Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0017177

Physical Location & Seq

Genomic Coordinates Reverse (-)

47592417 .. 47594348

Gene Structure 1932 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000019164

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1932 bp

ATGGGCAAGTCTTACTCTTCTACTACTTGTATAGAGCAATTGACTACTCTCTGCTCCAAAGGACTTATCAAAGAAGCTTTTGGAAGGTTCAAATCTGATTTATGGTCAGACCCATCTCTCTTCTCACACTTACTGCAAGCATGCATACCCAGAAAGTCACTCTCATTAGGAAAACAGCTCCATTCTCTGATAATCACATCTGGGTGTTCCTCAGACAAGTTCGTATCCAATCACCTCCTTAACTTGTACTCCAAAGTCGGAGACTTGAAATCAGCTTCGACTCTGTTTGGGCATCTGCCGAGGAGGAACATCATGTCCTGCAACATTTTGATCAATGGGTTTGTGCAGAAAGGTGATTTGGGATGTGCCCAGAAGGTGTTTGATGAGATGCCTGAGAGAAATGTGGCAACTTGGAACGCAATGGTGACGGGTCTGGTGCAGTTTGAATTCAATGAGGAGGGTTTGGGTTTGTTTTCTGAGATGCATGAGTTGGGGTTTTCGCCTGATGAGTTCACATTGGGTAGTGTTCTTAGGGGGTGTGCAGGTTTGAGAGGACTAACTGCGGGGTGTGAGGTTCATGCTTATGTGGTGAAATGTGGGTTTGAGTTCAATTTGGTTGTCGGGAGTTCATTGGCTCATATGTATATGAAGTCTGGGAGCTTGGTTGATGGAGAGAAGGTGATTAAATCAATGCCGATTCGCAATGTGGTTGCTTGGAATACGCTGATTGCGGGAAAAGCCCAAAATGGGCAGTCCGAGGGAGTGTTGGATCAGTACAATATGATGAAAATTGCAGGCTTTAGACCTGATAAGGTCACATTTGTGAGTGTTCTTAGTTCGTGTTCGGAATTGGCAACACTTGGACAGGGTCAGCAGATTCATGCTGAGGCGATTAAAGCTGGGGATAGCTCAGTTGTTGCCGTGATAAGTACGTTAATTAGCATGTATTCTAGATGTGGGTGTCTTGAAGATTCTCTCAAGGCTTTCAGGGAATGTGAAGGTGCAGATGTTGTACTATGGAGTTCTGTGATTTCTGCGTATGGGTTTCATGGACGAGGAGAGGAAGCGATCAAGCTGTTTGAGCAGATGGAGCAGGAAGGTTTGGAGGCAAACGATGTTACTTTCTTGAGCTTGCTCTATGCCTGCAGTCATTGTGGGATGAAGGAGAAAGGAATCGAATTGTTCGACTTAATGGTACAAAAGTATGGACTGAAACCTAAACTAGAGCACTATACATGCGTGGTTGACCTTCTTGGCCGGTCGGGTTGTTTGGAGGAAGCCGAGGCAATGATAAGATTAATGCCTGTTAAAGCAGATGCTATCATATGGAAAACTTTGTTATCTGCATGCAAAATCCACAAGAACGCGGACATGGCAAGAAGGATCGGTCAAGATGTTCTTAGGCAAGATCCAGAGGATTCAGCTTCATATGTGCTACTTTCAAACATCCATGCTTCAGCCAGAAGATGGCAGGATGTTTCTGAGGTGAGGACAGCCATGAGAGATAGAAAGGTCAAGAAGGAGCCAGGTATAAGCTGGCTGGAAATAAAGAATAAAGTTTACCAGTTTCGTATGGGTGATAATTGCCATCCACAGTATAGGGCGATTGATTTGTATCTTAAAGAACTGAGGTCAGAAATGAAGTTGCATGGCTATGTGCCAGATACTGGTTCGGTTTTGCATGACATGGATAATGAGGAGAAGGAATACGATTTGGCACATCATAGTGAGAAGTTGGCAATTGCATTTGCTTTAATCAACACTCCTGAAGGTGTACCAGTAAGGGTGATGAAGAACTTGCGTGTATGCATCGATTGTCATGTTGCTATTAAGTACATATCCCAAATTAAAAACAGAGAAATCATCGTCCGTGATGCTAGTAGATTTCATCACTTTAAACATGGGAAGTGTTCTTGCGGAGATTACTGGTAA

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

DYW_deaminase PPR PPR_2

Protein Analysis

644

Amino Acids

71.67

Weight (kDa)

7.05

Isoelectric Point (pI)

40.91

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	103 - 135	5.9e-06	PPR repeat family
PPR_2	PF13041	133 - 181	3.8e-08	PPR repeat family
PPR_2	PF13041	234 - 282	1.8e-09	PPR repeat family
PPR_2	PF13041	336 - 383	4.4e-11	PPR repeat family
PPR	PF01535	338 - 368	1.3e-07	PPR repeat
E_motif	PF20431	453 - 515	4e-16	E motif
DYW_deaminase	PF14432	551 - 643	4e-43	DYW family of nucleic acid deaminases

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: OG0017177)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G41080
fragaria_vesca	FvH4_6g27771
malus_domestica	MD17G1263700.v1.1
prunus_persica	Prupe.3G112800_v2.0.a1
rosa_chinensis	RchiOBHm_Chr2g0131051
rosa_laevigata	RLG00000019164
rosa_roxburghii	Rroxscaffold_2G00113270
rosa_rugosa	Rorug02G0294600
rosa_samantha	Rh2BG354400 Rh2CG332900 Rh2DG372400
rosa_wichuraiana	Rw2G028130 Rw2G028170

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	533
AccB7I	CCANNNNNTGG	2 cut(s)	1467, 1667
AccII	CGCG	1 cut(s)	1367
AciI	CCGC	4 cut(s)	563, 731, 1367, 1917
AclWI	GGATC	3 cut(s)	777, 1391, 1403
AcoI	YGGCCR	1 cut(s)	1255
AcsI	RAATTY	1 cut(s)	446
AcuI	CTGAAG	2 cut(s)	1440, 1788
AfaI	GTAC	7 cut(s)	248, 776, 931, 1014, 1197, 1776, 1835
AfiI	CCNNNNNNNGG	3 cut(s)	747, 1467, 1667
AgsI	TTSAA	7 cut(s)	91, 268, 446, 451, 610, 968, 1443
AjnI	CCWGG	1 cut(s)	1525
AjuI	GAANNNNNNNTTGG	2 cut(s)	341, 373
AleI	CACNNNNGTG	1 cut(s)	821
AloI	GAACNNNNNNTCC	2 cut(s)	299, 331
Alw21I	GWGCWC	1 cut(s)	1230
Alw26I	GTCTC	1 cut(s)	255
AlwI	GGATC	3 cut(s)	777, 1391, 1403
AlwNI	CAGNNNCTG	1 cut(s)	1667
AoxI	GGCC	1 cut(s)	1255
ApoI	RAATTY	1 cut(s)	446
AseI	ATTAAT	1 cut(s)	1298
AsuHPI	GGTGA	8 cut(s)	224, 365, 436, 601, 691, 1498, 1589, 1798
BaeGI	GKGCMC	1 cut(s)	370
BaeI	ACNNNNGTAYC	2 cut(s)	1187, 1220
Bbv12I	GWGCWC	1 cut(s)	1230
BbvCI	CCTCAGC	1 cut(s)	885
BccI	CCATC	5 cut(s)	121, 662, 1081, 1461, 1596
BceAI	ACGGC	1 cut(s)	905
BciT130I	CCWGG	1 cut(s)	1527
BciVI	GTATCC	1 cut(s)	235
BclI	TGATCA	1 cut(s)	330
BcoDI	GTCTC	1 cut(s)	255
BfaI	CTAG	3 cut(s)	951, 1223, 1878
BfmI	CTRYAG	1 cut(s)	1144
BfuAI	ACCTGC	1 cut(s)	533
BfuI	GTATCC	1 cut(s)	235
Bme1390I	CCNGG	1 cut(s)	1527
BmiI	GGNNCC	1 cut(s)	1524
BmrFI	CCNGG	1 cut(s)	1527
BmsI	GCATC	6 cut(s)	301, 378, 471, 1306, 1818, 1864
Bpu10I	CCTNAGC	1 cut(s)	885
BpuEI	CTTGAG	2 cut(s)	962, 1147
Bsa29I	ATCGAT	1 cut(s)	1812
BsaBI	GATNNNNATC	1 cut(s)	1614
BsaJI	CCNNGG	3 cut(s)	299, 756, 1281
BsaXI	ACNNNNNCTCC	4 cut(s)	233, 263, 663, 693
Bsc4I	CCNNNNNNNGG	3 cut(s)	747, 1467, 1667
Bse118I	RCCGGY	1 cut(s)	1257
Bse1I	ACTGG	4 cut(s)	1564, 1672, 1778, 1931
Bse3DI	GCAATG	3 cut(s)	426, 709, 1293
Bse8I	GATNNNNATC	1 cut(s)	1614
BseBI	CCWGG	1 cut(s)	1527
BseCI	ATCGAT	1 cut(s)	1812
BseDI	CCNNGG	3 cut(s)	299, 756, 1281
BseGI	GGATG	5 cut(s)	368, 1164, 1446, 1480, 1588
BseJI	GATNNNNATC	1 cut(s)	1614
BseLI	CCNNNNNNNGG	3 cut(s)	747, 1467, 1667
BseMI	GCAATG	3 cut(s)	426, 709, 1293
BseMII	CTCAG	7 cut(s)	225, 384, 468, 876, 924, 1473, 1619
BseNI	ACTGG	4 cut(s)	1564, 1672, 1778, 1931
BseRI	GAGGAG	4 cut(s)	316, 470, 1071, 1712
BseSI	GKGCMC	1 cut(s)	370
BseYI	CCCAGC	1 cut(s)	899
BsgI	GTGCAG	4 cut(s)	365, 458, 561, 1023
Bsh1236I	CGCG	1 cut(s)	1367
Bsh1285I	CGRYCG	1 cut(s)	1262
BshFI	GGCC	1 cut(s)	1257
BshVI	ATCGAT	1 cut(s)	1812
BsiEI	CGRYCG	1 cut(s)	1262
BsiHKAI	GWGCWC	1 cut(s)	1230
BsiSI	CCGG	1 cut(s)	1258
BslI	CCNNNNNNNGG	3 cut(s)	747, 1467, 1667
BsmAI	GTCTC	1 cut(s)	255
BsnI	GGCC	1 cut(s)	1257
Bsp1286I	GDGCHC	2 cut(s)	370, 1230
Bsp143I	GATC	5 cut(s)	330, 769, 1068, 1383, 1408
BspACI	CCGC	4 cut(s)	563, 731, 1367, 1917
BspANI	GGCC	1 cut(s)	1257
BspCNI	CTCAG	7 cut(s)	224, 385, 469, 877, 923, 1474, 1620
BspDI	ATCGAT	1 cut(s)	1812
BspFNI	CGCG	1 cut(s)	1367
BspLI	GGNNCC	1 cut(s)	1524
BspMAI	CTGCAG	1 cut(s)	1148
BspMI	ACCTGC	1 cut(s)	533
BspPI	GGATC	3 cut(s)	777, 1391, 1403
BsrDI	GCAATG	3 cut(s)	426, 709, 1293
BsrFI	RCCGGY	1 cut(s)	1257
BsrI	ACTGG	4 cut(s)	1564, 1672, 1778, 1931
BssAI	RCCGGY	1 cut(s)	1257
BssECI	CCNNGG	3 cut(s)	299, 756, 1281
BssMI	GATC	5 cut(s)	330, 769, 1068, 1383, 1408
Bst2UI	CCWGG	1 cut(s)	1527
Bst4CI	ACNGT	1 cut(s)	1596
Bst6I	CTCTTC	2 cut(s)	22, 125
BstC8I	GCNNGC	7 cut(s)	138, 142, 796, 1133, 1144, 1348, 1538
BstF5I	GGATG	5 cut(s)	368, 1164, 1446, 1480, 1588
BstFNI	CGCG	1 cut(s)	1367
BstKTI	GATC	5 cut(s)	333, 772, 1071, 1386, 1411
BstMAI	GTCTC	1 cut(s)	255
BstMBI	GATC	5 cut(s)	330, 769, 1068, 1383, 1408
BstMCI	CGRYCG	1 cut(s)	1262
BstMWI	GCNNNNNNNGC	5 cut(s)	737, 896, 1081, 1090, 1373
BstNI	CCWGG	1 cut(s)	1527
BstNSI	RCATGY	4 cut(s)	144, 946, 1239, 1350
BstSCI	CCNGG	1 cut(s)	1525
BstSFI	CTRYAG	1 cut(s)	1144
BstSLI	GKGCMC	1 cut(s)	370
BstUI	CGCG	1 cut(s)	1367
BstX2I	RGATCY	1 cut(s)	1408
BstYI	RGATCY	1 cut(s)	1408
Bsu15I	ATCGAT	1 cut(s)	1812
BsuI	GTATCC	1 cut(s)	235
BsuRI	GGCC	1 cut(s)	1257
BsuTUI	ATCGAT	1 cut(s)	1812
BtsCI	GGATG	5 cut(s)	368, 1164, 1446, 1480, 1588
BveI	ACCTGC	1 cut(s)	533
Cac8I	GCNNGC	7 cut(s)	138, 142, 796, 1133, 1144, 1348, 1538
CaiI	CAGNNNCTG	1 cut(s)	1667
Cfr10I	RCCGGY	1 cut(s)	1257
ClaI	ATCGAT	1 cut(s)	1812
Csp6I	GTAC	7 cut(s)	247, 775, 930, 1013, 1196, 1775, 1834
CviQI	GTAC	7 cut(s)	247, 775, 930, 1013, 1196, 1775, 1834
DpnI	GATC	5 cut(s)	332, 771, 1070, 1385, 1410
DpnII	GATC	5 cut(s)	330, 769, 1068, 1383, 1408
DraI	TTTAAA	1 cut(s)	1897
EaeI	YGGCCR	1 cut(s)	1255
Eam1104I	CTCTTC	2 cut(s)	22, 125
EarI	CTCTTC	2 cut(s)	22, 125
Eco57I	CTGAAG	2 cut(s)	1440, 1788
EcoRI	GAATTC	1 cut(s)	446
EcoRII	CCWGG	1 cut(s)	1525
EcoT22I	ATGCAT	3 cut(s)	146, 486, 1811
FalI	AAGNNNNNCTT	2 cut(s)	1383, 1415
FauI	CCCGC	2 cut(s)	556, 724
FauNDI	CATATG	3 cut(s)	639, 1325, 1429
FbaI	TGATCA	1 cut(s)	330
FokI	GGATG	5 cut(s)	375, 1171, 1433, 1487, 1575
FspBI	CTAG	3 cut(s)	951, 1223, 1878
GsaI	CCCAGC	1 cut(s)	903
HaeIII	GGCC	1 cut(s)	1257
HapII	CCGG	1 cut(s)	1258
HincII	GTYRAC	1 cut(s)	1246
HindII	GTYRAC	1 cut(s)	1246
HindIII	AAGCTT	1 cut(s)	75
HinfI	GANTC	6 cut(s)	280, 697, 877, 971, 1173, 1418
HpaII	CCGG	1 cut(s)	1258
HphI	GGTGA	8 cut(s)	224, 365, 436, 601, 691, 1498, 1589, 1798
Hpy166II	GTNNAC	4 cut(s)	513, 1246, 1561, 1775
Hpy188III	TCNNGA	8 cut(s)	622, 951, 965, 1126, 1391, 1412, 1516, 1766
Hpy8I	GTNNAC	4 cut(s)	513, 1246, 1561, 1775
HpyCH4III	ACNGT	1 cut(s)	1596
HpyCH4IV	ACGT	1 cut(s)	932
HpyF10VI	GCNNNNNNNGC	5 cut(s)	737, 896, 1081, 1090, 1373
HpySE526I	ACGT	1 cut(s)	932
Ksp22I	TGATCA	1 cut(s)	330
Kzo9I	GATC	5 cut(s)	330, 769, 1068, 1383, 1408
LmnI	GCTCC	5 cut(s)	59, 183, 657, 1090, 1522
LweI	GCATC	6 cut(s)	301, 378, 471, 1306, 1818, 1864
MaeI	CTAG	3 cut(s)	951, 1223, 1878
MaeII	ACGT	1 cut(s)	932
MaeIII	GTNAC	4 cut(s)	156, 424, 814, 1117
MalI	GATC	5 cut(s)	332, 771, 1070, 1385, 1410
MboI	GATC	5 cut(s)	330, 769, 1068, 1383, 1408
MboII	GAAGA	5 cut(s)	9, 112, 980, 1476, 1804
MfeI	CAATTG	2 cut(s)	38, 1740
MflI	RGATCY	1 cut(s)	1408
MhlI	GDGCHC	2 cut(s)	370, 1230
MlyI	GAGTC	1 cut(s)	274
MmeI	TCCRAC	2 cut(s)	238, 747
Mph1103I	ATGCAT	3 cut(s)	146, 486, 1811
MslI	CAYNNNNRTG	5 cut(s)	202, 582, 821, 1653, 1725
MspI	CCGG	1 cut(s)	1258
MspR9I	CCNGG	1 cut(s)	1527
MunI	CAATTG	2 cut(s)	38, 1740
MvaI	CCWGG	1 cut(s)	1527
MvnI	CGCG	1 cut(s)	1367
MwoI	GCNNNNNNNGC	5 cut(s)	737, 896, 1081, 1090, 1373
NdeI	CATATG	3 cut(s)	639, 1325, 1429
NdeII	GATC	5 cut(s)	330, 769, 1068, 1383, 1408
NlaIV	GGNNCC	1 cut(s)	1524
NmeAIII	GCCGAG	2 cut(s)	324, 1306
NmuCI	GTSAC	3 cut(s)	156, 424, 814
NsiI	ATGCAT	3 cut(s)	146, 486, 1811
NspI	RCATGY	4 cut(s)	144, 946, 1239, 1350
OliI	CACNNNNGTG	1 cut(s)	821
PaeI	GCATGC	2 cut(s)	144, 1350
PcsI	WCGNNNNNNNCGW	1 cut(s)	1182
PfeI	GAWTC	5 cut(s)	697, 877, 971, 1173, 1418
PflFI	GACNNNGTC	1 cut(s)	867
PflMI	CCANNNNNTGG	2 cut(s)	1467, 1667
PleI	GAGTC	1 cut(s)	274
PpsI	GAGTC	1 cut(s)	274
PshBI	ATTAAT	1 cut(s)	1298
Psp6I	CCWGG	1 cut(s)	1525
PspFI	CCCAGC	1 cut(s)	899
PspGI	CCWGG	1 cut(s)	1525
PspN4I	GGNNCC	1 cut(s)	1524
PstI	CTGCAG	1 cut(s)	1148
PstNI	CAGNNNCTG	1 cut(s)	1667
PsuI	RGATCY	1 cut(s)	1408
PsyI	GACNNNGTC	1 cut(s)	867
RsaI	GTAC	7 cut(s)	248, 776, 931, 1014, 1197, 1776, 1835
RsaNI	GTAC	7 cut(s)	247, 775, 930, 1013, 1196, 1775, 1834
RseI	CAYNNNNRTG	5 cut(s)	202, 582, 821, 1653, 1725
Sau3AI	GATC	5 cut(s)	330, 769, 1068, 1383, 1408
SchI	GAGTC	1 cut(s)	274
ScrFI	CCNGG	1 cut(s)	1527
SduI	GDGCHC	2 cut(s)	370, 1230
SfaNI	GCATC	6 cut(s)	301, 378, 471, 1306, 1818, 1864
SfcI	CTRYAG	1 cut(s)	1144
SmiMI	CAYNNNNRTG	5 cut(s)	202, 582, 821, 1653, 1725
SmlI	CTYRAG	2 cut(s)	977, 1126
SmoI	CTYRAG	2 cut(s)	977, 1126
SphI	GCATGC	2 cut(s)	144, 1350
SsiI	CCGC	4 cut(s)	563, 731, 1367, 1917
SspMI	CTAG	3 cut(s)	951, 1223, 1878
StyD4I	CCNGG	1 cut(s)	1525
TaaI	ACNGT	1 cut(s)	1596
TaiI	ACGT	1 cut(s)	935
TaqI	TCGA	4 cut(s)	278, 1176, 1185, 1812
TaqII	GACCGA	1 cut(s)	1376
TatI	WGTACW	4 cut(s)	246, 774, 1012, 1833
TfiI	GAWTC	5 cut(s)	697, 877, 971, 1173, 1418
TseFI	GTSAC	3 cut(s)	156, 424, 814
Tsp45I	GTSAC	3 cut(s)	156, 424, 814
TspGWI	ACGGA	1 cut(s)	1859
Tth111I	GACNNNGTC	1 cut(s)	867
Van91I	CCANNNNNTGG	2 cut(s)	1467, 1667
VspI	ATTAAT	1 cut(s)	1298
XapI	RAATTY	1 cut(s)	446
XbaI	TCTAGA	1 cut(s)	950
XceI	RCATGY	4 cut(s)	144, 946, 1239, 1350
XcmI	CCANNNNNNNNNTGG	1 cut(s)	1533
XspI	CTAG	3 cut(s)	951, 1223, 1878
Zsp2I	ATGCAT	3 cut(s)	146, 486, 1811

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