Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr2

Orthogroup ID

OG0004844

Physical Location & Seq

Genomic Coordinates Forward (+)

47202158 .. 47203350

Gene Structure 1193 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000009132

Sequence Viewer

CDS Protein Promoter (2k)

Length: 681 bp

ATGGCTAATGAGAGTGGTGAACGTGGTGTTGACTGTAAGCCGAATTCAGTTACTTACGGGATTATTATTTACGGGATTATTATAGATAAGGCAACAGAACTTTTGCTAGAAATGAAAAATAGAGGGATTTTTCCTGATGTGGTTGTATATAGTATTCTAATACATGGTTTGTACTATAATGAAAAATGGGAAGCGGGTAAAGCTTTATTACATGAGATGATAGATAGCGGTGTCCAGCCTGATGTGGTAACATTCAATGCGTTAATAGGGGCCCTTTGCAGAAGGGGAAATGTGAAAGGGAAGCTTGAAATTGCTTGGGACCTATTTCACAAAATGTCAAGTAAAGGCTTGCTACCAAATGTTATAACATACTCCATATTGATTCATGGCCTCTGTATAGAAGGCCAACTGGAAAAGGCAAATGGTTTGCTCTTAGAAATGGAAGGAAAAGGTTGTCTTCCAAATGTCATCACTTACAAAACCGTTATGCGGGGTTTCTGCCTAAATGATTACTCGACGAAGGTTGTTGAACTGCTGCATAAGATGTCAGAAAGAAATCTGTCACCAGATGACTCTACATTCTCCATTGTCATAGACTTGCTGTCAAAGGATGAAAGGTTACGTAAATGTATGGACTTGCTACCCACATTTCCTGCTACTAGGCAATTGAGGATGCCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000959 GO:0000963 GO:0000966 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004016 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009451 GO:0009791 GO:0009845 GO:0009975 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0016556 GO:0016787 GO:0016788 GO:0016829 GO:0016849 GO:0032501 GO:0032502 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0048856 GO:0071704 GO:0080156 GO:0090304 GO:0090305 GO:0090351 GO:0090615 GO:0097159 GO:0140053 GO:1900864 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_1 PPR_2 PPR_3

Protein Analysis

227

Amino Acids

25.35

Weight (kDa)

6.52

Isoelectric Point (pI)

37.55

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	28 - 57	3.3e-07	PPR repeat family
PPR_3	PF13812	34 - 92	2.8e-10	Pentatricopeptide repeat domain
PPR_2	PF13041	45 - 94	5.4e-14	PPR repeat family
PPR_3	PF13812	69 - 129	1.5e-11	Pentatricopeptide repeat domain
PPR_1	PF12854	77 - 112	1e-08	PPR repeat
PPR_2	PF13041	99 - 132	4.6e-12	PPR repeat family
PPR_3	PF13812	108 - 164	2e-10	Pentatricopeptide repeat domain
PPR_1	PF12854	115 - 148	5.2e-11	PPR repeat
PPR	PF01535	122 - 152	2.4e-07	PPR repeat
PPR_2	PF13041	127 - 167	1.6e-11	PPR repeat family
PPR_2	PF13041	161 - 202	4.2e-07	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0004844)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g22260
malus_domestica	MD05G1203800.v1.1
prunus_persica	Prupe.8G230100_v2.0.a1
pyrus_communis	pycom05g19020
rosa_chinensis	RchiOBHm_Chr6g0289191 RchiOBHm_Chr6g0289221
rosa_laevigata	RLG00000009132 RLG00000009134 RLG00000012320 RLG00000012323 RLG00000012325
rosa_multiflora	Rmu_co8489247.1_g000002 Rmu_sc0001527.1_g000006 Rmu_sc0001527.1_g000010 Rmu_sc0001527.1_g000011
rosa_roxburghii	Rroxscaffold_7G00179440 Rroxscaffold_7G00179500
rosa_rugosa	Rorug06G0201500 Rorug06G0201800 Rorug06G0201900 Rorug06G0202000
rosa_samantha	Rh6AG312700 Rh6AG312900 Rh6BG319700 Rh6BG320300 Rh6BG320400 Rh6CG326100 Rh6CG326400 Rh6DG312100
rosa_wichuraiana	Rw6G027020 Rw6G027040

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	365
AciI	CCGC	3 cut(s)	194, 228, 490
AcsI	RAATTY	1 cut(s)	43
AfaI	GTAC	1 cut(s)	173
AfiI	CCNNNNNNNGG	1 cut(s)	489
AgsI	TTSAA	3 cut(s)	256, 308, 530
AhdI	GACNNNNNGTC	1 cut(s)	601
AluBI	AGCT	2 cut(s)	203, 304
AluI	AGCT	2 cut(s)	203, 304
AoxI	GGCC	3 cut(s)	270, 388, 403
ApaI	GGGCCC	1 cut(s)	274
ApeKI	GCWGC	1 cut(s)	535
ApoI	RAATTY	1 cut(s)	43
AspS9I	GGNCC	3 cut(s)	270, 271, 319
AsuHPI	GGTGA	2 cut(s)	29, 555
AvaII	GGWCC	1 cut(s)	319
BaeGI	GKGCMC	1 cut(s)	274
BanII	GRGCYC	1 cut(s)	274
BbsI	GAAGAC	1 cut(s)	449
BbvI	GCAGC	1 cut(s)	522
BfaI	CTAG	2 cut(s)	107, 660
BisI	GCNGC	1 cut(s)	536
BlsI	GCNGC	1 cut(s)	537
Bme18I	GGWCC	1 cut(s)	319
BmeRI	GACNNNNNGTC	1 cut(s)	601
BmgT120I	GGNCC	3 cut(s)	270, 271, 319
BmiI	GGNNCC	3 cut(s)	271, 272, 320
BmsI	GCATC	1 cut(s)	663
BpiI	GAAGAC	1 cut(s)	449
BsaAI	YACGTR	1 cut(s)	623
Bsc4I	CCNNNNNNNGG	1 cut(s)	489
Bse1I	ACTGG	1 cut(s)	414
BseGI	GGATG	2 cut(s)	616, 678
BseLI	CCNNNNNNNGG	1 cut(s)	489
BseNI	ACTGG	1 cut(s)	414
BseSI	GKGCMC	1 cut(s)	274
BseXI	GCAGC	1 cut(s)	522
BshFI	GGCC	3 cut(s)	272, 390, 405
BslFI	GGGAC	1 cut(s)	332
BslI	CCNNNNNNNGG	1 cut(s)	489
BsmFI	GGGAC	1 cut(s)	332
BsnI	GGCC	3 cut(s)	272, 390, 405
Bsp120I	GGGCCC	1 cut(s)	270
Bsp1286I	GDGCHC	1 cut(s)	274
BspACI	CCGC	3 cut(s)	194, 228, 490
BspANI	GGCC	3 cut(s)	272, 390, 405
BspLI	GGNNCC	3 cut(s)	271, 272, 320
BsrI	ACTGG	1 cut(s)	414
Bst4CI	ACNGT	2 cut(s)	35, 484
BstBAI	YACGTR	1 cut(s)	623
BstC8I	GCNNGC	1 cut(s)	350
BstDEI	CTNAG	1 cut(s)	433
BstF5I	GGATG	2 cut(s)	616, 678
BstMWI	GCNNNNNNNGC	1 cut(s)	200
BstSLI	GKGCMC	1 cut(s)	274
BstSNI	TACGTA	1 cut(s)	623
BstV1I	GCAGC	1 cut(s)	522
BstV2I	GAAGAC	1 cut(s)	449
BsuRI	GGCC	3 cut(s)	272, 390, 405
BtsCI	GGATG	2 cut(s)	616, 678
Cac8I	GCNNGC	1 cut(s)	350
Cfr13I	GGNCC	3 cut(s)	270, 271, 319
Csp6I	GTAC	1 cut(s)	172
CviAII	CATG	4 cut(s)	164, 212, 386, 678
CviJI	RGCY	9 cut(s)	5, 40, 203, 238, 272, 304, 348, 390, 405
CviKI_1	RGCY	9 cut(s)	5, 40, 203, 238, 272, 304, 348, 390, 405
CviQI	GTAC	1 cut(s)	172
DdeI	CTNAG	1 cut(s)	433
DriI	GACNNNNNGTC	1 cut(s)	601
Eam1105I	GACNNNNNGTC	1 cut(s)	601
Eco105I	TACGTA	1 cut(s)	623
Eco24I	GRGCYC	1 cut(s)	274
Eco47I	GGWCC	1 cut(s)	319
EcoO109I	RGGNCCY	3 cut(s)	270, 271, 319
EcoRI	GAATTC	1 cut(s)	43
EcoT38I	GRGCYC	1 cut(s)	274
FaeI	CATG	4 cut(s)	167, 215, 389, 681
FalI	AAGNNNNNCTT	4 cut(s)	288, 320, 441, 473
FaqI	GGGAC	1 cut(s)	332
FatI	CATG	4 cut(s)	163, 211, 385, 677
FauI	CCCGC	2 cut(s)	187, 483
Fnu4HI	GCNGC	1 cut(s)	536
FokI	GGATG	1 cut(s)	623
FriOI	GRGCYC	1 cut(s)	274
Fsp4HI	GCNGC	1 cut(s)	536
FspBI	CTAG	2 cut(s)	107, 660
GluI	GCNGC	1 cut(s)	536
HaeIII	GGCC	3 cut(s)	272, 390, 405
Hin1II	CATG	4 cut(s)	167, 215, 389, 681
HincII	GTYRAC	1 cut(s)	31
HindII	GTYRAC	1 cut(s)	31
HindIII	AAGCTT	2 cut(s)	201, 302
HinfI	GANTC	2 cut(s)	382, 572
HphI	GGTGA	2 cut(s)	29, 555
Hpy166II	GTNNAC	2 cut(s)	20, 31
Hpy188I	TCNGA	1 cut(s)	550
Hpy188III	TCNNGA	1 cut(s)	134
Hpy8I	GTNNAC	2 cut(s)	20, 31
Hpy99I	CGWCG	1 cut(s)	520
HpyAV	CCTTC	4 cut(s)	276, 395, 437, 514
HpyCH4III	ACNGT	2 cut(s)	35, 484
HpyCH4IV	ACGT	2 cut(s)	22, 622
HpyCH4V	TGCA	2 cut(s)	279, 538
HpyF10VI	GCNNNNNNNGC	1 cut(s)	200
HpyF3I	CTNAG	1 cut(s)	433
HpySE526I	ACGT	2 cut(s)	22, 622
Hsp92II	CATG	4 cut(s)	167, 215, 389, 681
LpnPI	CCDG	6 cut(s)	147, 248, 252, 395, 579, 666
Lsp1109I	GCAGC	1 cut(s)	522
LweI	GCATC	1 cut(s)	663
MaeI	CTAG	2 cut(s)	107, 660
MaeII	ACGT	2 cut(s)	22, 622
MaeIII	GTNAC	4 cut(s)	49, 247, 561, 618
MboII	GAAGA	1 cut(s)	449
MfeI	CAATTG	1 cut(s)	665
MhlI	GDGCHC	1 cut(s)	274
MluCI	AATT	3 cut(s)	43, 309, 665
MlyI	GAGTC	1 cut(s)	566
MnlI	CCTC	3 cut(s)	116, 401, 663
MseI	TTAA	1 cut(s)	263
MunI	CAATTG	1 cut(s)	665
MwoI	GCNNNNNNNGC	1 cut(s)	200
NlaIII	CATG	4 cut(s)	167, 215, 389, 681
NlaIV	GGNNCC	3 cut(s)	271, 272, 320
NmuCI	GTSAC	1 cut(s)	561
PfeI	GAWTC	1 cut(s)	382
PkrI	GCNGC	1 cut(s)	537
PleI	GAGTC	1 cut(s)	566
PpsI	GAGTC	1 cut(s)	566
Ppu21I	YACGTR	1 cut(s)	623
PpuMI	RGGWCCY	1 cut(s)	319
PsiI	TTATAA	1 cut(s)	365
Psp5II	RGGWCCY	1 cut(s)	319
PspN4I	GGNNCC	3 cut(s)	271, 272, 320
PspOMI	GGGCCC	1 cut(s)	270
PspPI	GGNCC	3 cut(s)	270, 271, 319
PspPPI	RGGWCCY	1 cut(s)	319
RsaI	GTAC	1 cut(s)	173
RsaNI	GTAC	1 cut(s)	172
SaqAI	TTAA	1 cut(s)	263
SatI	GCNGC	1 cut(s)	536
Sau96I	GGNCC	3 cut(s)	270, 271, 319
SchI	GAGTC	1 cut(s)	566
SduI	GDGCHC	1 cut(s)	274
SetI	ASST	8 cut(s)	25, 205, 306, 324, 454, 525, 620, 625
SfaNI	GCATC	1 cut(s)	663
SinI	GGWCC	1 cut(s)	319
SnaBI	TACGTA	1 cut(s)	623
Sse9I	AATT	3 cut(s)	43, 309, 665
SsiI	CCGC	3 cut(s)	194, 228, 490
SspMI	CTAG	2 cut(s)	107, 660
TaaI	ACNGT	2 cut(s)	35, 484
TaiI	ACGT	2 cut(s)	25, 625
TaqI	TCGA	1 cut(s)	515
TasI	AATT	3 cut(s)	43, 309, 665
TatI	WGTACW	1 cut(s)	171
TfiI	GAWTC	1 cut(s)	382
Tru1I	TTAA	1 cut(s)	263
Tru9I	TTAA	1 cut(s)	263
TseFI	GTSAC	1 cut(s)	561
TseI	GCWGC	1 cut(s)	535
Tsp45I	GTSAC	1 cut(s)	561
TspDTI	ATGAA	4 cut(s)	128, 195, 374, 627
VpaK11BI	GGWCC	1 cut(s)	319
XapI	RAATTY	1 cut(s)	43
XspI	CTAG	2 cut(s)	107, 660

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