Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0016054

Physical Location & Seq

Genomic Coordinates Forward (+)

8350865 .. 8352214

Gene Structure 1350 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00339960.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1350 bp

ATGCATTCTTCCCTAACCTCTCAACGCCTCAGACCCTTTCTTCTTCTTCATCTCCCCCACACTCAAACCCTCCTATTCTCCTCACTTCCTCACACTTCTCCCACCAAACCCATTTCAATTCCCAATCCCACAGACCCAAATCCTCAATCAAATTCACCAATCTACGACTACACCACAGTGCGTGAAACCCTTTCTTCTTACTGCAATGACTGGAAGAAAGCCCTGGACTTTTTCAACTGGGTTGAGACCCAGTACCACTTCCAACATACCACCGAAACCTACAATCGAATGCTTGACATTCTCGGTAAGTACTTCGAGTTTGAGCTTTCTTGGGACTTGGTTCACAAAATGAAACAGAACCCAGATTCTGTTCCAGACCATACTACATTTCGTATAATGTTTAAGAGATATGTGTCTGCACATCTTGTAAAGGAAGCTATAGATACTTATAATAAGTTAGATGAGTTTAGCTTGAAGGATGAGACTTCTTATTGCAATCTTATTGATGCTCTTTGTGAGCATAAGCATGTGATTGAGGCCCAAGAGCTTTGCTCTTGGAAGAACAAAGAGTTGGGTTTTGATAAGAGTACTAAGCTGCATAATATAATTCTTCGGGGGTGGTCGAAAATGGGGTGGTGGGGAAAGTGTAGGGATTTTTGGGAAGAGATGGATAGGAGAGGTGTCTGTAAAGATTTGCATTCGTATTCGATATATATGGATATAATGTGTAAGAGTGGGAAGGCGTGGAAGGCTGTGAAGTTGTATAAGGAGATGAAGAGGAAAGGGATTAAGCTGGATGTGGTGGCGTATAATACGGTTATTCGAGCTGTTGGTGATTCTGAGGGTGTTGATTTTGCAACTCGAATCTTGAGGGAGATGAAGGAATTGGGATGTGAACCTAATGGTGCGACGTATAATACGATTATAAAGCTTTTGTGCGAGAATATGAGATTCAGGGAGGCATTCTCGATGCTTCGAATAATGTCTAAGAACAGTTGTGGCCCGGATGTTATTACATACCAAATACTTTTTAAGTATCTGGAGAAGCCGAATGAGATTCTTAGGCTGTTTGATAGGATGATTGAAAGTGGGGTTCAGCCGAGGATGGACACATATGTGATGATTATGAGGAAGTTTGGGAGATGGGGCTTCCTTAGACCGATGTTTATTGTGTGGCAGAAGATGGAAAAACTTGGGTGTAGTCCTAATGAGTCTGCTTACAATGCTTTAATAGATGCTCTGGTTGAAAAGGGTATGTTAGACATGGCTAGGAAGTACAATGAAGAGATGATAGCAAAGGGCCTTCCAGCTAGGCCAAGGGTGGAGTTGGGCATGAAACTGGTGGAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

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:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2 PPR_3

Protein Analysis

449

Amino Acids

52.74

Weight (kDa)

8.75

Isoelectric Point (pI)

36.41

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	231 - 276	3.9e-11	PPR repeat family
PPR	PF01535	234 - 263	5.5e-06	PPR repeat
PPR_long	PF17177	238 - 368	2.8e-10	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	254 - 312	7.8e-15	Pentatricopeptide repeat domain
PPR_2	PF13041	266 - 313	1.3e-11	PPR repeat family
PPR_1	PF12854	297 - 328	2.8e-08	PPR repeat
PPR_2	PF13041	304 - 346	4.7e-12	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0016054)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G80550
fragaria_vesca	FvH4_4g04420 FvH4_4g04420
malus_domestica	MD16G1225100.v1.1
prunus_persica	Prupe.1G046400_v2.0.a1
rosa_chinensis	RchiOBHm_Chr4g0394981
rosa_laevigata	RLG00000009653
rosa_multiflora	Rmu_sc0005802.1_g000031
rosa_roxburghii	Rroxscaffold_5G00339960
rosa_rugosa	Rorug03G0360300.1
rosa_samantha	Rh4AG056200 Rh4BG054900 Rh4CG060800 Rh4DG052400
rosa_wichuraiana	Rw4G004500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	450, 926
AcsI	RAATTY	1 cut(s)	151
AfaI	GTAC	4 cut(s)	254, 311, 589, 1277
AgsI	TTSAA	5 cut(s)	117, 235, 475, 1085, 1247
AjnI	CCWGG	1 cut(s)	222
AjuI	GAANNNNNNNTTGG	2 cut(s)	554, 586
AleI	CACNNNNGTG	2 cut(s)	176, 1115
AluBI	AGCT	9 cut(s)	325, 437, 471, 547, 595, 793, 827, 931, 1310
AluI	AGCT	9 cut(s)	325, 437, 471, 547, 595, 793, 827, 931, 1310
Alw26I	GTCTC	2 cut(s)	239, 476
AlwNI	CAGNNNCTG	1 cut(s)	368
AoxI	GGCC	4 cut(s)	537, 1000, 1300, 1313
ApeKI	GCWGC	1 cut(s)	595
ApoI	RAATTY	1 cut(s)	151
AspS9I	GGNCC	3 cut(s)	538, 1001, 1300
AsuC2I	CCSGG	1 cut(s)	1004
AsuHPI	GGTGA	2 cut(s)	147, 845
AsuII	TTCGAA	1 cut(s)	976
BbvI	GCAGC	1 cut(s)	582
BccI	CCATC	4 cut(s)	661, 1099, 1137, 1177
BciT130I	CCWGG	1 cut(s)	224
BcnI	CCSGG	1 cut(s)	1004
BcoDI	GTCTC	2 cut(s)	239, 476
BfaI	CTAG	2 cut(s)	1269, 1311
BfmI	CTRYAG	1 cut(s)	438
BisI	GCNGC	1 cut(s)	596
BlsI	GCNGC	1 cut(s)	597
BmcAI	AGTACT	2 cut(s)	311, 589
Bme1390I	CCNGG	2 cut(s)	224, 1004
BmgT120I	GGNCC	3 cut(s)	538, 1001, 1300
BmrFI	CCNGG	2 cut(s)	224, 1004
BmrI	ACTGGG	2 cut(s)	244, 247
BmsI	GCATC	3 cut(s)	496, 960, 1225
BmuI	ACTGGG	2 cut(s)	244, 247
BplI	GAGNNNNNCTC	4 cut(s)	536, 568, 950, 982
BpmI	CTGGAG	1 cut(s)	1061
Bpu14I	TTCGAA	1 cut(s)	976
BpuEI	CTTGAG	1 cut(s)	889
BpuMI	CCSGG	1 cut(s)	1004
BsaI	GGTCTC	1 cut(s)	239
BsaJI	CCNNGG	3 cut(s)	222, 1100, 1316
Bse1I	ACTGG	4 cut(s)	215, 242, 250, 1344
Bse3DI	GCAATG	1 cut(s)	211
BseBI	CCWGG	1 cut(s)	224
BseDI	CCNNGG	3 cut(s)	222, 1100, 1316
BseGI	GGATG	6 cut(s)	484, 802, 896, 1012, 1083, 1110
BseMI	GCAATG	1 cut(s)	211
BseMII	CTCAG	2 cut(s)	43, 831
BseNI	ACTGG	4 cut(s)	215, 242, 250, 1344
BseRI	GAGGAG	1 cut(s)	70
BseXI	GCAGC	1 cut(s)	582
BsgI	GTGCAG	1 cut(s)	402
BshFI	GGCC	4 cut(s)	539, 1002, 1302, 1315
BsiSI	CCGG	1 cut(s)	1004
BslFI	GGGAC	1 cut(s)	347
BsmAI	GTCTC	2 cut(s)	239, 476
BsmFI	GGGAC	1 cut(s)	347
BsmI	GAATGC	4 cut(s)	4, 294, 697, 962
BsnI	GGCC	4 cut(s)	539, 1002, 1302, 1315
Bso31I	GGTCTC	1 cut(s)	239
Bsp119I	TTCGAA	1 cut(s)	976
BspANI	GGCC	4 cut(s)	539, 1002, 1302, 1315
BspCNI	CTCAG	2 cut(s)	42, 832
BspT104I	TTCGAA	1 cut(s)	976
BspTNI	GGTCTC	1 cut(s)	239
BsrDI	GCAATG	1 cut(s)	211
BsrI	ACTGG	4 cut(s)	215, 242, 250, 1344
BssECI	CCNNGG	3 cut(s)	222, 1100, 1316
BssT1I	CCWWGG	1 cut(s)	1316
Bst2UI	CCWGG	1 cut(s)	224
Bst4CI	ACNGT	3 cut(s)	178, 817, 995
Bst6I	CTCTTC	3 cut(s)	657, 770, 1278
BstBI	TTCGAA	1 cut(s)	976
BstDEI	CTNAG	6 cut(s)	29, 591, 840, 987, 1061, 1154
BstF5I	GGATG	6 cut(s)	484, 802, 896, 1012, 1083, 1110
BstMAI	GTCTC	2 cut(s)	239, 476
BstMWI	GCNNNNNNNGC	2 cut(s)	749, 1223
BstNI	CCWGG	1 cut(s)	224
BstNSI	RCATGY	1 cut(s)	530
BstSCI	CCNGG	2 cut(s)	222, 1002
BstSFI	CTRYAG	1 cut(s)	438
BstV1I	GCAGC	1 cut(s)	582
BsuRI	GGCC	4 cut(s)	539, 1002, 1302, 1315
BtsCI	GGATG	6 cut(s)	484, 802, 896, 1012, 1083, 1110
BtsIMutI	CAGTG	1 cut(s)	183
CaiI	CAGNNNCTG	1 cut(s)	368
Cfr13I	GGNCC	3 cut(s)	538, 1001, 1300
Csp6I	GTAC	4 cut(s)	253, 310, 588, 1276
CviAII	CATG	3 cut(s)	527, 1264, 1333
CviQI	GTAC	4 cut(s)	253, 310, 588, 1276
DdeI	CTNAG	6 cut(s)	29, 591, 840, 987, 1061, 1154
Eam1104I	CTCTTC	3 cut(s)	657, 770, 1278
EarI	CTCTTC	3 cut(s)	657, 770, 1278
Eco130I	CCWWGG	1 cut(s)	1316
Eco31I	GGTCTC	1 cut(s)	239
EcoO109I	RGGNCCY	1 cut(s)	1300
EcoRII	CCWGG	1 cut(s)	222
EcoT14I	CCWWGG	1 cut(s)	1316
EcoT22I	ATGCAT	1 cut(s)	6
ErhI	CCWWGG	1 cut(s)	1316
FaeI	CATG	3 cut(s)	530, 1267, 1336
FaqI	GGGAC	1 cut(s)	347
FatI	CATG	3 cut(s)	526, 1263, 1332
FauNDI	CATATG	1 cut(s)	1114
Fnu4HI	GCNGC	1 cut(s)	596
FokI	GGATG	6 cut(s)	491, 809, 903, 1019, 1090, 1117
Fsp4HI	GCNGC	1 cut(s)	596
FspBI	CTAG	2 cut(s)	1269, 1311
GluI	GCNGC	1 cut(s)	596
GsuI	CTGGAG	1 cut(s)	1061
HaeIII	GGCC	4 cut(s)	539, 1002, 1302, 1315
HapII	CCGG	1 cut(s)	1004
Hin1II	CATG	3 cut(s)	530, 1267, 1336
HindIII	AAGCTT	1 cut(s)	929
HinfI	GANTC	6 cut(s)	365, 836, 864, 951, 1057, 1211
HpaII	CCGG	1 cut(s)	1004
HphI	GGTGA	2 cut(s)	147, 845
Hpy166II	GTNNAC	2 cut(s)	343, 896
Hpy188I	TCNGA	2 cut(s)	32, 841
Hpy188III	TCNNGA	4 cut(s)	374, 868, 967, 1040
Hpy8I	GTNNAC	2 cut(s)	343, 896
Hpy99I	CGWCG	1 cut(s)	913
HpyAV	CCTTC	5 cut(s)	469, 733, 742, 874, 1313
HpyCH4III	ACNGT	3 cut(s)	178, 817, 995
HpyCH4IV	ACGT	1 cut(s)	911
HpyCH4V	TGCA	7 cut(s)	4, 204, 419, 495, 598, 697, 857
HpyF10VI	GCNNNNNNNGC	2 cut(s)	749, 1223
HpyF3I	CTNAG	6 cut(s)	29, 591, 840, 987, 1061, 1154
HpySE526I	ACGT	1 cut(s)	911
Hsp92II	CATG	3 cut(s)	530, 1267, 1336
Lsp1109I	GCAGC	1 cut(s)	582
LweI	GCATC	3 cut(s)	496, 960, 1225
MaeI	CTAG	2 cut(s)	1269, 1311
MaeII	ACGT	1 cut(s)	911
MluCI	AATT	4 cut(s)	117, 151, 606, 884
MlyI	GAGTC	1 cut(s)	1220
MmeI	TCCRAC	1 cut(s)	286
Mph1103I	ATGCAT	1 cut(s)	6
MseI	TTAA	4 cut(s)	402, 789, 1032, 1229
MslI	CAYNNNNRTG	3 cut(s)	176, 525, 1115
MspI	CCGG	1 cut(s)	1004
MspR9I	CCNGG	2 cut(s)	224, 1004
Mva1269I	GAATGC	4 cut(s)	4, 294, 697, 962
MvaI	CCWGG	1 cut(s)	224
MwoI	GCNNNNNNNGC	2 cut(s)	749, 1223
NciI	CCSGG	1 cut(s)	1004
NdeI	CATATG	1 cut(s)	1114
NlaIII	CATG	3 cut(s)	530, 1267, 1336
NmeAIII	GCCGAG	1 cut(s)	1125
NsiI	ATGCAT	1 cut(s)	6
NspI	RCATGY	1 cut(s)	530
NspV	TTCGAA	1 cut(s)	976
OliI	CACNNNNGTG	2 cut(s)	176, 1115
PcsI	WCGNNNNNNNCGW	1 cut(s)	917
PctI	GAATGC	4 cut(s)	4, 294, 697, 962
PfeI	GAWTC	5 cut(s)	365, 836, 864, 951, 1057
PkrI	GCNGC	1 cut(s)	597
PleI	GAGTC	1 cut(s)	1219
PpsI	GAGTC	1 cut(s)	1219
PsiI	TTATAA	2 cut(s)	450, 926
Psp6I	CCWGG	1 cut(s)	222
PspGI	CCWGG	1 cut(s)	222
PspPI	GGNCC	3 cut(s)	538, 1001, 1300
PstNI	CAGNNNCTG	1 cut(s)	368
RsaI	GTAC	4 cut(s)	254, 311, 589, 1277
RsaNI	GTAC	4 cut(s)	253, 310, 588, 1276
RseI	CAYNNNNRTG	3 cut(s)	176, 525, 1115
SaqAI	TTAA	4 cut(s)	402, 789, 1032, 1229
SatI	GCNGC	1 cut(s)	596
Sau96I	GGNCC	3 cut(s)	538, 1001, 1300
ScaI	AGTACT	2 cut(s)	311, 589
SchI	GAGTC	1 cut(s)	1220
ScrFI	CCNGG	2 cut(s)	224, 1004
SfaNI	GCATC	3 cut(s)	496, 960, 1225
SfcI	CTRYAG	1 cut(s)	438
SfuI	TTCGAA	1 cut(s)	976
SmiMI	CAYNNNNRTG	3 cut(s)	176, 525, 1115
SmlI	CTYRAG	1 cut(s)	868
SmoI	CTYRAG	1 cut(s)	868
Sse9I	AATT	4 cut(s)	117, 151, 606, 884
SspMI	CTAG	2 cut(s)	1269, 1311
StyD4I	CCNGG	2 cut(s)	222, 1002
StyI	CCWWGG	1 cut(s)	1316
TaaI	ACNGT	3 cut(s)	178, 817, 995
TaiI	ACGT	1 cut(s)	914
TaqI	TCGA	8 cut(s)	286, 315, 623, 707, 823, 862, 968, 976
TaqII	GACCGA	1 cut(s)	1174
TasI	AATT	4 cut(s)	117, 151, 606, 884
TatI	WGTACW	3 cut(s)	309, 587, 1275
TfiI	GAWTC	5 cut(s)	365, 836, 864, 951, 1057
Tru1I	TTAA	4 cut(s)	402, 789, 1032, 1229
Tru9I	TTAA	4 cut(s)	402, 789, 1032, 1229
TscAI	CASTG	1 cut(s)	183
TseI	GCWGC	1 cut(s)	595
TspDTI	ATGAA	6 cut(s)	38, 365, 788, 893, 1296, 1349
TspRI	CASTG	1 cut(s)	183
XapI	RAATTY	1 cut(s)	151
XceI	RCATGY	1 cut(s)	530
XspI	CTAG	2 cut(s)	1269, 1311
ZrmI	AGTACT	2 cut(s)	311, 589
Zsp2I	ATGCAT	1 cut(s)	6

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