Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7A

Orthogroup ID

OG0001535

Physical Location & Seq

Genomic Coordinates Forward (+)

56727140 .. 56728369

Gene Structure 1230 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7AG421700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1230 bp

ATGACACACAATGGAGTTCTCCCTGATGCTGTTACTTACACAAGTATCCTTGATGGGCTTTTCAAAAATGGAATGGCTACAAAAGCCACGGGGGTATTCAGTTTAACACACTTGAAGGGTAAAGAGCCTAATAATGTAACATACAACGTTATGATTGATGGACTATGCAAGGAGGGGTTGATGGATGATGCTTTAAAGATCTTAGAAATGATGAAAGGGAAAGGTATGCCTGATGTAATTACTTGCAACACATTACTAATGGGACCATTCTGTGCTGGGAAGGTTGATGAGGCAATGAAACTTTTCAGTATGATAACAAATGATGAGAACTTTGTTGAACCGGATGTTATCACATATAACACGGTCATTTTGGGACTGTGCAAGGAAGGTAATCTTGATCAGGCTCTGGAGATTTATCATACAATGGTTGAAAGGGGCATTTCTGGTAGCTTATGTACTTACAATACTTTGATAGATAGATGCCTACAGGAAGGATTAGCTGACAAGGCCATAGAATTCTGGAGACATGCAGTGGACTTTGGAGTTATTCCCAACTCAATCACTTATGGTGTCATGATCAATGGATTTTGCAAAAATCAAATGTTCAGGGTTGCAAAAGGACTTTTTAGTAAAATGAGAGCTTCTTGGATTAGTTCTACTGTAAATAACTACAACTCTTTGATGTCATCGTTGTGCAAGGAGGGTAGTTTGGGGCAAGCTAGGTTGTTGTTTCAAGAATTGAGAACTGCAAATTATTTGCCTAGTGCTGTCTCATTTAATACCATGATTGACGGAATTCTAAAAGCTGGAGATATTAAATCTGCTAAAGAGTTGCTAGAGGATATGTTCAAATTGGGTTTAAGTCCTGATATAATTTCCTTCTCTACATTAGTAAACCGGTTTTCAAAACTTGGGCTCTTGGATGAGGCTAGAATGTGTGTTGAGAAGATGATTGCTTGTGGTATTGAACCTGATGTCTTTGTATTTGATTCTTTATTAAAGGGCTATAGTTCAAAAGGTGAAACAGAAGAAATTGTTAATTTGCTTCATCAGATGGCAGACAAGGGTGTTATTCTTGACAAAGAAATAACTTCTACCATCTTGGCATGCCTCTGTCAAATCTCTGACGATGTTGATGTGATGGAGGTTCTCCCAACTTTTTCCAAAAACACATCAAAAGGAATAAGCATTACCTGCAATGAGCTACTGATCAGAGTCAATAAATCTTAA

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

409

Amino Acids

45.04

Weight (kDa)

5.17

Isoelectric Point (pI)

22.39

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	1 - 53	6.9e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	4 - 33	6.5e-06	PPR repeat
PPR_2	PF13041	8 - 57	6.6e-13	PPR repeat family
TPR_24	PF23276	22 - 141	3e-06	Fungal tetratrico peptide repeats
PPR_1	PF12854	39 - 72	5e-13	PPR repeat
PPR_2	PF13041	43 - 87	2.3e-12	PPR repeat family
PPR	PF01535	46 - 75	3.1e-10	PPR repeat
PPR_1	PF12854	112 - 143	4.1e-11	PPR repeat
PPR_3	PF13812	112 - 161	1.6e-09	Pentatricopeptide repeat domain
PPR_2	PF13041	114 - 159	9.3e-15	PPR repeat family
PPR	PF01535	117 - 147	4.7e-08	PPR repeat
PPR_2	PF13041	152 - 198	2.4e-12	PPR repeat family
PPR_1	PF12854	181 - 213	1.2e-07	PPR repeat
PPR_long	PF17177	241 - 355	1.1e-07	Pentacotripeptide-repeat region of PRORP
PPR_2	PF13041	254 - 303	1.4e-12	PPR repeat family
PPR_2	PF13041	290 - 336	1e-05	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0001535)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G28010
fragaria_vesca	FvH4_3g35120 FvH4_3g35120 FvH4_3g35120 FvH4_3g35120 FvH4_3g35120 FvH4_5g33200 FvH4_5g33200 FvH4_5g33200
malus_domestica	MD08G1215500.v1.1 MD15G1399800.v1.1 MD15G1400000.v1.1
prunus_persica	Prupe.1G547200_v2.0.a1 Prupe.1G547200_v2.0.a1 Prupe.1G547200_v2.0.a1 Prupe.1G547200_v2.0.a1 Prupe.1G547200_v2.0.a1 Prupe.1G547200_v2.0.a1 Prupe.1G547200_v2.0.a1 Prupe.1G547200_v2.0.a1 Prupe.1G547200_v2.0.a1 Prupe.1G547200_v2.0.a1 Prupe.1G547200_v2.0.a1 Prupe.1G547200_v2.0.a1
pyrus_communis	pycom08g18660 pycom15g35860
rosa_chinensis	RchiOBHm_Chr5g0048941 RchiOBHm_Chr7g0231581
rosa_laevigata	RLG00000001411 RLG00000001412 RLG00000034570
rosa_multiflora	Rmu_sc0007946.1_g000003
rosa_roxburghii	Rroxscaffold_1G00032970 Rroxscaffold_3G00229080
rosa_rugosa	Rorug05G0241400 Rorug07G0267200 Rorug07G0267300
rosa_samantha	Rh5AG321400 Rh5CG357100 Rh5DG343500 Rh7AG421600 Rh7AG421700 Rh7AG421900 Rh7BG396300 Rh7CG441900 Rh7CG442200 Rh7DG414300
rosa_wichuraiana	Rw5G030330 Rw7G034790 Rw7G034880 Rw7G034900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	1202
AclI	AACGTT	1 cut(s)	147
AcsI	RAATTY	2 cut(s)	515, 795
AfaI	GTAC	1 cut(s)	457
AgeI	ACCGGT	1 cut(s)	897
AgsI	TTSAA	9 cut(s)	64, 115, 338, 431, 734, 850, 906, 968, 1014
AluBI	AGCT	6 cut(s)	450, 500, 641, 719, 806, 1204
AluI	AGCT	6 cut(s)	450, 500, 641, 719, 806, 1204
Alw26I	GTCTC	2 cut(s)	517, 775
AlwNI	CAGNNNCTG	1 cut(s)	406
AoxI	GGCC	1 cut(s)	507
ApoI	RAATTY	2 cut(s)	515, 795
AsiGI	ACCGGT	1 cut(s)	897
Asp700I	GAANNNNTTC	1 cut(s)	302
AspS9I	GGNCC	1 cut(s)	263
AsuHPI	GGTGA	1 cut(s)	1031
AvaII	GGWCC	1 cut(s)	263
BaeI	ACNNNNGTAYC	2 cut(s)	28, 61
BanII	GRGCYC	1 cut(s)	918
BccI	CCATC	6 cut(s)	47, 152, 175, 1048, 1106, 1135
BciVI	GTATCC	1 cut(s)	56
BclI	TGATCA	3 cut(s)	397, 576, 1209
BcoDI	GTCTC	2 cut(s)	517, 775
BfaI	CTAG	4 cut(s)	720, 762, 836, 930
BfmI	CTRYAG	2 cut(s)	485, 1006
BfuAI	ACCTGC	1 cut(s)	1202
BfuI	GTATCC	1 cut(s)	56
BglII	AGATCT	1 cut(s)	198
Bme18I	GGWCC	1 cut(s)	263
BmgT120I	GGNCC	1 cut(s)	263
BmiI	GGNNCC	1 cut(s)	264
BmsI	GCATC	3 cut(s)	16, 178, 470
BpmI	CTGGAG	3 cut(s)	428, 541, 828
BsaJI	CCNNGG	1 cut(s)	87
BsaWI	WCCGGW	2 cut(s)	340, 897
Bse118I	RCCGGY	1 cut(s)	897
Bse3DI	GCAATG	2 cut(s)	300, 1204
BseDI	CCNNGG	1 cut(s)	87
BseGI	GGATG	3 cut(s)	190, 349, 928
BseMI	GCAATG	2 cut(s)	300, 1204
BseYI	CCCAGC	1 cut(s)	275
BshFI	GGCC	1 cut(s)	509
BshTI	ACCGGT	1 cut(s)	897
BsiSI	CCGG	2 cut(s)	341, 898
BslFI	GGGAC	2 cut(s)	276, 387
BsmAI	GTCTC	2 cut(s)	517, 775
BsmFI	GGGAC	2 cut(s)	276, 387
BsnI	GGCC	1 cut(s)	509
Bsp1286I	GDGCHC	1 cut(s)	918
Bsp143I	GATC	4 cut(s)	198, 397, 576, 1209
BspANI	GGCC	1 cut(s)	509
BspHI	TCATGA	1 cut(s)	573
BspLI	GGNNCC	1 cut(s)	264
BspMI	ACCTGC	1 cut(s)	1202
BsrDI	GCAATG	2 cut(s)	300, 1204
BsrFI	RCCGGY	1 cut(s)	897
BssAI	RCCGGY	1 cut(s)	897
BssECI	CCNNGG	1 cut(s)	87
BssMI	GATC	4 cut(s)	198, 397, 576, 1209
Bst4CI	ACNGT	3 cut(s)	364, 378, 661
BstAPI	GCANNNNNTGC	1 cut(s)	1194
BstC8I	GCNNGC	2 cut(s)	717, 1108
BstDEI	CTNAG	1 cut(s)	202
BstDSI	CCRYGG	1 cut(s)	87
BstF5I	GGATG	3 cut(s)	190, 349, 928
BstKTI	GATC	4 cut(s)	201, 400, 579, 1212
BstMAI	GTCTC	2 cut(s)	517, 775
BstMBI	GATC	4 cut(s)	198, 397, 576, 1209
BstMWI	GCNNNNNNNGC	3 cut(s)	83, 506, 1194
BstNSI	RCATGY	2 cut(s)	530, 1110
BstSFI	CTRYAG	2 cut(s)	485, 1006
BstX2I	RGATCY	1 cut(s)	198
BstYI	RGATCY	1 cut(s)	198
BsuI	GTATCC	1 cut(s)	56
BsuRI	GGCC	1 cut(s)	509
BtgI	CCRYGG	1 cut(s)	87
BtsCI	GGATG	3 cut(s)	190, 349, 928
BtsI	GCAGTG	1 cut(s)	537
BtsIMutI	CAGTG	1 cut(s)	537
BveI	ACCTGC	1 cut(s)	1202
Cac8I	GCNNGC	2 cut(s)	717, 1108
CaiI	CAGNNNCTG	1 cut(s)	406
CciI	TCATGA	1 cut(s)	573
Cfr10I	RCCGGY	1 cut(s)	897
Cfr13I	GGNCC	1 cut(s)	263
Csp6I	GTAC	1 cut(s)	456
CspAI	ACCGGT	1 cut(s)	897
CviAII	CATG	4 cut(s)	527, 574, 784, 1107
CviQI	GTAC	1 cut(s)	456
DdeI	CTNAG	1 cut(s)	202
DpnI	GATC	4 cut(s)	200, 399, 578, 1211
DpnII	GATC	4 cut(s)	198, 397, 576, 1209
DraI	TTTAAA	1 cut(s)	195
Eco24I	GRGCYC	1 cut(s)	918
Eco47I	GGWCC	1 cut(s)	263
EcoRI	GAATTC	2 cut(s)	515, 795
EcoT38I	GRGCYC	1 cut(s)	918
FaeI	CATG	4 cut(s)	530, 577, 787, 1110
FalI	AAGNNNNNCTT	2 cut(s)	378, 410
FaqI	GGGAC	2 cut(s)	276, 387
FatI	CATG	4 cut(s)	526, 573, 783, 1106
FbaI	TGATCA	3 cut(s)	397, 576, 1209
FokI	GGATG	3 cut(s)	197, 356, 935
FriOI	GRGCYC	1 cut(s)	918
FspBI	CTAG	4 cut(s)	720, 762, 836, 930
GsaI	CCCAGC	1 cut(s)	279
GsuI	CTGGAG	3 cut(s)	428, 541, 828
HaeIII	GGCC	1 cut(s)	509
HapII	CCGG	2 cut(s)	341, 898
Hin1II	CATG	4 cut(s)	530, 577, 787, 1110
HinfI	GANTC	2 cut(s)	989, 1215
HpaII	CCGG	2 cut(s)	341, 898
HphI	GGTGA	1 cut(s)	1031
Hpy166II	GTNNAC	2 cut(s)	535, 895
Hpy188I	TCNGA	3 cut(s)	1053, 1126, 1214
Hpy188III	TCNNGA	7 cut(s)	395, 407, 520, 574, 734, 866, 1076
Hpy8I	GTNNAC	2 cut(s)	535, 895
HpyAV	CCTTC	5 cut(s)	109, 274, 380, 485, 889
HpyCH4III	ACNGT	3 cut(s)	364, 378, 661
HpyCH4IV	ACGT	1 cut(s)	147
HpyCH4V	TGCA	9 cut(s)	168, 246, 381, 530, 591, 614, 696, 749, 1197
HpyF10VI	GCNNNNNNNGC	3 cut(s)	83, 506, 1194
HpyF3I	CTNAG	1 cut(s)	202
HpySE526I	ACGT	1 cut(s)	147
Hsp92II	CATG	4 cut(s)	530, 577, 787, 1110
Ksp22I	TGATCA	3 cut(s)	397, 576, 1209
Kzo9I	GATC	4 cut(s)	198, 397, 576, 1209
LweI	GCATC	3 cut(s)	16, 178, 470
MaeI	CTAG	4 cut(s)	720, 762, 836, 930
MaeII	ACGT	1 cut(s)	147
MaeIII	GTNAC	2 cut(s)	31, 136
MalI	GATC	4 cut(s)	200, 399, 578, 1211
MboI	GATC	4 cut(s)	198, 397, 576, 1209
MboII	GAAGA	2 cut(s)	958, 1040
MflI	RGATCY	1 cut(s)	198
MhlI	GDGCHC	1 cut(s)	918
MluCI	AATT	9 cut(s)	237, 515, 737, 751, 795, 851, 873, 1032, 1039
MlyI	GAGTC	1 cut(s)	1224
MnlI	CCTC	7 cut(s)	166, 283, 694, 832, 919, 1121, 1138
MroXI	GAANNNNTTC	1 cut(s)	302
MseI	TTAA	8 cut(s)	104, 194, 777, 816, 860, 998, 1038, 1228
MslI	CAYNNNNRTG	1 cut(s)	691
MspI	CCGG	2 cut(s)	341, 898
MwoI	GCNNNNNNNGC	3 cut(s)	83, 506, 1194
NdeII	GATC	4 cut(s)	198, 397, 576, 1209
NlaIII	CATG	4 cut(s)	530, 577, 787, 1110
NlaIV	GGNNCC	1 cut(s)	264
NspI	RCATGY	2 cut(s)	530, 1110
PaeI	GCATGC	1 cut(s)	1110
PagI	TCATGA	1 cut(s)	573
PdmI	GAANNNNTTC	1 cut(s)	302
PfeI	GAWTC	1 cut(s)	989
PinAI	ACCGGT	1 cut(s)	897
PleI	GAGTC	1 cut(s)	1223
PpsI	GAGTC	1 cut(s)	1223
Psp1406I	AACGTT	1 cut(s)	147
PspFI	CCCAGC	1 cut(s)	275
PspN4I	GGNNCC	1 cut(s)	264
PspPI	GGNCC	1 cut(s)	263
PstNI	CAGNNNCTG	1 cut(s)	406
PsuI	RGATCY	1 cut(s)	198
RsaI	GTAC	1 cut(s)	457
RsaNI	GTAC	1 cut(s)	456
RseI	CAYNNNNRTG	1 cut(s)	691
SaqAI	TTAA	8 cut(s)	104, 194, 777, 816, 860, 998, 1038, 1228
Sau3AI	GATC	4 cut(s)	198, 397, 576, 1209
Sau96I	GGNCC	1 cut(s)	263
SchI	GAGTC	1 cut(s)	1224
SduI	GDGCHC	1 cut(s)	918
SfaNI	GCATC	3 cut(s)	16, 178, 470
SfcI	CTRYAG	2 cut(s)	485, 1006
SinI	GGWCC	1 cut(s)	263
SmiMI	CAYNNNNRTG	1 cut(s)	691
SphI	GCATGC	1 cut(s)	1110
Sse9I	AATT	9 cut(s)	237, 515, 737, 751, 795, 851, 873, 1032, 1039
SspMI	CTAG	4 cut(s)	720, 762, 836, 930
TaaI	ACNGT	3 cut(s)	364, 378, 661
TaiI	ACGT	1 cut(s)	150
TasI	AATT	9 cut(s)	237, 515, 737, 751, 795, 851, 873, 1032, 1039
TatI	WGTACW	1 cut(s)	455
TfiI	GAWTC	1 cut(s)	989
Tru1I	TTAA	8 cut(s)	104, 194, 777, 816, 860, 998, 1038, 1228
Tru9I	TTAA	8 cut(s)	104, 194, 777, 816, 860, 998, 1038, 1228
TscAI	CASTG	1 cut(s)	537
TspDTI	ATGAA	3 cut(s)	227, 311, 1037
TspGWI	ACGGA	1 cut(s)	807
TspRI	CASTG	1 cut(s)	537
VpaK11BI	GGWCC	1 cut(s)	263
XapI	RAATTY	2 cut(s)	515, 795
XceI	RCATGY	2 cut(s)	530, 1110
XmnI	GAANNNNTTC	1 cut(s)	302
XspI	CTAG	4 cut(s)	720, 762, 836, 930

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