Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0013053

Physical Location & Seq

Genomic Coordinates Reverse (-)

73351653 .. 73353359

Gene Structure 1707 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG425100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1707 bp

ATGTCACCAACGAACGAAGCTCTTGTCCTCATCCAAAAAATGGTGAAAAGCCCGCCACTGAAAGCCTTGTCAATCTTCAACTCCTCCACTCTCCAAGGCTTCCACCACACCCACCACTCCATCTCCTTCATTCTTCACAATCTCATCTCCTCCAATATGCCATTGCACGCCCAGTCTCTCATTCTTCAACTCCTCTCCGGTCGAATCTCATCCCCATTCTTCACTCCCTCGTCTCTCCTCCACGATTTAACTCAACCCAAGTTGAGTTCAGTCGCCAACTCTAGTCATCTATACGAAGCAATCATCAACGCCCATGTTCAATCTCAGTTGCCAGAGCAAGCCCTTTACTATTTGAACAAAATGGTTGAGCAAGGCCTCGTTCCCAGATCAAACACTTTCAATAACGTATTGGGTTTCCTTGTTAAGTCGAGAGATTTTGAAAAGGCTTGGTGGGTGTTCAATGAGTTTAAAGGTAAGGTGGGGTTGGATTTGTATAGTTTTGGGATAGTTGTAAAAAGTTGCTGCGAGGGTGGTGAATTGGATAGGGGTTTTGGGGTTTTGGATGAGATGGAGGAAATGGGTTGGTCTCCCAATGTGGTTATATACACTACATTGATTGATGGGTGTTGCAAGAATGGTGATTTAGAGAGGGCAAAGAAGATGTTTTGTAAAATGGGGGAGCTTGGTTTGGTTGCTAATCAGTTTACATATACTGTGTTGATTGATGGGCTTTTCAAGAAAGGTCGGAATAAAGAAGGGTTTGAGTTGTATGAGAAGATGAAGATTAATGGGGTTGTTCCTAACATGCGTACTTTTACTTGTTTGATCAGTGGGTGCTGCAACGATGGAAAAATGAATAGTGCATTGAAACTGTTCGATGAAATGCATGAGAGAGGAATGGCCTGCAATGTGGTCACATATAACATCCTAATTGGTGGGTTGTGTCGAGAAATGAGGGTTTGGGAAGCTGAGAAGTTTGTGAATGAGATGAAGAGGGATGGTATTAGTCCGAGTATAGTTACTTTCAACACTCTGATTGATGGGTTTTGTGGTCTTGGAAAGTTGGACAAGGCGTTGAGTTTGTTTGATCAGTTGAAGTCGAGTGGACAATCTCCGTCTCTGGTGACTTATAATGTTCTGATTCAAGGCTTTGCCAAAGCTCGAAACTCTGCTGGAGTTATTGATTTGGTGAGAGAGATGGAGAACAGAGGCATGTCTCCTTCTAAAGTGACGTATACAATTGTAATTGATGCCTTGGTTCGATCTGATGACATGGAAAGAGCATTTCATGTGTTCTCCTCCATGGAGAAGGCTGGTCTGGTGCCTGATGTCTACAACTATGGGGTCTTGATACATGGATTATGCATGAAGGGTAATATGATTGAAGCATCAAAACTGTTACAATCAATGAGCGATTCGCATTTAGAGCCAAGTGATGTCATATTTAATATAATGATTCATGGCTACTGCAAAGAGGGTAGCTCTTACAGGGCACTGAGGTTGCTCAAAGAAATGAGAAAGAAAGGAATGGTTCCGAATGTGGCTAGTTACAGTTCGACCATTGGAGTTCTTTGTAATGACGGGAAATGGGAAGAGGCTGAAATACTACTTAAAGAAATGATGGAGTCAGATTTGAAACCATCAGTTTCTTTGTATAATAAAATTTCTAGAGTGAAAAATGAAACACTGGTGAAGTTATCAACCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000959 GO:0001101 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009719 GO:0009725 GO:0009737 GO:0009987 GO:0010033 GO:0016070 GO:0016071 GO:0016556 GO:0016787 GO:0016788 GO:0033993 GO:0034641 GO:0042221 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0046483 GO:0050896 GO:0071704 GO:0080156 GO:0090304 GO:0090305 GO:0097159 GO:0097305 GO:1900864 GO:1901360 GO:1901363 GO:1901700

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_1 PPR_2 PPR_3 PPR_long

Protein Analysis

568

Amino Acids

63.43

Weight (kDa)

7.85

Isoelectric Point (pI)

41.94

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_long	PF17177	179 - 283	1.1e-06	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	186 - 242	5.7e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	194 - 225	2.7e-12	PPR repeat
PPR_2	PF13041	197 - 246	5.9e-17	PPR repeat family
PPR	PF01535	200 - 230	2.3e-09	PPR repeat
PPR_long	PF17177	205 - 318	4.2e-08	Pentacotripeptide-repeat region of PRORP
PPR_1	PF12854	229 - 261	1.1e-07	PPR repeat
PPR_2	PF13041	235 - 281	3.3e-15	PPR repeat family
PPR	PF01535	235 - 265	2.9e-06	PPR repeat
PPR_3	PF13812	256 - 312	3.7e-11	Pentatricopeptide repeat domain
PPR_1	PF12854	263 - 295	4.1e-12	PPR repeat
PPR_2	PF13041	271 - 316	5.4e-18	PPR repeat family
PPR	PF01535	271 - 299	1.1e-08	PPR repeat
TPR_24	PF23276	272 - 364	3.1e-06	Fungal tetratrico peptide repeats
PPR_1	PF12854	298 - 331	1.2e-12	PPR repeat
PPR_2	PF13041	303 - 350	1.2e-17	PPR repeat family
PPR	PF01535	305 - 335	6e-08	PPR repeat
PPR_3	PF13812	327 - 384	1.4e-12	Pentatricopeptide repeat domain
PPR_1	PF12854	333 - 365	2.1e-11	PPR repeat
PPR_2	PF13041	337 - 386	4.7e-17	PPR repeat family
PPR	PF01535	340 - 369	5.1e-08	PPR repeat
PPR_long	PF17177	356 - 480	1.5e-09	Pentacotripeptide-repeat region of PRORP
PPR_2	PF13041	372 - 421	1.6e-13	PPR repeat family
PPR_3	PF13812	396 - 451	1.4e-08	Pentatricopeptide repeat domain
PPR_2	PF13041	410 - 455	4.5e-13	PPR repeat family
PPR	PF01535	410 - 440	1e-05	PPR repeat
PPR_3	PF13812	435 - 489	5.1e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	439 - 470	8.7e-08	PPR repeat
PPR_3	PF13812	465 - 524	5e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	475 - 506	1.9e-08	PPR repeat
PPR_2	PF13041	477 - 526	4.2e-14	PPR repeat family
PPR	PF01535	480 - 509	3.4e-08	PPR repeat
PPR_3	PF13812	500 - 555	5.6e-06	Pentatricopeptide repeat domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0013053)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G11690 AT4G11690
fragaria_vesca	FvH4_3g36170
malus_domestica	MD03G1092900.v1.1
prunus_persica	Prupe.6G076800_v2.0.a1
pyrus_communis	pycom03g07420
rosa_chinensis	RchiOBHm_Chr5g0064671 RchiOBHm_Chr5g0064911
rosa_laevigata	RLG00000035740 RLG00000035742
rosa_multiflora	Rmu_sc0020903.1_g000003 Rmu_sc0025431.1_g000001
rosa_roxburghii	Rroxscaffold_1G00016400
rosa_rugosa	Rorug05G0366600
rosa_samantha	Rh5AG425100 Rh5CG462600 Rh5DG453100
rosa_wichuraiana	Rw5G039940

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	1131
AccB1I	GGYRCC	1 cut(s)	1321
AccB7I	CCANNNNNTGG	1 cut(s)	40
AccI	GTMKAC	2 cut(s)	1235, 1332
AciI	CCGC	1 cut(s)	53
AcsI	RAATTY	1 cut(s)	1662
AfaI	GTAC	1 cut(s)	811
AfiI	CCNNNNNNNGG	1 cut(s)	40
AluBI	AGCT	5 cut(s)	20, 682, 968, 1160, 1482
AluI	AGCT	5 cut(s)	20, 682, 968, 1160, 1482
Alw26I	GTCTC	5 cut(s)	180, 237, 591, 1122, 1221
AoxI	GGCC	2 cut(s)	373, 900
ApeKI	GCWGC	2 cut(s)	522, 837
ApoI	RAATTY	1 cut(s)	1662
ArsI	GACNNNNNNTTYG	2 cut(s)	9, 41
AseI	ATTAAT	1 cut(s)	786
Asp700I	GAANNNNTTC	1 cut(s)	872
AsuHPI	GGTGA	6 cut(s)	55, 545, 650, 1135, 1201, 1702
BaeGI	GKGCMC	1 cut(s)	1495
BanI	GGYRCC	1 cut(s)	1321
BbvI	GCAGC	2 cut(s)	509, 824
BclI	TGATCA	2 cut(s)	825, 1087
BcoDI	GTCTC	5 cut(s)	180, 237, 591, 1122, 1221
BfaI	CTAG	3 cut(s)	282, 1545, 1668
BisI	GCNGC	2 cut(s)	523, 838
BlsI	GCNGC	2 cut(s)	524, 839
BmiI	GGNNCC	2 cut(s)	1323, 1533
BmrI	ACTGGG	1 cut(s)	166
BmsI	GCATC	2 cut(s)	1240, 1397
BmuI	ACTGGG	1 cut(s)	166
BplI	GAGNNNNNCTC	2 cut(s)	1466, 1498
BpmI	CTGGAG	1 cut(s)	1194
BsaI	GGTCTC	1 cut(s)	591
BsaJI	CCNNGG	3 cut(s)	94, 1254, 1302
BsaWI	WCCGGW	1 cut(s)	197
BsaXI	ACNNNNNCTCC	2 cut(s)	107, 137
Bsc4I	CCNNNNNNNGG	1 cut(s)	40
Bse1I	ACTGG	2 cut(s)	172, 1692
Bse3DI	GCAATG	2 cut(s)	161, 913
BseDI	CCNNGG	3 cut(s)	94, 1254, 1302
BseGI	GGATG	5 cut(s)	30, 209, 568, 924, 1003
BseLI	CCNNNNNNNGG	1 cut(s)	40
BseMI	GCAATG	2 cut(s)	161, 913
BseMII	CTCAG	3 cut(s)	338, 960, 1487
BseNI	ACTGG	2 cut(s)	172, 1692
BseRI	GAGGAG	5 cut(s)	73, 139, 182, 227, 1288
BseSI	GKGCMC	1 cut(s)	1495
BseXI	GCAGC	2 cut(s)	509, 824
Bsh1285I	CGRYCG	1 cut(s)	202
BshFI	GGCC	2 cut(s)	375, 902
BshNI	GGYRCC	1 cut(s)	1321
BsiEI	CGRYCG	1 cut(s)	202
BsiSI	CCGG	1 cut(s)	198
BslI	CCNNNNNNNGG	1 cut(s)	40
BsmAI	GTCTC	5 cut(s)	180, 237, 591, 1122, 1221
BsmBI	CGTCTC	2 cut(s)	237, 1122
BsnI	GGCC	2 cut(s)	375, 902
Bso31I	GGTCTC	1 cut(s)	591
Bsp1286I	GDGCHC	1 cut(s)	1495
Bsp143I	GATC	4 cut(s)	386, 825, 1087, 1262
Bsp19I	CCATGG	1 cut(s)	1302
BspACI	CCGC	1 cut(s)	53
BspANI	GGCC	2 cut(s)	375, 902
BspCNI	CTCAG	3 cut(s)	337, 961, 1488
BspLI	GGNNCC	2 cut(s)	1323, 1533
BspT107I	GGYRCC	1 cut(s)	1321
BspTNI	GGTCTC	1 cut(s)	591
BsrDI	GCAATG	2 cut(s)	161, 913
BsrI	ACTGG	2 cut(s)	172, 1692
BssECI	CCNNGG	3 cut(s)	94, 1254, 1302
BssMI	GATC	4 cut(s)	386, 825, 1087, 1262
BssNAI	GTATAC	1 cut(s)	1236
BssT1I	CCWWGG	3 cut(s)	94, 1254, 1302
Bst1107I	GTATAC	1 cut(s)	1236
Bst4CI	ACNGT	4 cut(s)	715, 873, 1398, 1553
Bst6I	CTCTTC	2 cut(s)	986, 1587
BstC8I	GCNNGC	4 cut(s)	53, 168, 339, 904
BstDEI	CTNAG	3 cut(s)	324, 969, 1496
BstDSI	CCRYGG	1 cut(s)	1302
BstF5I	GGATG	5 cut(s)	30, 209, 568, 924, 1003
BstKTI	GATC	4 cut(s)	389, 828, 1090, 1265
BstMAI	GTCTC	5 cut(s)	180, 237, 591, 1122, 1221
BstMBI	GATC	4 cut(s)	386, 825, 1087, 1262
BstMCI	CGRYCG	1 cut(s)	202
BstMWI	GCNNNNNNNGC	1 cut(s)	1426
BstNSI	RCATGY	2 cut(s)	808, 1216
BstSLI	GKGCMC	1 cut(s)	1495
BstV1I	GCAGC	2 cut(s)	509, 824
BstZ17I	GTATAC	1 cut(s)	1236
BsuRI	GGCC	2 cut(s)	375, 902
BtgI	CCRYGG	1 cut(s)	1302
BtsCI	GGATG	5 cut(s)	30, 209, 568, 924, 1003
BtsIMutI	CAGTG	4 cut(s)	56, 835, 1493, 1685
Cac8I	GCNNGC	4 cut(s)	53, 168, 339, 904
Csp6I	GTAC	1 cut(s)	810
CviQI	GTAC	1 cut(s)	810
DdeI	CTNAG	3 cut(s)	324, 969, 1496
DpnI	GATC	4 cut(s)	388, 827, 1089, 1264
DpnII	GATC	4 cut(s)	386, 825, 1087, 1262
DraI	TTTAAA	1 cut(s)	469
Eam1104I	CTCTTC	2 cut(s)	986, 1587
EarI	CTCTTC	2 cut(s)	986, 1587
Eco130I	CCWWGG	3 cut(s)	94, 1254, 1302
Eco147I	AGGCCT	1 cut(s)	375
Eco31I	GGTCTC	1 cut(s)	591
EcoT14I	CCWWGG	3 cut(s)	94, 1254, 1302
EcoT22I	ATGCAT	2 cut(s)	888, 1367
ErhI	CCWWGG	3 cut(s)	94, 1254, 1302
Esp3I	CGTCTC	2 cut(s)	237, 1122
FauI	CCCGC	1 cut(s)	60
FbaI	TGATCA	2 cut(s)	825, 1087
FblI	GTMKAC	2 cut(s)	1235, 1332
Fnu4HI	GCNGC	2 cut(s)	523, 838
FokI	GGATG	5 cut(s)	17, 196, 575, 911, 1010
Fsp4HI	GCNGC	2 cut(s)	523, 838
FspBI	CTAG	3 cut(s)	282, 1545, 1668
GluI	GCNGC	2 cut(s)	523, 838
GsuI	CTGGAG	1 cut(s)	1194
HaeIII	GGCC	2 cut(s)	375, 902
HapII	CCGG	1 cut(s)	198
HinfI	GANTC	5 cut(s)	204, 1141, 1415, 1456, 1625
HpaII	CCGG	1 cut(s)	198
HphI	GGTGA	6 cut(s)	55, 545, 650, 1135, 1201, 1702
Hpy166II	GTNNAC	4 cut(s)	705, 1106, 1236, 1333
Hpy188I	TCNGA	7 cut(s)	747, 1011, 1035, 1140, 1267, 1536, 1630
Hpy188III	TCNNGA	5 cut(s)	429, 736, 947, 1348, 1668
Hpy8I	GTNNAC	4 cut(s)	705, 1106, 1236, 1333
HpyAV	CCTTC	5 cut(s)	136, 749, 1230, 1303, 1363
HpyCH4III	ACNGT	4 cut(s)	715, 873, 1398, 1553
HpyCH4IV	ACGT	2 cut(s)	405, 1232
HpyCH4V	TGCA	8 cut(s)	166, 630, 840, 863, 886, 906, 1365, 1470
HpyF10VI	GCNNNNNNNGC	1 cut(s)	1426
HpyF3I	CTNAG	3 cut(s)	324, 969, 1496
HpySE526I	ACGT	2 cut(s)	405, 1232
Ksp22I	TGATCA	2 cut(s)	825, 1087
Kzo9I	GATC	4 cut(s)	386, 825, 1087, 1262
LmnI	GCTCC	1 cut(s)	679
Lsp1109I	GCAGC	2 cut(s)	509, 824
LweI	GCATC	2 cut(s)	1240, 1397
MaeI	CTAG	3 cut(s)	282, 1545, 1668
MaeII	ACGT	2 cut(s)	405, 1232
MaeIII	GTNAC	7 cut(s)	3, 913, 1018, 1123, 1228, 1398, 1547
MalI	GATC	4 cut(s)	388, 827, 1089, 1264
MboI	GATC	4 cut(s)	386, 825, 1087, 1262
MboII	GAAGA	9 cut(s)	67, 125, 176, 211, 670, 787, 793, 1003, 1604
MfeI	CAATTG	1 cut(s)	1239
MhlI	GDGCHC	1 cut(s)	1495
MluCI	AATT	5 cut(s)	536, 930, 1239, 1245, 1662
MlyI	GAGTC	1 cut(s)	1634
MmeI	TCCRAC	3 cut(s)	465, 725, 1044
Mph1103I	ATGCAT	2 cut(s)	888, 1367
MroXI	GAANNNNTTC	1 cut(s)	872
MseI	TTAA	6 cut(s)	248, 423, 468, 786, 1446, 1611
MspI	CCGG	1 cut(s)	198
MunI	CAATTG	1 cut(s)	1239
MwoI	GCNNNNNNNGC	1 cut(s)	1426
NcoI	CCATGG	1 cut(s)	1302
NdeII	GATC	4 cut(s)	386, 825, 1087, 1262
NlaIV	GGNNCC	2 cut(s)	1323, 1533
NmuCI	GTSAC	4 cut(s)	3, 913, 1123, 1228
NsiI	ATGCAT	2 cut(s)	888, 1367
NspI	RCATGY	2 cut(s)	808, 1216
PceI	AGGCCT	1 cut(s)	375
PdmI	GAANNNNTTC	1 cut(s)	872
PfeI	GAWTC	4 cut(s)	204, 1141, 1415, 1456
PflMI	CCANNNNNTGG	1 cut(s)	40
PkrI	GCNGC	2 cut(s)	524, 839
PleI	GAGTC	1 cut(s)	1633
PpsI	GAGTC	1 cut(s)	1633
PshBI	ATTAAT	1 cut(s)	786
PsiI	TTATAA	1 cut(s)	1131
PspN4I	GGNNCC	2 cut(s)	1323, 1533
RsaI	GTAC	1 cut(s)	811
RsaNI	GTAC	1 cut(s)	810
SaqAI	TTAA	6 cut(s)	248, 423, 468, 786, 1446, 1611
SatI	GCNGC	2 cut(s)	523, 838
Sau3AI	GATC	4 cut(s)	386, 825, 1087, 1262
SchI	GAGTC	1 cut(s)	1634
SduI	GDGCHC	1 cut(s)	1495
SfaNI	GCATC	2 cut(s)	1240, 1397
Sse9I	AATT	5 cut(s)	536, 930, 1239, 1245, 1662
SseBI	AGGCCT	1 cut(s)	375
SsiI	CCGC	1 cut(s)	53
SspMI	CTAG	3 cut(s)	282, 1545, 1668
StuI	AGGCCT	1 cut(s)	375
StyI	CCWWGG	3 cut(s)	94, 1254, 1302
TaaI	ACNGT	4 cut(s)	715, 873, 1398, 1553
TaiI	ACGT	2 cut(s)	408, 1235
TaqI	TCGA	8 cut(s)	202, 428, 876, 946, 1100, 1162, 1261, 1556
TasI	AATT	5 cut(s)	536, 930, 1239, 1245, 1662
TfiI	GAWTC	4 cut(s)	204, 1141, 1415, 1456
Tru1I	TTAA	6 cut(s)	248, 423, 468, 786, 1446, 1611
Tru9I	TTAA	6 cut(s)	248, 423, 468, 786, 1446, 1611
TscAI	CASTG	4 cut(s)	63, 835, 1500, 1692
TseFI	GTSAC	4 cut(s)	3, 913, 1123, 1228
TseI	GCWGC	2 cut(s)	522, 837
Tsp45I	GTSAC	4 cut(s)	3, 913, 1123, 1228
TspDTI	ATGAA	9 cut(s)	118, 794, 869, 894, 1004, 1277, 1382, 1448, 1695
TspGWI	ACGGA	1 cut(s)	1104
TspRI	CASTG	4 cut(s)	63, 835, 1500, 1692
Van91I	CCANNNNNTGG	1 cut(s)	40
VspI	ATTAAT	1 cut(s)	786
XapI	RAATTY	1 cut(s)	1662
XbaI	TCTAGA	1 cut(s)	1667
XceI	RCATGY	2 cut(s)	808, 1216
XmiI	GTMKAC	2 cut(s)	1235, 1332
XmnI	GAANNNNTTC	1 cut(s)	872
XspI	CTAG	3 cut(s)	282, 1545, 1668
Zsp2I	ATGCAT	2 cut(s)	888, 1367

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