Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7A

Orthogroup ID

OG0002491

Physical Location & Seq

Genomic Coordinates Forward (+)

51257761 .. 51258891

Gene Structure 1131 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7AG391600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1131 bp

ATGGAAAATTGTGTGGACAAAGCTTTGGTGTTTACGAGTTTGTTATGTCAAGGCTTTCATTCAGCATTGATGGATAGAGGTTTTGTGCTTGATGCAGTTGCTTGTAACAAGATTTTGAAGCTTCTTTGTAGAGAAAATCAGAGAGGAGCGGAGGATTTCTTTGATGTGTTACTAAGGGTTGGTCCAGAGCTGAATGTGGGGACTTTTAGCACCATGATTAGTACGTACTGTAAGGATAAAAAATTGGAAGAGGTAATTAAGCTTTATGAGGTTATGAAGGAGAAGGGAATCAGTCCGGACTTGGTTGTGTATAGTATTCTTATTGACAGTCTCTTTGAGGCAGGGAAGTTGGAGGAGGGGCATCGACTTTTTTCAGTTGCATTAGATAGTGGGATTAAGTTGGATGTAGTCATCTTCAGTTCTGTTACGCATGCATATGTAAGAACTAGAAATTTGGAAAAGCTAGTGGAGGTGTACAGAAGGATGTATAACGAAGGGATCTCGCAGAACACTGTTAGTTACAGTGTTCTTATAAACGGCTTGTGTCAGAATGGAAGGATAATGGAGGCTTGTGGGATATTCGGTCAGATTGTGAAGCATGGTTTTGTGCCTTCCATTCTAACTTATAGTAGTTTGATTGATGGAATATGCGGACTGGGGAATTTAAAAGATGCATTTAACCTGTATGAGAGTATGGTCAAGACTGGTTATGAACCTGATATTAGTCTTTATGGTGTGCTATTAAATGGCCTTTGCAAGCATGGACTGATGGGTGATGCTTTTAGGTTCTTCTTTCAGGTTATTATTAATAGGGGTGTAAAGCCAAATGTTTATACTTATAATATGTTGATAGATGGCTTCTGTGGATTGAATAGATTAAAAAATGCTGTGAAGGTGTACAACCAAATGCAATTGTATAACATAAGACCAGATGTGGTGACATATACTGTGCTTATTCGAGGCATTTCTGAATTGGGGAAATTGAATAATGCATTAGTGTTTTTCTTCCAATCATTGGAGAGGGGTTTCTTGCCCGATGTTGTAACATATTGCACCCTCATTGATGCTTGCTGCAAGCAGAAAAATGTATATGCTGGATTCCGGATTTTTGTGTTGATGCTAACAAATTGA

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_1 PPR_2 PPR_3

Protein Analysis

376

Amino Acids

42.33

Weight (kDa)

7.87

Isoelectric Point (pI)

15.83

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	31 - 78	5.1e-06	PPR repeat family
TPR_24	PF23276	50 - 161	1.7e-07	Fungal tetratrico peptide repeats
PPR_3	PF13812	61 - 109	5.1e-07	Pentatricopeptide repeat domain
PPR_2	PF13041	65 - 111	2.5e-14	PPR repeat family
PPR	PF01535	68 - 97	2.1e-07	PPR repeat
PPR_1	PF12854	95 - 125	2.5e-06	PPR repeat
PPR_3	PF13812	129 - 179	2.1e-08	Pentatricopeptide repeat domain
PPR_2	PF13041	135 - 183	4.4e-09	PPR repeat family
PPR_1	PF12854	166 - 196	4.8e-08	PPR repeat
PPR_2	PF13041	170 - 217	5.8e-13	PPR repeat family
PPR	PF01535	172 - 202	1.1e-06	PPR repeat
PPR_1	PF12854	201 - 233	1.6e-07	PPR repeat
PPR_2	PF13041	204 - 253	1.9e-12	PPR repeat family
PPR_1	PF12854	236 - 264	1.2e-06	PPR repeat
PPR_2	PF13041	239 - 288	2.8e-13	PPR repeat family
PPR_3	PF13812	270 - 320	5.2e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	271 - 304	4.2e-12	PPR repeat
PPR_2	PF13041	275 - 322	5.1e-17	PPR repeat family
PPR_2	PF13041	318 - 359	5.5e-07	PPR repeat family
PPR_1	PF12854	341 - 371	1.7e-06	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0002491)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G31840 AT1G31840
malus_domestica	MD12G1033400.v1.1
prunus_persica	Prupe.1G555500_v2.0.a1 Prupe.1G555500_v2.0.a1 Prupe.1G555500_v2.0.a1 Prupe.1G555500_v2.0.a1 Prupe.1G555500_v2.0.a1 Prupe.1G555500_v2.0.a1 Prupe.1G555500_v2.0.a1 Prupe.1G555500_v2.0.a1 Prupe.1G569400_v2.0.a1 Prupe.1G569400_v2.0.a1 Prupe.1G569400_v2.0.a1 Prupe.1G569400_v2.0.a1 Prupe.1G569400_v2.0.a1 Prupe.1G569400_v2.0.a1
pyrus_communis	pycom12g03070
rosa_chinensis	RchiOBHm_Chr2g0139321 RchiOBHm_Chr7g0227311
rosa_laevigata	RLG00000001660
rosa_multiflora	Rmu_sc0001246.1_g000012 Rmu_sc0002525.1_g000013 Rmu_sc0003153.1_g000006 Rmu_sc0011922.1_g000005
rosa_roxburghii	Rroxscaffold_3G00232240
rosa_rugosa	Rorug07G0241200
rosa_samantha	Rh2BG417100 Rh7AG391100 Rh7AG391600 Rh7AG392200 Rh7AG392500 Rh7BG376100 Rh7CG192200 Rh7CG410100 Rh7CG410500 Rh7CG411300 Rh7CG411800 Rh7DG388700
rosa_wichuraiana	Rw7G032710 Rw7G032740

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	533, 840
AccB7I	CCANNNNNTGG	1 cut(s)	1015
AccBSI	CCGCTC	1 cut(s)	149
AccIII	TCCGGA	2 cut(s)	295, 1101
AciI	CCGC	2 cut(s)	149, 651
AclWI	GGATC	1 cut(s)	506
AcsI	RAATTY	2 cut(s)	451, 661
AcuI	CTGAAG	1 cut(s)	400
AfaI	GTAC	4 cut(s)	223, 227, 476, 899
AfiI	CCNNNNNNNGG	1 cut(s)	1015
AgsI	TTSAA	3 cut(s)	118, 871, 985
AluBI	AGCT	5 cut(s)	23, 121, 190, 262, 463
AluI	AGCT	5 cut(s)	23, 121, 190, 262, 463
Alw26I	GTCTC	1 cut(s)	335
AlwI	GGATC	1 cut(s)	506
Aor13HI	TCCGGA	2 cut(s)	295, 1101
AoxI	GGCC	1 cut(s)	748
ApeKI	GCWGC	1 cut(s)	1071
ApoI	RAATTY	2 cut(s)	451, 661
ArsI	GACNNNNNNTTYG	2 cut(s)	317, 349
AseI	ATTAAT	1 cut(s)	807
AspS9I	GGNCC	1 cut(s)	182
AsuHPI	GGTGA	2 cut(s)	785, 949
AvaII	GGWCC	1 cut(s)	182
BbvI	GCAGC	1 cut(s)	1058
BccI	CCATC	4 cut(s)	64, 635, 763, 848
BceAI	ACGGC	1 cut(s)	553
BcoDI	GTCTC	1 cut(s)	335
BfaI	CTAG	2 cut(s)	447, 464
BisI	GCNGC	1 cut(s)	1072
BlsI	GCNGC	1 cut(s)	1073
Bme18I	GGWCC	1 cut(s)	182
BmgT120I	GGNCC	1 cut(s)	182
BmrI	ACTGGG	1 cut(s)	665
BmsI	GCATC	6 cut(s)	82, 370, 661, 766, 1054, 1107
BmuI	ACTGGG	1 cut(s)	665
BsaAI	YACGTR	1 cut(s)	225
BsaWI	WCCGGW	2 cut(s)	295, 1101
Bsc4I	CCNNNNNNNGG	1 cut(s)	1015
Bse1I	ACTGG	2 cut(s)	660, 709
BseAI	TCCGGA	2 cut(s)	295, 1101
BseGI	GGATG	2 cut(s)	409, 489
BseLI	CCNNNNNNNGG	1 cut(s)	1015
BseNI	ACTGG	2 cut(s)	660, 709
BseRI	GAGGAG	2 cut(s)	159, 368
BseXI	GCAGC	1 cut(s)	1058
BshFI	GGCC	1 cut(s)	750
BsiSI	CCGG	2 cut(s)	296, 1102
BslFI	GGGAC	1 cut(s)	214
BslI	CCNNNNNNNGG	1 cut(s)	1015
BsmAI	GTCTC	1 cut(s)	335
BsmFI	GGGAC	1 cut(s)	214
BsnI	GGCC	1 cut(s)	750
Bsp13I	TCCGGA	2 cut(s)	295, 1101
Bsp1407I	TGTACA	2 cut(s)	474, 897
Bsp143I	GATC	1 cut(s)	498
BspACI	CCGC	2 cut(s)	149, 651
BspANI	GGCC	1 cut(s)	750
BspEI	TCCGGA	2 cut(s)	295, 1101
BspPI	GGATC	1 cut(s)	506
BsrBI	CCGCTC	1 cut(s)	149
BsrGI	TGTACA	2 cut(s)	474, 897
BsrI	ACTGG	2 cut(s)	660, 709
BssMI	GATC	1 cut(s)	498
Bst4CI	ACNGT	5 cut(s)	230, 329, 514, 524, 949
Bst6I	CTCTTC	1 cut(s)	243
BstAUI	TGTACA	2 cut(s)	474, 897
BstBAI	YACGTR	1 cut(s)	225
BstC8I	GCNNGC	4 cut(s)	432, 758, 1069, 1076
BstDEI	CTNAG	1 cut(s)	173
BstF5I	GGATG	2 cut(s)	409, 489
BstKTI	GATC	1 cut(s)	501
BstMAI	GTCTC	1 cut(s)	335
BstMBI	GATC	1 cut(s)	498
BstNSI	RCATGY	1 cut(s)	434
BstSNI	TACGTA	1 cut(s)	225
BstV1I	GCAGC	1 cut(s)	1058
BstX2I	RGATCY	1 cut(s)	498
BstYI	RGATCY	1 cut(s)	498
BsuRI	GGCC	1 cut(s)	750
BtsCI	GGATG	2 cut(s)	409, 489
BtsIMutI	CAGTG	2 cut(s)	510, 529
Cac8I	GCNNGC	4 cut(s)	432, 758, 1069, 1076
Cfr13I	GGNCC	1 cut(s)	182
Csp6I	GTAC	4 cut(s)	222, 226, 475, 898
CviAII	CATG	4 cut(s)	214, 431, 599, 761
CviQI	GTAC	4 cut(s)	222, 226, 475, 898
DdeI	CTNAG	1 cut(s)	173
DpnI	GATC	1 cut(s)	500
DpnII	GATC	1 cut(s)	498
DraI	TTTAAA	1 cut(s)	666
Eam1104I	CTCTTC	1 cut(s)	243
EarI	CTCTTC	1 cut(s)	243
Eco105I	TACGTA	1 cut(s)	225
Eco47I	GGWCC	1 cut(s)	182
Eco57I	CTGAAG	1 cut(s)	400
EcoT22I	ATGCAT	3 cut(s)	436, 676, 994
FaeI	CATG	4 cut(s)	217, 434, 602, 764
FaqI	GGGAC	1 cut(s)	214
FatI	CATG	4 cut(s)	213, 430, 598, 760
FauNDI	CATATG	1 cut(s)	436
Fnu4HI	GCNGC	1 cut(s)	1072
FokI	GGATG	2 cut(s)	416, 496
Fsp4HI	GCNGC	1 cut(s)	1072
FspBI	CTAG	2 cut(s)	447, 464
GluI	GCNGC	1 cut(s)	1072
HaeIII	GGCC	1 cut(s)	750
HapII	CCGG	2 cut(s)	296, 1102
Hin1II	CATG	4 cut(s)	217, 434, 602, 764
HindIII	AAGCTT	3 cut(s)	21, 119, 260
HinfI	GANTC	2 cut(s)	288, 1098
HpaII	CCGG	2 cut(s)	296, 1102
HphI	GGTGA	2 cut(s)	785, 949
Hpy166II	GTNNAC	4 cut(s)	16, 33, 475, 898
Hpy188I	TCNGA	4 cut(s)	141, 549, 588, 970
Hpy188III	TCNNGA	4 cut(s)	185, 296, 700, 1102
Hpy8I	GTNNAC	4 cut(s)	16, 33, 475, 898
HpyAV	CCTTC	7 cut(s)	271, 277, 474, 488, 549, 621, 886
HpyCH4III	ACNGT	5 cut(s)	230, 329, 514, 524, 949
HpyCH4IV	ACGT	1 cut(s)	224
HpyCH4V	TGCA	9 cut(s)	95, 380, 434, 674, 756, 910, 992, 1053, 1074
HpyF3I	CTNAG	1 cut(s)	173
HpySE526I	ACGT	1 cut(s)	224
Hsp92II	CATG	4 cut(s)	217, 434, 602, 764
Kpn2I	TCCGGA	2 cut(s)	295, 1101
Kzo9I	GATC	1 cut(s)	498
LmnI	GCTCC	1 cut(s)	146
Lsp1109I	GCAGC	1 cut(s)	1058
LweI	GCATC	6 cut(s)	82, 370, 661, 766, 1054, 1107
MaeI	CTAG	2 cut(s)	447, 464
MaeII	ACGT	1 cut(s)	224
MaeIII	GTNAC	6 cut(s)	104, 168, 424, 518, 937, 1042
MalI	GATC	1 cut(s)	500
MbiI	CCGCTC	1 cut(s)	149
MboI	GATC	1 cut(s)	498
MboII	GAAGA	4 cut(s)	260, 406, 781, 997
MfeI	CAATTG	1 cut(s)	911
MflI	RGATCY	1 cut(s)	498
MluCI	AATT	9 cut(s)	7, 242, 255, 451, 661, 911, 971, 980, 1126
MmeI	TCCRAC	2 cut(s)	330, 381
Mph1103I	ATGCAT	3 cut(s)	436, 676, 994
MroI	TCCGGA	2 cut(s)	295, 1101
MseI	TTAA	7 cut(s)	258, 396, 665, 678, 743, 807, 878
MslI	CAYNNNNRTG	1 cut(s)	435
MspI	CCGG	2 cut(s)	296, 1102
MunI	CAATTG	1 cut(s)	911
NdeI	CATATG	1 cut(s)	436
NdeII	GATC	1 cut(s)	498
NlaIII	CATG	4 cut(s)	217, 434, 602, 764
NmuCI	GTSAC	1 cut(s)	937
NsiI	ATGCAT	3 cut(s)	436, 676, 994
NspI	RCATGY	1 cut(s)	434
PaeI	GCATGC	1 cut(s)	434
PfeI	GAWTC	2 cut(s)	288, 1098
PflMI	CCANNNNNTGG	1 cut(s)	1015
PkrI	GCNGC	1 cut(s)	1073
Ppu21I	YACGTR	1 cut(s)	225
PshBI	ATTAAT	1 cut(s)	807
PsiI	TTATAA	2 cut(s)	533, 840
PspPI	GGNCC	1 cut(s)	182
PsuI	RGATCY	1 cut(s)	498
RsaI	GTAC	4 cut(s)	223, 227, 476, 899
RsaNI	GTAC	4 cut(s)	222, 226, 475, 898
RseI	CAYNNNNRTG	1 cut(s)	435
SaqAI	TTAA	7 cut(s)	258, 396, 665, 678, 743, 807, 878
SatI	GCNGC	1 cut(s)	1072
Sau3AI	GATC	1 cut(s)	498
Sau96I	GGNCC	1 cut(s)	182
SfaNI	GCATC	6 cut(s)	82, 370, 661, 766, 1054, 1107
SinI	GGWCC	1 cut(s)	182
SmiMI	CAYNNNNRTG	1 cut(s)	435
SnaBI	TACGTA	1 cut(s)	225
SphI	GCATGC	1 cut(s)	434
Sse9I	AATT	9 cut(s)	7, 242, 255, 451, 661, 911, 971, 980, 1126
SsiI	CCGC	2 cut(s)	149, 651
SspMI	CTAG	2 cut(s)	447, 464
TaaI	ACNGT	5 cut(s)	230, 329, 514, 524, 949
TaiI	ACGT	1 cut(s)	227
TaqI	TCGA	2 cut(s)	364, 958
TaqII	GACCGA	1 cut(s)	572
TasI	AATT	9 cut(s)	7, 242, 255, 451, 661, 911, 971, 980, 1126
TatI	WGTACW	2 cut(s)	474, 897
TfiI	GAWTC	2 cut(s)	288, 1098
Tru1I	TTAA	7 cut(s)	258, 396, 665, 678, 743, 807, 878
Tru9I	TTAA	7 cut(s)	258, 396, 665, 678, 743, 807, 878
TscAI	CASTG	2 cut(s)	517, 529
TseFI	GTSAC	1 cut(s)	937
TseI	GCWGC	1 cut(s)	1071
Tsp45I	GTSAC	1 cut(s)	937
TspDTI	ATGAA	3 cut(s)	47, 290, 726
TspRI	CASTG	2 cut(s)	517, 529
Van91I	CCANNNNNTGG	1 cut(s)	1015
VpaK11BI	GGWCC	1 cut(s)	182
VspI	ATTAAT	1 cut(s)	807
XapI	RAATTY	2 cut(s)	451, 661
XceI	RCATGY	1 cut(s)	434
XspI	CTAG	2 cut(s)	447, 464
Zsp2I	ATGCAT	3 cut(s)	436, 676, 994

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