1 cut(s)	682
BglII	AGATCT	2 cut(s)	1276, 1449
BisI	GCNGC	3 cut(s)	37, 40, 495
BlsI	GCNGC	3 cut(s)	38, 41, 496
Bme1390I	CCNGG	1 cut(s)	1619
BmgT120I	GGNCC	4 cut(s)	144, 250, 403, 1265
BmrFI	CCNGG	1 cut(s)	1619
BmsI	GCATC	7 cut(s)	626, 874, 1107, 1159, 1242, 1652, 1709
BpiI	GAAGAC	3 cut(s)	416, 709, 853
BplI	GAGNNNNNCTC	2 cut(s)	1439, 1471
BpmI	CTGGAG	1 cut(s)	732
Bpu10I	CCTNAGC	2 cut(s)	341, 489
BpuMI	CCSGG	1 cut(s)	1619
Bsa29I	ATCGAT	1 cut(s)	1197
BsaJI	CCNNGG	1 cut(s)	1618
Bse1I	ACTGG	1 cut(s)	749
Bse21I	CCTNAGG	1 cut(s)	1332
BseCI	ATCGAT	1 cut(s)	1197
BseDI	CCNNGG	1 cut(s)	1618
BseGI	GGATG	3 cut(s)	641, 909, 994
BseMII	CTCAG	6 cut(s)	332, 480, 548, 735, 1239, 1725
BseNI	ACTGG	1 cut(s)	749
BseRI	GAGGAG	1 cut(s)	1020
BseXI	GCAGC	3 cut(s)	48, 51, 506
BseYI	CCCAGC	3 cut(s)	109, 129, 1424
Bsh1236I	CGCG	1 cut(s)	211
BshFI	GGCC	6 cut(s)	145, 252, 405, 1266, 1308, 1533
BshVI	ATCGAT	1 cut(s)	1197
BsiSI	CCGG	1 cut(s)	1618
BslFI	GGGAC	3 cut(s)	1173, 1530, 1671
BsmAI	GTCTC	1 cut(s)	1018
BsmFI	GGGAC	3 cut(s)	1173, 1530, 1671
BsnI	GGCC	6 cut(s)	145, 252, 405, 1266, 1308, 1533
Bsp143I	GATC	6 cut(s)	456, 1036, 1276, 1449, 1599, 1747
BspACI	CCGC	2 cut(s)	232, 1752
BspANI	GGCC	6 cut(s)	145, 252, 405, 1266, 1308, 1533
BspCNI	CTCAG	6 cut(s)	333, 481, 547, 734, 1240, 1726
BspDI	ATCGAT	1 cut(s)	1197
BspFNI	CGCG	1 cut(s)	211
BspHI	TCATGA	1 cut(s)	1778
BspMAI	CTGCAG	1 cut(s)	1696
BspPI	GGATC	2 cut(s)	1607, 1742
BsrI	ACTGG	1 cut(s)	749
BssECI	CCNNGG	1 cut(s)	1618
BssMI	GATC	6 cut(s)	456, 1036, 1276, 1449, 1599, 1747
Bst4CI	ACNGT	7 cut(s)	365, 598, 677, 925, 998, 1177, 1708
BstC8I	GCNNGC	2 cut(s)	177, 641
BstF5I	GGATG	3 cut(s)	641, 909, 994
BstFNI	CGCG	1 cut(s)	211
BstHHI	GCGC	1 cut(s)	213
BstKTI	GATC	6 cut(s)	459, 1039, 1279, 1452, 1602, 1750
BstMAI	GTCTC	1 cut(s)	1018
BstMBI	GATC	6 cut(s)	456, 1036, 1276, 1449, 1599, 1747
BstMWI	GCNNNNNNNGC	7 cut(s)	151, 208, 217, 494, 795, 1314, 1649
BstNSI	RCATGY	1 cut(s)	179
BstSCI	CCNGG	1 cut(s)	1617
BstSFI	CTRYAG	2 cut(s)	658, 1692
BstUI	CGCG	1 cut(s)	211
BstV1I	GCAGC	3 cut(s)	48, 51, 506
BstV2I	GAAGAC	3 cut(s)	416, 709, 853
BstX2I	RGATCY	4 cut(s)	1276, 1449, 1599, 1747
BstXI	CCANNNNNNTGG	1 cut(s)	925
BstYI	RGATCY	4 cut(s)	1276, 1449, 1599, 1747
Bsu15I	ATCGAT	1 cut(s)	1197
Bsu36I	CCTNAGG	1 cut(s)	1332
BsuI	GTATCC	1 cut(s)	682
BsuRI	GGCC	6 cut(s)	145, 252, 405, 1266, 1308, 1533
BsuTUI	ATCGAT	1 cut(s)	1197
BtsCI	GGATG	3 cut(s)	641, 909, 994
BtsIMutI	CAGTG	2 cut(s)	594, 877
Cac8I	GCNNGC	2 cut(s)	177, 641
CciI	TCATGA	1 cut(s)	1778
CfoI	GCGC	1 cut(s)	213
Cfr13I	GGNCC	4 cut(s)	144, 250, 403, 1265
ClaI	ATCGAT	1 cut(s)	1197
CseI	GACGC	1 cut(s)	1706
CviAII	CATG	5 cut(s)	176, 934, 1060, 1121, 1779
DpnI	GATC	6 cut(s)	458, 1038, 1278, 1451, 1601, 1749
DpnII	GATC	6 cut(s)	456, 1036, 1276, 1449, 1599, 1747
Eco57I	CTGAAG	1 cut(s)	853
Eco81I	CCTNAGG	1 cut(s)	1332
EcoT22I	ATGCAT	2 cut(s)	1122, 1152
FaeI	CATG	5 cut(s)	179, 937, 1063, 1124, 1782
FaqI	GGGAC	3 cut(s)	1173, 1530, 1671
FatI	CATG	5 cut(s)	175, 933, 1059, 1120, 1778
FauI	CCCGC	1 cut(s)	1759
FbaI	TGATCA	1 cut(s)	456
Fnu4HI	GCNGC	3 cut(s)	37, 40, 495
FokI	GGATG	3 cut(s)	648, 916, 1001
Fsp4HI	GCNGC	3 cut(s)	37, 40, 495
FspBI	CTAG	5 cut(s)	120, 134, 314, 695, 794
GlaI	GCGC	1 cut(s)	212
GluI	GCNGC	3 cut(s)	37, 40, 495
GsaI	CCCAGC	3 cut(s)	113, 133, 1428
GsuI	CTGGAG	1 cut(s)	732
HaeIII	GGCC	6 cut(s)	145, 252, 405, 1266, 1308, 1533
HapII	CCGG	1 cut(s)	1618
HgaI	GACGC	1 cut(s)	1706
HhaI	GCGC	1 cut(s)	213
Hin1II	CATG	5 cut(s)	179, 937, 1063, 1124, 1782
Hin6I	GCGC	1 cut(s)	211
HinP1I	GCGC	1 cut(s)	211
HincII	GTYRAC	1 cut(s)	931
HindII	GTYRAC	1 cut(s)	931
HinfI	GANTC	6 cut(s)	307, 318, 783, 838, 940, 1436
HpaII	CCGG	1 cut(s)	1618
HphI	GGTGA	3 cut(s)	430, 847, 856
Hpy166II	GTNNAC	2 cut(s)	931, 1393
Hpy188I	TCNGA	6 cut(s)	31, 328, 456, 724, 1249, 1735
Hpy188III	TCNNGA	6 cut(s)	120, 854, 1169, 1274, 1667, 1779
Hpy8I	GTNNAC	2 cut(s)	931, 1393
Hpy99I	CGWCG	1 cut(s)	1145
HpyAV	CCTTC	6 cut(s)	178, 231, 454, 706, 877, 1403
HpyCH4III	ACNGT	7 cut(s)	365, 598, 677, 925, 998, 1177, 1708
HpyCH4V	TGCA	9 cut(s)	36, 789, 887, 1120, 1150, 1255, 1419, 1442, 1694
HpyF10VI	GCNNNNNNNGC	7 cut(s)	151, 208, 217, 494, 795, 1314, 1649
Hsp92II	CATG	5 cut(s)	179, 937, 1063, 1124, 1782
HspAI	GCGC	1 cut(s)	211
Ksp22I	TGATCA	1 cut(s)	456
Kzo9I	GATC	6 cut(s)	456, 1036, 1276, 1449, 1599, 1747
LmnI	GCTCC	1 cut(s)	751
Lsp1109I	GCAGC	3 cut(s)	48, 51, 506
LweI	GCATC	7 cut(s)	626, 874, 1107, 1159, 1242, 1652, 1709
MaeI	CTAG	5 cut(s)	120, 134, 314, 695, 794
MaeIII	GTNAC	7 cut(s)	436, 547, 609, 757, 967, 992, 1177
MalI	GATC	6 cut(s)	458, 1038, 1278, 1451, 1601, 1749
MboI	GATC	6 cut(s)	456, 1036, 1276, 1449, 1599, 1747
MboII	GAAGA	8 cut(s)	403, 416, 631, 638, 709, 853, 1271, 1444
MfeI	CAATTG	1 cut(s)	355
MflI	RGATCY	4 cut(s)	1276, 1449, 1599, 1747
MlyI	GAGTC	3 cut(s)	316, 792, 847
MmeI	TCCRAC	1 cut(s)	1353
Mph1103I	ATGCAT	2 cut(s)	1122, 1152
MroXI	GAANNNNTTC	4 cut(s)	188, 201, 322, 716
MseI	TTAA	5 cut(s)	1065, 1092, 1359, 1512, 1722
MspI	CCGG	1 cut(s)	1618
MspR9I	CCNGG	1 cut(s)	1619
MunI	CAATTG	1 cut(s)	355
MvnI	CGCG	1 cut(s)	211
MwoI	GCNNNNNNNGC	7 cut(s)	151, 208, 217, 494, 795, 1314, 1649
NciI	CCSGG	1 cut(s)	1619
NdeII	GATC	6 cut(s)	456, 1036, 1276, 1449, 1599, 1747
NlaIII	CATG	5 cut(s)	179, 937, 1063, 1124, 1782
NmuCI	GTSAC	1 cut(s)	436
NsiI	ATGCAT	2 cut(s)	1122, 1152
NspI	RCATGY	1 cut(s)	179
PaeI	GCATGC	1 cut(s)	179
PagI	TCATGA	1 cut(s)	1778
PdmI	GAANNNNTTC	4 cut(s)	188, 201, 322, 716
PfeI	GAWTC	3 cut(s)	318, 940, 1436
PflFI	GACNNNGTC	1 cut(s)	782
PkrI	GCNGC	3 cut(s)	38, 41, 496
PleI	GAGTC	3 cut(s)	315, 791, 846
PpsI	GAGTC	3 cut(s)	315, 791, 846
PsiI	TTATAA	2 cut(s)	1185, 1290
PspFI	CCCAGC	3 cut(s)	109, 129, 1424
PspPI	GGNCC	4 cut(s)	144, 250, 403, 1265
PstI	CTGCAG	1 cut(s)	1696
PsuI	RGATCY	4 cut(s)	1276, 1449, 1599, 1747
PsyI	GACNNNGTC	1 cut(s)	782
SaqAI	TTAA	5 cut(s)	1065, 1092, 1359, 1512, 1722
SatI	GCNGC	3 cut(s)	37, 40, 495
Sau3AI	GATC	6 cut(s)	456, 1036, 1276, 1449, 1599, 1747
Sau96I	GGNCC	4 cut(s)	144, 250, 403, 1265
SchI	GAGTC	3 cut(s)	316, 792, 847
ScrFI	CCNGG	1 cut(s)	1619
SfaNI	GCATC	7 cut(s)	626, 874, 1107, 1159, 1242, 1652, 1709
SfcI	CTRYAG	2 cut(s)	658, 1692
SpeI	ACTAGT	1 cut(s)	694
SphI	GCATGC	1 cut(s)	179
SsiI	CCGC	2 cut(s)	232, 1752
SspI	AATATT	4 cut(s)	275, 1294, 1384, 1399
SspMI	CTAG	5 cut(s)	120, 134, 314, 695, 794
StyD4I	CCNGG	1 cut(s)	1617
TaaI	ACNGT	7 cut(s)	365, 598, 677, 925, 998, 1177, 1708
TaqI	TCGA	4 cut(s)	192, 672, 1140, 1197
TfiI	GAWTC	3 cut(s)	318, 940, 1436
Tru1I	TTAA	5 cut(s)	1065, 1092, 1359, 1512, 1722
Tru9I	TTAA	5 cut(s)	1065, 1092, 1359, 1512, 1722
TscAI	CASTG	2 cut(s)	601, 877
TseFI	GTSAC	1 cut(s)	436
TseI	GCWGC	3 cut(s)	36, 39, 494
Tsp45I	GTSAC	1 cut(s)	436
TspDTI	ATGAA	5 cut(s)	80, 210, 717, 843, 1767
TspGWI	ACGGA	2 cut(s)	795, 1110
TspRI	CASTG	2 cut(s)	601, 877
Tth111I	GACNNNGTC	1 cut(s)	782
XbaI	TCTAGA	1 cut(s)	119
XceI	RCATGY	1 cut(s)	179
XmnI	GAANNNNTTC	4 cut(s)	188, 201, 322, 716
XspI	CTAG	5 cut(s)	120, 134, 314, 695, 794
Zsp2I	ATGCAT	2 cut(s)	1122, 1152

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