Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0001513

Physical Location & Seq

Genomic Coordinates Reverse (-)

33288522 .. 33289486

Gene Structure 965 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000029118

Sequence Viewer

CDS Protein Promoter (2k)

Length: 894 bp

ATGCCACAGAGCAGCAGAGCTATTCAAACCCCCTCTGGGTCCCGACCAGTTTCCGTTTCGGATTCAGAAATCTCCACCACTTCCCTACCCGAACAACCGGCCATCACTACCTTAACTTCATCCATCAACCACACTCACCCCTCTTCTGAATCACAACAACAAACACTAGTGACCCAAATTCTCTCCACCATTGAAAACGCCCCTACATTATTTCAATCCTTACATAACAAACGCATCTTCCTAAACCCCAAATCTTTCAACCGCATTTTTATCTCAGCCGCTCAAAGAAACCATCTTTACCTCGTAACCCAAATCTTCAAGCACGCAATTGCTTCCAAAATTCAACCTTTAAACTCAAATTGTTATCTCACTGTAGCCGAAGCCTGTGCAAGAGCAGATGATTGTGTTGTGGAGCTGCTCAGTTTTACCGAGCATGTATTGGAATTGACCCAACCGAGCATGACAGTGAAAGATCGAAACTTTACTCCGGATATGTACACATACAACACTGTTATTGAGATATTAGGCCGGGCGGGTCAGATAGGTGAGATACTGGGGCTGTTTGGGGAAATGAAGGAAGCTGGGATTGACCCGGATTTGGTTTCTTACAATACAGTGATAAACCATGTGAGGAAGTTTGGAGAAGTTGATATGTGCTTGTTTTATTTCAAGGAAATGTGTGAAAAAGGTGTTCAGCCTGATTTGCTTACTTACATTGCAGTCATTGATGGGTTGGGGAGGTCAGGAGACATTGAGGAGTCGTTGAAGTTGTTTGGTGAGATGAAGGAGAGGCGGATTCGGCCTTCATTGTATCTTTATAGAGCAGTGATTAGTAATTTGAAGAAGATGGGGAAGGTGGAGATGGCGGCGAGTTTTATGGAGGAGATGAATTAG

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

298

Amino Acids

33.28

Weight (kDa)

5.84

Isoelectric Point (pI)

46.8

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	156 - 209	2.1e-09	Pentatricopeptide repeat domain
PPR_2	PF13041	163 - 209	3.5e-12	PPR repeat family
PPR_long	PF17177	165 - 287	8.5e-06	Pentacotripeptide-repeat region of PRORP
PPR	PF01535	166 - 196	1.4e-06	PPR repeat
PPR_2	PF13041	198 - 246	4.5e-11	PPR repeat family
PPR_3	PF13812	223 - 278	2.1e-09	Pentatricopeptide repeat domain
PPR_1	PF12854	229 - 262	4.3e-07	PPR repeat
PPR_2	PF13041	237 - 280	1.5e-07	PPR repeat family
PPR	PF01535	237 - 266	3.7e-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)
AccBSI	CCGCTC	1 cut(s)	281
AccIII	TCCGGA	1 cut(s)	487
AciI	CCGC	5 cut(s)	262, 279, 533, 793, 866
AcoI	YGGCCR	1 cut(s)	99
AcsI	RAATTY	2 cut(s)	177, 339
AfaI	GTAC	1 cut(s)	497
AfiI	CCNNNNNNNGG	2 cut(s)	36, 598
AgsI	TTSAA	9 cut(s)	26, 194, 215, 259, 319, 344, 670, 766, 841
AhlI	ACTAGT	1 cut(s)	166
AluBI	AGCT	3 cut(s)	20, 415, 581
AluI	AGCT	3 cut(s)	20, 415, 581
Alw26I	GTCTC	1 cut(s)	741
Aor13HI	TCCGGA	1 cut(s)	487
AoxI	GGCC	3 cut(s)	99, 526, 800
ApeKI	GCWGC	2 cut(s)	12, 415
ApoI	RAATTY	2 cut(s)	177, 339
AspS9I	GGNCC	1 cut(s)	39
AsuC2I	CCSGG	2 cut(s)	530, 593
AsuHPI	GGTGA	3 cut(s)	128, 557, 788
AvaII	GGWCC	1 cut(s)	39
BbvI	GCAGC	2 cut(s)	24, 402
BccI	CCATC	6 cut(s)	110, 131, 300, 722, 841, 856
BcgI	CGANNNNNNTGC	2 cut(s)	368, 402
BcnI	CCSGG	2 cut(s)	530, 593
BcoDI	GTCTC	1 cut(s)	741
BcuI	ACTAGT	1 cut(s)	166
BfaI	CTAG	1 cut(s)	167
BfmI	CTRYAG	1 cut(s)	372
BisI	GCNGC	4 cut(s)	13, 279, 416, 867
BlsI	GCNGC	4 cut(s)	14, 280, 417, 868
Bme1390I	CCNGG	2 cut(s)	530, 593
Bme18I	GGWCC	1 cut(s)	39
BmgT120I	GGNCC	1 cut(s)	39
BmiI	GGNNCC	2 cut(s)	40, 41
BmrFI	CCNGG	2 cut(s)	530, 593
BmrI	ACTGGG	1 cut(s)	563
BmsI	GCATC	1 cut(s)	243
BmuI	ACTGGG	1 cut(s)	563
BpuMI	CCSGG	2 cut(s)	530, 593
BsaWI	WCCGGW	1 cut(s)	487
Bsc4I	CCNNNNNNNGG	2 cut(s)	36, 598
Bse118I	RCCGGY	1 cut(s)	97
Bse1I	ACTGG	2 cut(s)	47, 558
Bse3DI	GCAATG	1 cut(s)	714
BseAI	TCCGGA	1 cut(s)	487
BseGI	GGATG	1 cut(s)	119
BseLI	CCNNNNNNNGG	2 cut(s)	36, 598
BseMI	GCAATG	1 cut(s)	714
BseMII	CTCAG	2 cut(s)	288, 433
BseNI	ACTGG	2 cut(s)	47, 558
BseRI	GAGGAG	1 cut(s)	770
BseXI	GCAGC	2 cut(s)	24, 402
BseYI	CCCAGC	1 cut(s)	581
BshFI	GGCC	3 cut(s)	101, 528, 802
BsiSI	CCGG	4 cut(s)	98, 488, 529, 593
BslFI	GGGAC	1 cut(s)	25
BslI	CCNNNNNNNGG	2 cut(s)	36, 598
BsmAI	GTCTC	1 cut(s)	741
BsmFI	GGGAC	1 cut(s)	25
BsnI	GGCC	3 cut(s)	101, 528, 802
Bsp13I	TCCGGA	1 cut(s)	487
Bsp1407I	TGTACA	1 cut(s)	495
Bsp143I	GATC	1 cut(s)	472
BspACI	CCGC	5 cut(s)	262, 279, 533, 793, 866
BspANI	GGCC	3 cut(s)	101, 528, 802
BspCNI	CTCAG	2 cut(s)	287, 432
BspEI	TCCGGA	1 cut(s)	487
BspLI	GGNNCC	2 cut(s)	40, 41
BsrBI	CCGCTC	1 cut(s)	281
BsrDI	GCAATG	1 cut(s)	714
BsrFI	RCCGGY	1 cut(s)	97
BsrGI	TGTACA	1 cut(s)	495
BsrI	ACTGG	2 cut(s)	47, 558
BssAI	RCCGGY	1 cut(s)	97
BssMI	GATC	1 cut(s)	472
Bst4CI	ACNGT	4 cut(s)	373, 466, 511, 616
Bst6I	CTCTTC	1 cut(s)	148
BstAUI	TGTACA	1 cut(s)	495
BstC8I	GCNNGC	1 cut(s)	324
BstDEI	CTNAG	2 cut(s)	274, 419
BstF5I	GGATG	1 cut(s)	119
BstKTI	GATC	1 cut(s)	475
BstMAI	GTCTC	1 cut(s)	741
BstMBI	GATC	1 cut(s)	472
BstMWI	GCNNNNNNNGC	2 cut(s)	703, 799
BstNSI	RCATGY	1 cut(s)	437
BstSCI	CCNGG	2 cut(s)	528, 591
BstSFI	CTRYAG	1 cut(s)	372
BstV1I	GCAGC	2 cut(s)	24, 402
BsuRI	GGCC	3 cut(s)	101, 528, 802
BtsCI	GGATG	1 cut(s)	119
BtsI	GCAGTG	1 cut(s)	831
BtsIMutI	CAGTG	5 cut(s)	369, 471, 507, 621, 831
Cac8I	GCNNGC	1 cut(s)	324
Cfr10I	RCCGGY	1 cut(s)	97
Cfr13I	GGNCC	1 cut(s)	39
Csp6I	GTAC	1 cut(s)	496
CviAII	CATG	3 cut(s)	434, 460, 626
CviQI	GTAC	1 cut(s)	496
DdeI	CTNAG	2 cut(s)	274, 419
DpnI	GATC	1 cut(s)	474
DpnII	GATC	1 cut(s)	472
DraI	TTTAAA	1 cut(s)	351
EaeI	YGGCCR	1 cut(s)	99
Eam1104I	CTCTTC	1 cut(s)	148
EarI	CTCTTC	1 cut(s)	148
EciI	GGCGGA	1 cut(s)	808
Eco47I	GGWCC	1 cut(s)	39
EcoO109I	RGGNCCY	1 cut(s)	39
FaeI	CATG	3 cut(s)	437, 463, 629
FaiI	YATR	9 cut(s)	225, 435, 461, 494, 502, 627, 653, 819, 878
FaqI	GGGAC	1 cut(s)	25
FatI	CATG	3 cut(s)	433, 459, 625
FauI	CCCGC	1 cut(s)	526
Fnu4HI	GCNGC	4 cut(s)	13, 279, 416, 867
FokI	GGATG	1 cut(s)	106
Fsp4HI	GCNGC	4 cut(s)	13, 279, 416, 867
FspBI	CTAG	1 cut(s)	167
GluI	GCNGC	4 cut(s)	13, 279, 416, 867
GsaI	CCCAGC	1 cut(s)	585
HaeIII	GGCC	3 cut(s)	101, 528, 802
HapII	CCGG	4 cut(s)	98, 488, 529, 593
Hin1II	CATG	3 cut(s)	437, 463, 629
HinfI	GANTC	4 cut(s)	62, 149, 758, 796
HpaII	CCGG	4 cut(s)	98, 488, 529, 593
HphI	GGTGA	3 cut(s)	128, 557, 788
Hpy166II	GTNNAC	1 cut(s)	498
Hpy188I	TCNGA	4 cut(s)	61, 67, 148, 540
Hpy188III	TCNNGA	3 cut(s)	42, 488, 744
Hpy8I	GTNNAC	1 cut(s)	498
HpyAV	CCTTC	4 cut(s)	568, 778, 813, 847
HpyCH4III	ACNGT	4 cut(s)	373, 466, 511, 616
HpyCH4V	TGCA	2 cut(s)	389, 719
HpyF10VI	GCNNNNNNNGC	2 cut(s)	703, 799
HpyF3I	CTNAG	2 cut(s)	274, 419
Hsp92II	CATG	3 cut(s)	437, 463, 629
KflI	GGGWCCC	1 cut(s)	39
Kpn2I	TCCGGA	1 cut(s)	487
Kzo9I	GATC	1 cut(s)	472
LmnI	GCTCC	1 cut(s)	412
Lsp1109I	GCAGC	2 cut(s)	24, 402
LweI	GCATC	1 cut(s)	243
MaeI	CTAG	1 cut(s)	167
MaeIII	GTNAC	2 cut(s)	169, 304
MalI	GATC	1 cut(s)	474
MbiI	CCGCTC	1 cut(s)	281
MboI	GATC	1 cut(s)	472
MboII	GAAGA	5 cut(s)	135, 229, 307, 853, 856
MfeI	CAATTG	1 cut(s)	327
MluCI	AATT	7 cut(s)	177, 327, 339, 358, 443, 835, 889
MlyI	GAGTC	1 cut(s)	767
MnlI	CCTC	8 cut(s)	43, 151, 311, 624, 732, 748, 783, 874
MroI	TCCGGA	1 cut(s)	487
MseI	TTAA	2 cut(s)	113, 350
MslI	CAYNNNNRTG	1 cut(s)	464
MspI	CCGG	4 cut(s)	98, 488, 529, 593
MspR9I	CCNGG	2 cut(s)	530, 593
MunI	CAATTG	1 cut(s)	327
MwoI	GCNNNNNNNGC	2 cut(s)	703, 799
NciI	CCSGG	2 cut(s)	530, 593
NdeII	GATC	1 cut(s)	472
NlaIII	CATG	3 cut(s)	437, 463, 629
NlaIV	GGNNCC	2 cut(s)	40, 41
NmuCI	GTSAC	1 cut(s)	169
NspI	RCATGY	1 cut(s)	437
PfeI	GAWTC	3 cut(s)	62, 149, 796
PkrI	GCNGC	4 cut(s)	14, 280, 417, 868
PleI	GAGTC	1 cut(s)	766
PpsI	GAGTC	1 cut(s)	766
PpuMI	RGGWCCY	1 cut(s)	39
Psp5II	RGGWCCY	1 cut(s)	39
PspFI	CCCAGC	1 cut(s)	581
PspN4I	GGNNCC	2 cut(s)	40, 41
PspPI	GGNCC	1 cut(s)	39
PspPPI	RGGWCCY	1 cut(s)	39
RsaI	GTAC	1 cut(s)	497
RsaNI	GTAC	1 cut(s)	496
RseI	CAYNNNNRTG	1 cut(s)	464
SaqAI	TTAA	2 cut(s)	113, 350
SatI	GCNGC	4 cut(s)	13, 279, 416, 867
Sau3AI	GATC	1 cut(s)	472
Sau96I	GGNCC	1 cut(s)	39
SchI	GAGTC	1 cut(s)	767
ScrFI	CCNGG	2 cut(s)	530, 593
SfaNI	GCATC	1 cut(s)	243
SfcI	CTRYAG	1 cut(s)	372
SinI	GGWCC	1 cut(s)	39
SmiMI	CAYNNNNRTG	1 cut(s)	464
SpeI	ACTAGT	1 cut(s)	166
Sse9I	AATT	7 cut(s)	177, 327, 339, 358, 443, 835, 889
SsiI	CCGC	5 cut(s)	262, 279, 533, 793, 866
SspMI	CTAG	1 cut(s)	167
StyD4I	CCNGG	2 cut(s)	528, 591
TaaI	ACNGT	4 cut(s)	373, 466, 511, 616
TaqI	TCGA	1 cut(s)	475
TasI	AATT	7 cut(s)	177, 327, 339, 358, 443, 835, 889
TatI	WGTACW	1 cut(s)	495
TauI	GCSGC	2 cut(s)	281, 869
TfiI	GAWTC	3 cut(s)	62, 149, 796
Tru1I	TTAA	2 cut(s)	113, 350
Tru9I	TTAA	2 cut(s)	113, 350
TscAI	CASTG	5 cut(s)	376, 471, 514, 621, 831
TseFI	GTSAC	1 cut(s)	169
TseI	GCWGC	2 cut(s)	12, 415
Tsp45I	GTSAC	1 cut(s)	169
TspDTI	ATGAA	4 cut(s)	108, 587, 795, 797
TspGWI	ACGGA	1 cut(s)	43
TspRI	CASTG	5 cut(s)	376, 471, 514, 621, 831
VpaK11BI	GGWCC	1 cut(s)	39
XapI	RAATTY	2 cut(s)	177, 339
XceI	RCATGY	1 cut(s)	437
XspI	CTAG	1 cut(s)	167

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