Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0001513

Physical Location & Seq

Genomic Coordinates Reverse (-)

10443327 .. 10447276

Gene Structure 3950 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00088540.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1188 bp

ATGCTACAGAGCAACAGAGCTATTCAATCGCACTCTGGGTCCCGACCCGTTTCCGATTCGGACTCAGAAATGTCCACCACTTTACGACCCGAACAACTGGCCGTCCTTCACCACCCCGCTCAAAGAAACCATCTTTACCTCGTAACCGAAATCTTCAAACTCGCCATTGCTTCCAAAATTCAACCCTTAAACTCAAATTACTATCTCACTGTTGCCCAGGCCTTTGCAAAAGCAGGTGATTGTGTTGTGGAGCTGCTCAATTTCACCGAGCAAGTACTGGAACTGACCCAACCGAGCATGACAGCAATAAACAGACTTCTCTTTGCATTTGGTCAATGCAAAGTGACTGATAATGCAATTTTGATCTTTGCCCTGGTGAAAGATCGAAACTTTACACCGGATTTGTACACATACAACACTGTTTTCGAGATATTGGGCCGGGCGGGTCGTACAGGTAAAATGCTGGGGCTGTTTGGGGAAATGAAGGAAGCTGGGATTGACCCGGATTTAGTTTCTTACAATACAGTGATAAGCCGTGTGAGGAAGTTTGGGGAGGTTGATATGTGCTTGTTCTATTTCAAGGAAATGTGTGAAAAGGGTGTTCAGCGTGATTTGCGTACTTACACTGCAGTAATTGATGGGTTGGGGAGGTCAGGAAATATTGAGGAGTCATTGAGGTTCTTCGGTGAGATGAAGGAGAGGCGGATTCAGCCTTCGTTGTATCTTTATAGAGAAGTGATCAGTAATTTGAAGAAGATGGGTAAGGTGGAGATGGCAGTGACTTTCATGGAGGTGATGAATTCATGCGCTTCAAGTCTTGCTTGTCCTAAATGGAATAAACATTACAGTGGATTGAGATCTGAATACATGTTCTCCTTGGAGCTGCCAAGCATTGTCTCAGCATGCTACTGTAGCTGTGATGGTGGTAGACATTCCTGTAGGAGTAGGAGTCGAAGCCGCAGTAGAAGCAGGAGTAGAAGTCGGAGCTTACAAGCTGGCACTGCTCCTCATGTAAGCCTGCCGAGAGATGTAAACAAGGATAGAGCATCTGTATCTAGCAATCTGGCAAAACTTAGGGATCTTTATGGTGATGTGAGTGTCCAAAAAGGGGATACTAGTATGGATACAATTCCCAGGAGTGATAATGGTGCTGAAGTGCTTAGGCTTGGTGGTCACCAATGGAAATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0006950 GO:0006970 GO:0008150 GO:0009628 GO:0009651 GO:0010035 GO:0010038 GO:0010226 GO:0032991 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0050896 GO:0071011 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

PRP38 PRP38_assoc

Protein Analysis

395

Amino Acids

44.37

Weight (kDa)

9.14

Isoelectric Point (pI)

56.75

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_long	PF17177	118 - 276	8.1e-06	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	122 - 178	1.5e-08	Pentatricopeptide repeat domain
PPR_2	PF13041	133 - 178	4.9e-10	PPR repeat family
PPR_2	PF13041	168 - 216	1.9e-09	PPR repeat family
PPR_3	PF13812	193 - 247	1.4e-07	Pentatricopeptide repeat domain
PPR_1	PF12854	199 - 232	2.9e-07	PPR repeat
PPR_2	PF13041	204 - 244	1.5e-07	PPR repeat family
PPR	PF01535	207 - 236	1.4e-07	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001513)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G11900
fragaria_vesca	FvH4_6g24020 FvH4_6g44590 FvH4_6g44590 FvH4_6g44590 FvH4_6g44590 FvH4_6g44590 FvH4_6g44670 FvH4_6g44670 FvH4_6g44670
malus_domestica	MD14G1065400.v1.1 MD17G1084400.v1.1
prunus_persica	Prupe.3G231200_v2.0.a1
pyrus_communis	pycom17g08150
rosa_chinensis	RchiOBHm_Chr1g0342741 RchiOBHm_Chr1g0342831 RchiOBHm_Chr2g0161831
rosa_laevigata	RLG00000021301 RLG00000029118 RLG00000029172 RLG00000029191
rosa_multiflora	Rmu_co8023038.1_g000001 Rmu_sc0001993.1_g000024 Rmu_sc0004502.1_g000002 Rmu_sc0011563.1_g000011
rosa_roxburghii	Rroxscaffold_2G00088520 Rroxscaffold_2G00088540 Rroxscaffold_2G00118030 Rroxscaffold_3G00231880 Rroxscaffold_4G00313190 Rroxscaffold_4G00313220 Rroxscaffold_7G00197130
rosa_rugosa	Rorug01G0146200.1 Rorug02G0492600
rosa_samantha	Rh1AG162400 Rh1AG162900 Rh1AG163800 Rh1AG164600 Rh1BG129700 Rh1CG152900 Rh1CG153400 Rh2AG558200 Rh2AG558300 Rh2CG541900 Rh2CG542300 Rh2DG581000 Rh2DG581900 Rh3CG249700
rosa_wichuraiana	Rw1G013300 Rw1G013340 Rw1G013680

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	224
Acc36I	ACCTGC	1 cut(s)	224
AccBSI	CCGCTC	1 cut(s)	119
AccI	GTMKAC	1 cut(s)	928
AciI	CCGC	4 cut(s)	117, 443, 703, 958
AclWI	GGATC	1 cut(s)	1086
AcoI	YGGCCR	1 cut(s)	99
AcsI	RAATTY	2 cut(s)	177, 799
AcuI	CTGAAG	1 cut(s)	1173
AfaI	GTAC	4 cut(s)	276, 407, 451, 619
AfiI	CCNNNNNNNGG	1 cut(s)	1108
AflIII	ACRYGT	1 cut(s)	867
AgsI	TTSAA	6 cut(s)	26, 157, 182, 580, 751, 813
AhlI	ACTAGT	1 cut(s)	1115
AjnI	CCWGG	3 cut(s)	216, 372, 1133
AluBI	AGCT	7 cut(s)	20, 253, 491, 883, 915, 987, 995
AluI	AGCT	7 cut(s)	20, 253, 491, 883, 915, 987, 995
Alw26I	GTCTC	1 cut(s)	901
AlwI	GGATC	1 cut(s)	1086
AoxI	GGCC	3 cut(s)	99, 219, 436
ApeKI	GCWGC	2 cut(s)	253, 883
ApoI	RAATTY	2 cut(s)	177, 799
AspLEI	GCGC	1 cut(s)	809
AspS9I	GGNCC	2 cut(s)	39, 436
AsuC2I	CCSGG	2 cut(s)	440, 503
AsuHPI	GGTGA	8 cut(s)	101, 248, 256, 388, 698, 805, 1100, 1166
AvaII	GGWCC	1 cut(s)	39
BbvI	GCAGC	2 cut(s)	240, 870
BccI	CCATC	5 cut(s)	138, 632, 751, 766, 914
BceAI	ACGGC	2 cut(s)	86, 519
BciT130I	CCWGG	3 cut(s)	218, 374, 1135
BciVI	GTATCC	2 cut(s)	1105, 1117
BclI	TGATCA	1 cut(s)	738
BcnI	CCSGG	2 cut(s)	440, 503
BcoDI	GTCTC	1 cut(s)	901
BcuI	ACTAGT	1 cut(s)	1115
BfaI	CTAG	2 cut(s)	1056, 1116
BfmI	CTRYAG	4 cut(s)	5, 627, 910, 937
BfuAI	ACCTGC	1 cut(s)	224
BfuI	GTATCC	2 cut(s)	1105, 1117
BglII	AGATCT	1 cut(s)	857
BisI	GCNGC	3 cut(s)	254, 884, 958
BlsI	GCNGC	3 cut(s)	255, 885, 959
BmcAI	AGTACT	1 cut(s)	276
Bme1390I	CCNGG	5 cut(s)	218, 374, 440, 503, 1135
Bme18I	GGWCC	1 cut(s)	39
BmgT120I	GGNCC	2 cut(s)	39, 436
BmiI	GGNNCC	2 cut(s)	40, 41
BmrFI	CCNGG	5 cut(s)	218, 374, 440, 503, 1135
BmsI	GCATC	1 cut(s)	1055
Bpu10I	CCTNAGC	1 cut(s)	1160
BpuMI	CCSGG	2 cut(s)	440, 503
BsaBI	GATNNNNATC	1 cut(s)	856
BsaJI	CCNNGG	4 cut(s)	216, 372, 876, 1133
BsaWI	WCCGGW	1 cut(s)	397
BsaXI	ACNNNNNCTCC	6 cut(s)	857, 887, 934, 964, 964, 994
Bsc4I	CCNNNNNNNGG	1 cut(s)	1108
Bse1I	ACTGG	2 cut(s)	102, 282
Bse3DI	GCAATG	1 cut(s)	165
Bse8I	GATNNNNATC	1 cut(s)	856
BseBI	CCWGG	3 cut(s)	218, 374, 1135
BseDI	CCNNGG	4 cut(s)	216, 372, 876, 1133
BseJI	GATNNNNATC	1 cut(s)	856
BseLI	CCNNNNNNNGG	1 cut(s)	1108
BseMI	GCAATG	1 cut(s)	165
BseMII	CTCAG	2 cut(s)	78, 912
BseNI	ACTGG	2 cut(s)	102, 282
BseRI	GAGGAG	2 cut(s)	680, 996
BseXI	GCAGC	2 cut(s)	240, 870
BseYI	CCCAGC	2 cut(s)	463, 491
BshFI	GGCC	3 cut(s)	101, 221, 438
BsiSI	CCGG	3 cut(s)	398, 439, 503
BslFI	GGGAC	1 cut(s)	25
BslI	CCNNNNNNNGG	1 cut(s)	1108
BsmAI	GTCTC	1 cut(s)	901
BsmFI	GGGAC	1 cut(s)	25
BsnI	GGCC	3 cut(s)	101, 221, 438
Bsp1407I	TGTACA	1 cut(s)	405
Bsp143I	GATC	5 cut(s)	363, 382, 738, 857, 1078
BspACI	CCGC	4 cut(s)	117, 443, 703, 958
BspANI	GGCC	3 cut(s)	101, 221, 438
BspCNI	CTCAG	2 cut(s)	77, 911
BspLI	GGNNCC	2 cut(s)	40, 41
BspMAI	CTGCAG	1 cut(s)	631
BspMI	ACCTGC	1 cut(s)	224
BspPI	GGATC	1 cut(s)	1086
BsrBI	CCGCTC	1 cut(s)	119
BsrDI	GCAATG	1 cut(s)	165
BsrGI	TGTACA	1 cut(s)	405
BsrI	ACTGG	2 cut(s)	102, 282
BssECI	CCNNGG	4 cut(s)	216, 372, 876, 1133
BssMI	GATC	5 cut(s)	363, 382, 738, 857, 1078
BssT1I	CCWWGG	1 cut(s)	876
Bst2UI	CCWGG	3 cut(s)	218, 374, 1135
Bst4CI	ACNGT	5 cut(s)	211, 421, 526, 848, 911
BstAUI	TGTACA	1 cut(s)	405
BstC8I	GCNNGC	3 cut(s)	904, 997, 1019
BstDEI	CTNAG	4 cut(s)	64, 898, 1073, 1160
BstEII	GGTNACC	1 cut(s)	1172
BstHHI	GCGC	1 cut(s)	809
BstKTI	GATC	5 cut(s)	366, 385, 741, 860, 1081
BstMAI	GTCTC	1 cut(s)	901
BstMBI	GATC	5 cut(s)	363, 382, 738, 857, 1078
BstMWI	GCNNNNNNNGC	5 cut(s)	613, 709, 912, 966, 1001
BstNI	CCWGG	3 cut(s)	218, 374, 1135
BstNSI	RCATGY	2 cut(s)	871, 906
BstPI	GGTNACC	1 cut(s)	1172
BstSCI	CCNGG	5 cut(s)	216, 372, 438, 501, 1133
BstSFI	CTRYAG	4 cut(s)	5, 627, 910, 937
BstV1I	GCAGC	2 cut(s)	240, 870
BstX2I	RGATCY	2 cut(s)	857, 1078
BstYI	RGATCY	2 cut(s)	857, 1078
BsuI	GTATCC	2 cut(s)	1105, 1117
BsuRI	GGCC	3 cut(s)	101, 221, 438
BtsI	GCAGTG	3 cut(s)	624, 783, 999
BtsIMutI	CAGTG	7 cut(s)	207, 417, 531, 624, 783, 853, 999
BveI	ACCTGC	1 cut(s)	224
Cac8I	GCNNGC	3 cut(s)	904, 997, 1019
CfoI	GCGC	1 cut(s)	809
Cfr13I	GGNCC	2 cut(s)	39, 436
Csp6I	GTAC	4 cut(s)	275, 406, 450, 618
CviAII	CATG	6 cut(s)	298, 787, 804, 868, 903, 1010
CviQI	GTAC	4 cut(s)	275, 406, 450, 618
DdeI	CTNAG	4 cut(s)	64, 898, 1073, 1160
DpnI	GATC	5 cut(s)	365, 384, 740, 859, 1080
DpnII	GATC	5 cut(s)	363, 382, 738, 857, 1078
EaeI	YGGCCR	1 cut(s)	99
EciI	GGCGGA	1 cut(s)	718
Eco130I	CCWWGG	1 cut(s)	876
Eco147I	AGGCCT	1 cut(s)	221
Eco47I	GGWCC	1 cut(s)	39
Eco57I	CTGAAG	1 cut(s)	1173
Eco91I	GGTNACC	1 cut(s)	1172
EcoO109I	RGGNCCY	1 cut(s)	39
EcoO65I	GGTNACC	1 cut(s)	1172
EcoRI	GAATTC	1 cut(s)	799
EcoRII	CCWGG	3 cut(s)	216, 372, 1133
EcoT14I	CCWWGG	1 cut(s)	876
ErhI	CCWWGG	1 cut(s)	876
FaeI	CATG	6 cut(s)	301, 790, 807, 871, 906, 1013
FalI	AAGNNNNNCTT	2 cut(s)	805, 837
FaqI	GGGAC	1 cut(s)	25
FatI	CATG	6 cut(s)	297, 786, 803, 867, 902, 1009
FauI	CCCGC	2 cut(s)	124, 436
FbaI	TGATCA	1 cut(s)	738
FblI	GTMKAC	1 cut(s)	928
Fnu4HI	GCNGC	3 cut(s)	254, 884, 958
Fsp4HI	GCNGC	3 cut(s)	254, 884, 958
FspBI	CTAG	2 cut(s)	1056, 1116
GlaI	GCGC	1 cut(s)	808
GluI	GCNGC	3 cut(s)	254, 884, 958
GsaI	CCCAGC	2 cut(s)	467, 495
HaeIII	GGCC	3 cut(s)	101, 221, 438
HapII	CCGG	3 cut(s)	398, 439, 503
HhaI	GCGC	1 cut(s)	809
Hin1II	CATG	6 cut(s)	301, 790, 807, 871, 906, 1013
Hin6I	GCGC	1 cut(s)	807
HinP1I	GCGC	1 cut(s)	807
HinfI	GANTC	5 cut(s)	56, 62, 668, 706, 949
HpaII	CCGG	3 cut(s)	398, 439, 503
HphI	GGTGA	8 cut(s)	101, 248, 256, 388, 698, 805, 1100, 1166
Hpy166II	GTNNAC	4 cut(s)	75, 408, 929, 1033
Hpy188I	TCNGA	5 cut(s)	55, 61, 67, 862, 984
Hpy188III	TCNNGA	3 cut(s)	42, 427, 654
Hpy8I	GTNNAC	4 cut(s)	75, 408, 929, 1033
HpyAV	CCTTC	4 cut(s)	116, 478, 688, 723
HpyCH4III	ACNGT	5 cut(s)	211, 421, 526, 848, 911
HpyCH4V	TGCA	5 cut(s)	227, 326, 339, 356, 629
HpyF10VI	GCNNNNNNNGC	5 cut(s)	613, 709, 912, 966, 1001
HpyF3I	CTNAG	4 cut(s)	64, 898, 1073, 1160
Hsp92II	CATG	6 cut(s)	301, 790, 807, 871, 906, 1013
HspAI	GCGC	1 cut(s)	807
KflI	GGGWCCC	1 cut(s)	39
Ksp22I	TGATCA	1 cut(s)	738
Kzo9I	GATC	5 cut(s)	363, 382, 738, 857, 1078
LmnI	GCTCC	4 cut(s)	250, 880, 984, 1009
Lsp1109I	GCAGC	2 cut(s)	240, 870
LweI	GCATC	1 cut(s)	1055
MaeI	CTAG	2 cut(s)	1056, 1116
MaeIII	GTNAC	4 cut(s)	142, 343, 778, 1172
MalI	GATC	5 cut(s)	365, 384, 740, 859, 1080
MbiI	CCGCTC	1 cut(s)	119
MboI	GATC	5 cut(s)	363, 382, 738, 857, 1078
MboII	GAAGA	4 cut(s)	145, 673, 763, 766
MflI	RGATCY	2 cut(s)	857, 1078
MluCI	AATT	8 cut(s)	177, 196, 259, 357, 633, 745, 799, 1128
MlyI	GAGTC	3 cut(s)	56, 677, 958
MmeI	TCCRAC	1 cut(s)	962
MnlI	CCTC	9 cut(s)	149, 534, 547, 642, 658, 669, 693, 784, 1017
MseI	TTAA	1 cut(s)	188
MslI	CAYNNNNRTG	2 cut(s)	791, 846
MspI	CCGG	3 cut(s)	398, 439, 503
MspR9I	CCNGG	5 cut(s)	218, 374, 440, 503, 1135
MvaI	CCWGG	3 cut(s)	218, 374, 1135
MwoI	GCNNNNNNNGC	5 cut(s)	613, 709, 912, 966, 1001
NciI	CCSGG	2 cut(s)	440, 503
NdeII	GATC	5 cut(s)	363, 382, 738, 857, 1078
NlaIII	CATG	6 cut(s)	301, 790, 807, 871, 906, 1013
NlaIV	GGNNCC	2 cut(s)	40, 41
NmeAIII	GCCGAG	1 cut(s)	1047
NmuCI	GTSAC	3 cut(s)	343, 778, 1172
NspI	RCATGY	2 cut(s)	871, 906
PaeI	GCATGC	1 cut(s)	906
PaqCI	CACCTGC	1 cut(s)	224
PceI	AGGCCT	1 cut(s)	221
PciI	ACATGT	1 cut(s)	867
PfeI	GAWTC	2 cut(s)	56, 706
PkrI	GCNGC	3 cut(s)	255, 885, 959
PleI	GAGTC	3 cut(s)	56, 676, 957
PpsI	GAGTC	3 cut(s)	56, 676, 957
PpuMI	RGGWCCY	1 cut(s)	39
PscI	ACATGT	1 cut(s)	867
Psp5II	RGGWCCY	1 cut(s)	39
Psp6I	CCWGG	3 cut(s)	216, 372, 1133
PspEI	GGTNACC	1 cut(s)	1172
PspFI	CCCAGC	2 cut(s)	463, 491
PspGI	CCWGG	3 cut(s)	216, 372, 1133
PspN4I	GGNNCC	2 cut(s)	40, 41
PspPI	GGNCC	2 cut(s)	39, 436
PspPPI	RGGWCCY	1 cut(s)	39
PstI	CTGCAG	1 cut(s)	631
PsuI	RGATCY	2 cut(s)	857, 1078
RsaI	GTAC	4 cut(s)	276, 407, 451, 619
RsaNI	GTAC	4 cut(s)	275, 406, 450, 618
RseI	CAYNNNNRTG	2 cut(s)	791, 846
SaqAI	TTAA	1 cut(s)	188
SatI	GCNGC	3 cut(s)	254, 884, 958
Sau3AI	GATC	5 cut(s)	363, 382, 738, 857, 1078
Sau96I	GGNCC	2 cut(s)	39, 436
ScaI	AGTACT	1 cut(s)	276
SchI	GAGTC	3 cut(s)	56, 677, 958
ScrFI	CCNGG	5 cut(s)	218, 374, 440, 503, 1135
SfaNI	GCATC	1 cut(s)	1055
SfcI	CTRYAG	4 cut(s)	5, 627, 910, 937
SinI	GGWCC	1 cut(s)	39
SmiMI	CAYNNNNRTG	2 cut(s)	791, 846
SpeI	ACTAGT	1 cut(s)	1115
SphI	GCATGC	1 cut(s)	906
Sse9I	AATT	8 cut(s)	177, 196, 259, 357, 633, 745, 799, 1128
SseBI	AGGCCT	1 cut(s)	221
SsiI	CCGC	4 cut(s)	117, 443, 703, 958
SspI	AATATT	1 cut(s)	661
SspMI	CTAG	2 cut(s)	1056, 1116
StuI	AGGCCT	1 cut(s)	221
StyD4I	CCNGG	5 cut(s)	216, 372, 438, 501, 1133
StyI	CCWWGG	1 cut(s)	876
TaaI	ACNGT	5 cut(s)	211, 421, 526, 848, 911
TaqI	TCGA	3 cut(s)	385, 426, 952
TasI	AATT	8 cut(s)	177, 196, 259, 357, 633, 745, 799, 1128
TatI	WGTACW	2 cut(s)	274, 405
TauI	GCSGC	1 cut(s)	960
TfiI	GAWTC	2 cut(s)	56, 706
Tru1I	TTAA	1 cut(s)	188
Tru9I	TTAA	1 cut(s)	188
TscAI	CASTG	7 cut(s)	214, 424, 531, 631, 783, 853, 1006
TseFI	GTSAC	3 cut(s)	343, 778, 1172
TseI	GCWGC	2 cut(s)	253, 883
Tsp45I	GTSAC	3 cut(s)	343, 778, 1172
TspDTI	ATGAA	5 cut(s)	497, 707, 775, 792, 812
TspRI	CASTG	7 cut(s)	214, 424, 531, 631, 783, 853, 1006
VpaK11BI	GGWCC	1 cut(s)	39
XapI	RAATTY	2 cut(s)	177, 799
XceI	RCATGY	2 cut(s)	871, 906
XmiI	GTMKAC	1 cut(s)	928
XspI	CTAG	2 cut(s)	1056, 1116
ZrmI	AGTACT	1 cut(s)	276

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