Basic Information

Type: gene

Biological Identity

Species

rosa_multiflora

Chromosome

Rmu_sc0003902.1

Orthogroup ID

OG0016038

Physical Location & Seq

Genomic Coordinates Reverse (-)

31187 .. 33044

Gene Structure 1858 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

N/A

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1761 bp

atgaccgttcaaggccttgacatgaagttcgaaggctactacacgctcttgaacgagtgtgtaaccagaagggccttgagagaaggtcaaagagtccatgcccacatgatcaaaacctgttatcttccgccggtgcacctccggacccggctcattgttttctataacaactgtgattgtctgggggatgcacgccgtgtgctcgatgaaatgcctctgagaaatgtggtgtcgtggacggccatgatttcggcttattctaagagagggtacgcctccaaagccaccgatctttttctacagatgttaagatcagatgagggacctaatgagttcacgtttgcaacggtacttacttcatgtactggttcttgggggtttgacttgggcaggcaaatccactctcttataataaaaacaaagtatgaatcgcatatatttgttggcagctcgcttcttgacatgtatgccaaagctggtagaatgcttgaagcgagacgagtttttgacagcttgcctgaaagggatgttgtctcttgtacggctataatctctggctatgcccagcagggtcttgatgaagaggctttggagctgttccggcagttgcagagggaaggaatgactgcgaactatgtcacttatgccagtgttttgacggcattatcagggcttgctgctttggaccttggcaggcaagttcacaaccatgtgcttcgttgtgaagtgccttcatatgtggttcttcagaactccctgattgatatgtactcaaaatgtggaaagctaagttactcaagacgagtttttgataccatgcccgagagaactgttatctcatggaatgcaatgctcgtaggctatagtaaacatggaatgggagaagaggtggttaagcttttcaagctaatgagagaagaaaataaaatcagaccagacagcatcacttttttggctgttttatctggttgcagtcatggaggaatggaagatagagggatggaattcttttatgagatggcgagaggggacaatggaattgagccagagcttgagcattatggatgtgttgttgatctgcttggccgttctggtcgagttgaagaagcctttaaattcattaaaaagatgccttctgagccaactgctgctatatggggttcccttttaggtgcttgtagagttcactccaatgttaaaattggtgaatttgtgggttttcggcttctagaaattgaacctgaaaatgctgggaattacgtcattctttctaatttatttgcttctgcagggagatgggaagatgtaagaactgtaagggaattaatgacagagaaagctgtgataaaggagccaggaagaagttggattgagcttgaccaagtccttcatacttttcatgcaagtgatcgctcccatcccagaagggaagaggtatctgcaaaggtgagagagatatcagcaaagttaaaggaagttggttactctcctgatatgggttgtgttttatatgatgtggatgaggagcagaaggagaagatacttctaggccacagtgaaaagatggctttggcttttgggcttattgctactcctgaaggtgtgccagtccgtgtgataaaaaatcttcgcatttgtgttgattgccataattttgggaaacttgtctcgaaggtatatggaagaaaagtgtctttgagagataaaaaccggtttcatcacatggttggagggatttgctcttgtggagattactggtga

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000959 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016071 GO:0016556 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:0044444 GO:0044464 GO:0046483 GO:0071704 GO:0080156 GO:0090304 GO:0090305 GO:0097159 GO:1900864 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase PPR PPR_2

Protein Analysis

586

Amino Acids

66.26

Weight (kDa)

7.55

Isoelectric Point (pI)

48.0

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	74 - 121	1.4e-09	PPR repeat family
PPR	PF01535	77 - 105	1.5e-06	PPR repeat
PPR_2	PF13041	175 - 222	1.2e-08	PPR repeat family
PPR	PF01535	178 - 207	5.7e-06	PPR repeat
PPR_2	PF13041	277 - 325	1.2e-09	PPR repeat family
PPR	PF01535	279 - 307	1.1e-07	PPR repeat
E_motif	PF20431	396 - 458	4.6e-19	E motif
DYW_deaminase	PF14432	494 - 586	4.3e-38	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: OG0016038)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G13770 AT3G13770
fragaria_vesca	FvH4_6g22980 FvH4_6g22980
malus_domestica	MD14G1064300.v1.1
prunus_persica	Prupe.7G069900_v2.0.a1
pyrus_communis	pycom14g05200
rosa_chinensis	RchiOBHm_Chr3g0480771
rosa_laevigata	RLG00000023453
rosa_multiflora	Rmu_sc0003902.1_g000010 Rmu_sc0007944.1_g000002
rosa_roxburghii	Rroxscaffold_6G00401080
rosa_rugosa	Rorug03G0186300
rosa_samantha	Rh3DG263400
rosa_wichuraiana	Rw3G021300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	410
AccIII	TCCGGA	1 cut(s)	141
AciI	CCGC	1 cut(s)	128
AcoI	YGGCCR	2 cut(s)	240, 1084
AcsI	RAATTY	3 cut(s)	1004, 1115, 1208
AcuI	CTGAAG	2 cut(s)	731, 1617
AdeI	CACNNNGTG	1 cut(s)	197
AfaI	GTAC	5 cut(s)	272, 351, 364, 541, 770
AfiI	CCNNNNNNNGG	1 cut(s)	1496
AflIII	ACRYGT	1 cut(s)	462
AgeI	ACCGGT	1 cut(s)	1710
AgsI	TTSAA	6 cut(s)	11, 52, 491, 904, 1103, 1238
AjnI	CCWGG	1 cut(s)	1354
Alw21I	GWGCWC	2 cut(s)	138, 204
Alw26I	GTCTC	3 cut(s)	490, 538, 1672
Alw44I	GTGCAC	1 cut(s)	134
Ama87I	CYCGRG	1 cut(s)	821
Aor13HI	TCCGGA	1 cut(s)	141
AoxI	GGCC	5 cut(s)	13, 72, 240, 1084, 1549
ApaLI	GTGCAC	1 cut(s)	134
ApeKI	GCWGC	3 cut(s)	447, 677, 1148
ApoI	RAATTY	3 cut(s)	1004, 1115, 1208
ArsI	GACNNNNNNTTYG	2 cut(s)	11, 43
AseI	ATTAAT	1 cut(s)	1325
AsiGI	ACCGGT	1 cut(s)	1710
AspS9I	GGNCC	4 cut(s)	72, 144, 323, 685
AsuC2I	CCSGG	1 cut(s)	148
AsuHPI	GGTGA	2 cut(s)	1217, 1459
AsuII	TTCGAA	1 cut(s)	30
AvaI	CYCGRG	1 cut(s)	821
AvaII	GGWCC	3 cut(s)	144, 323, 685
BaeGI	GKGCMC	1 cut(s)	138
Bbv12I	GWGCWC	2 cut(s)	138, 204
BbvI	GCAGC	3 cut(s)	459, 664, 1135
BccI	CCATC	5 cut(s)	994, 1012, 1290, 1425, 1558
BceAI	ACGGC	5 cut(s)	180, 255, 558, 675, 1071
BciT130I	CCWGG	1 cut(s)	1356
BclI	TGATCA	1 cut(s)	108
BcnI	CCSGG	1 cut(s)	148
BcoDI	GTCTC	3 cut(s)	490, 538, 1672
BfaI	CTAG	2 cut(s)	1229, 1547
BfmI	CTRYAG	3 cut(s)	299, 862, 1287
BisI	GCNGC	3 cut(s)	448, 678, 1149
BlsI	GCNGC	3 cut(s)	449, 679, 1150
Bme1390I	CCNGG	2 cut(s)	148, 1356
Bme18I	GGWCC	3 cut(s)	144, 323, 685
BmeT110I	CYCGRG	1 cut(s)	821
BmgT120I	GGNCC	4 cut(s)	72, 144, 323, 685
BmiI	GGNNCC	4 cut(s)	146, 324, 1162, 1353
BmrFI	CCNGG	2 cut(s)	148, 1356
BmsI	GCATC	3 cut(s)	178, 951, 1119
Bpu14I	TTCGAA	1 cut(s)	30
BpuEI	CTTGAG	3 cut(s)	97, 781, 1073
BpuMI	CCSGG	1 cut(s)	148
BsaJI	CCNNGG	1 cut(s)	688
BsaWI	WCCGGW	2 cut(s)	141, 1710
BsaXI	ACNNNNNCTCC	2 cut(s)	873, 903
Bsc4I	CCNNNNNNNGG	1 cut(s)	1496
Bse118I	RCCGGY	2 cut(s)	130, 1710
Bse1I	ACTGG	4 cut(s)	370, 648, 1607, 1760
Bse3DI	GCAATG	1 cut(s)	855
BseAI	TCCGGA	1 cut(s)	141
BseBI	CCWGG	1 cut(s)	1356
BseDI	CCNNGG	1 cut(s)	688
BseGI	GGATG	6 cut(s)	193, 532, 1005, 1070, 1417, 1525
BseLI	CCNNNNNNNGG	1 cut(s)	1496
BseMI	GCAATG	1 cut(s)	855
BseMII	CTCAG	2 cut(s)	209, 1128
BseNI	ACTGG	4 cut(s)	370, 648, 1607, 1760
BseRI	GAGGAG	1 cut(s)	1538
BseSI	GKGCMC	1 cut(s)	138
BseXI	GCAGC	3 cut(s)	459, 664, 1135
BseYI	CCCAGC	2 cut(s)	564, 1250
BshFI	GGCC	5 cut(s)	15, 74, 242, 1086, 1551
BshTI	ACCGGT	1 cut(s)	1710
BsiHKAI	GWGCWC	2 cut(s)	138, 204
BsiHKCI	CYCGRG	1 cut(s)	821
BsiSI	CCGG	5 cut(s)	131, 142, 148, 601, 1711
BslFI	GGGAC	2 cut(s)	336, 1043
BslI	CCNNNNNNNGG	1 cut(s)	1496
BsmAI	GTCTC	3 cut(s)	490, 538, 1672
BsmBI	CGTCTC	1 cut(s)	490
BsmFI	GGGAC	2 cut(s)	336, 1043
BsmI	GAATGC	2 cut(s)	489, 850
BsnI	GGCC	5 cut(s)	15, 74, 242, 1086, 1551
BsoBI	CYCGRG	1 cut(s)	821
Bsp119I	TTCGAA	1 cut(s)	30
Bsp1286I	GDGCHC	2 cut(s)	138, 204
Bsp13I	TCCGGA	1 cut(s)	141
Bsp143I	GATC	5 cut(s)	108, 289, 311, 1075, 1408
BspACI	CCGC	1 cut(s)	128
BspANI	GGCC	5 cut(s)	15, 74, 242, 1086, 1551
BspCNI	CTCAG	2 cut(s)	210, 1129
BspEI	TCCGGA	1 cut(s)	141
BspLI	GGNNCC	4 cut(s)	146, 324, 1162, 1353
BspMAI	CTGCAG	1 cut(s)	1291
BspT104I	TTCGAA	1 cut(s)	30
BsrDI	GCAATG	1 cut(s)	855
BsrFI	RCCGGY	2 cut(s)	130, 1710
BsrI	ACTGG	4 cut(s)	370, 648, 1607, 1760
BssAI	RCCGGY	2 cut(s)	130, 1710
BssECI	CCNNGG	1 cut(s)	688
BssMI	GATC	5 cut(s)	108, 289, 311, 1075, 1408
BssT1I	CCWWGG	1 cut(s)	688
Bst2UI	CCWGG	1 cut(s)	1356
Bst4CI	ACNGT	6 cut(s)	7, 173, 349, 832, 1315, 1556
Bst6I	CTCTTC	3 cut(s)	576, 879, 1425
BstBI	TTCGAA	1 cut(s)	30
BstC8I	GCNNGC	6 cut(s)	193, 392, 452, 515, 675, 695
BstDEI	CTNAG	4 cut(s)	218, 261, 788, 1137
BstF5I	GGATG	6 cut(s)	193, 532, 1005, 1070, 1417, 1525
BstKTI	GATC	5 cut(s)	111, 292, 314, 1078, 1411
BstMAI	GTCTC	3 cut(s)	490, 538, 1672
BstMBI	GATC	5 cut(s)	108, 289, 311, 1075, 1408
BstMWI	GCNNNNNNNGC	4 cut(s)	281, 601, 904, 1138
BstNI	CCWGG	1 cut(s)	1356
BstNSI	RCATGY	1 cut(s)	466
BstSCI	CCNGG	2 cut(s)	146, 1354
BstSFI	CTRYAG	3 cut(s)	299, 862, 1287
BstSLI	GKGCMC	1 cut(s)	138
BstV1I	GCAGC	3 cut(s)	459, 664, 1135
BstXI	CCANNNNNNTGG	1 cut(s)	1655
BsuRI	GGCC	5 cut(s)	15, 74, 242, 1086, 1551
BtsCI	GGATG	6 cut(s)	193, 532, 1005, 1070, 1417, 1525
BtsIMutI	CAGTG	2 cut(s)	655, 1561
Cac8I	GCNNGC	6 cut(s)	193, 392, 452, 515, 675, 695
Cfr10I	RCCGGY	2 cut(s)	130, 1710
Cfr13I	GGNCC	4 cut(s)	72, 144, 323, 685
Csp6I	GTAC	5 cut(s)	271, 350, 363, 540, 769
CspAI	ACCGGT	1 cut(s)	1710
CviQI	GTAC	5 cut(s)	271, 350, 363, 540, 769
DdeI	CTNAG	4 cut(s)	218, 261, 788, 1137
DpnI	GATC	5 cut(s)	110, 291, 313, 1077, 1410
DpnII	GATC	5 cut(s)	108, 289, 311, 1075, 1408
DraI	TTTAAA	1 cut(s)	1114
DraIII	CACNNNGTG	1 cut(s)	197
EaeI	YGGCCR	2 cut(s)	240, 1084
Eam1104I	CTCTTC	3 cut(s)	576, 879, 1425
EarI	CTCTTC	3 cut(s)	576, 879, 1425
EciI	GGCGGA	1 cut(s)	117
Eco130I	CCWWGG	1 cut(s)	688
Eco147I	AGGCCT	1 cut(s)	15
Eco32I	GATATC	1 cut(s)	1458
Eco47I	GGWCC	3 cut(s)	144, 323, 685
Eco57I	CTGAAG	2 cut(s)	731, 1617
Eco88I	CYCGRG	1 cut(s)	821
EcoO109I	RGGNCCY	2 cut(s)	72, 323
EcoRI	GAATTC	1 cut(s)	1004
EcoRII	CCWGG	1 cut(s)	1354
EcoRV	GATATC	1 cut(s)	1458
EcoT14I	CCWWGG	1 cut(s)	688
ErhI	CCWWGG	1 cut(s)	688
Esp3I	CGTCTC	1 cut(s)	490
FaqI	GGGAC	2 cut(s)	336, 1043
FauNDI	CATATG	1 cut(s)	736
FbaI	TGATCA	1 cut(s)	108
Fnu4HI	GCNGC	3 cut(s)	448, 678, 1149
FokI	GGATG	6 cut(s)	200, 539, 1012, 1077, 1404, 1532
Fsp4HI	GCNGC	3 cut(s)	448, 678, 1149
FspBI	CTAG	2 cut(s)	1229, 1547
GluI	GCNGC	3 cut(s)	448, 678, 1149
GsaI	CCCAGC	2 cut(s)	568, 1254
HaeIII	GGCC	5 cut(s)	15, 74, 242, 1086, 1551
HapII	CCGG	5 cut(s)	131, 142, 148, 601, 1711
HindIII	AAGCTT	1 cut(s)	896
HinfI	GANTC	2 cut(s)	93, 428
HpaII	CCGG	5 cut(s)	131, 142, 148, 601, 1711
HphI	GGTGA	2 cut(s)	1217, 1459
Hpy166II	GTNNAC	6 cut(s)	136, 237, 336, 703, 869, 1186
Hpy188I	TCNGA	5 cut(s)	219, 316, 750, 932, 1138
Hpy188III	TCNNGA	9 cut(s)	49, 142, 458, 575, 798, 1229, 1490, 1595, 1669
Hpy8I	GTNNAC	6 cut(s)	136, 237, 336, 703, 869, 1186
HpyCH4III	ACNGT	6 cut(s)	7, 173, 349, 832, 1315, 1556
HpyCH4IV	ACGT	2 cut(s)	338, 1260
HpyCH4V	TGCA	9 cut(s)	136, 191, 344, 610, 848, 972, 1289, 1403, 1442
HpyF10VI	GCNNNNNNNGC	4 cut(s)	281, 601, 904, 1138
HpyF3I	CTNAG	4 cut(s)	218, 261, 788, 1137
HpySE526I	ACGT	2 cut(s)	338, 1260
Kpn2I	TCCGGA	1 cut(s)	141
Ksp22I	TGATCA	1 cut(s)	108
Kzo9I	GATC	5 cut(s)	108, 289, 311, 1075, 1408
LmnI	GCTCC	4 cut(s)	592, 1351, 1418, 1525
Lsp1109I	GCAGC	3 cut(s)	459, 664, 1135
LweI	GCATC	3 cut(s)	178, 951, 1119
MaeI	CTAG	2 cut(s)	1229, 1547
MaeII	ACGT	2 cut(s)	338, 1260
MaeIII	GTNAC	4 cut(s)	61, 637, 791, 1481
MalI	GATC	5 cut(s)	110, 291, 313, 1077, 1410
MboI	GATC	5 cut(s)	108, 289, 311, 1075, 1408
MhlI	GDGCHC	2 cut(s)	138, 204
MlyI	GAGTC	1 cut(s)	102
MmeI	TCCRAC	2 cut(s)	1346, 1708
MroI	TCCGGA	1 cut(s)	141
MseI	TTAA	7 cut(s)	308, 894, 1113, 1122, 1197, 1325, 1469
MslI	CAYNNNNRTG	3 cut(s)	708, 1191, 1404
MspI	CCGG	5 cut(s)	131, 142, 148, 601, 1711
MspR9I	CCNGG	2 cut(s)	148, 1356
Mva1269I	GAATGC	2 cut(s)	489, 850
MvaI	CCWGG	1 cut(s)	1356
MwoI	GCNNNNNNNGC	4 cut(s)	281, 601, 904, 1138
NciI	CCSGG	1 cut(s)	148
NdeI	CATATG	1 cut(s)	736
NdeII	GATC	5 cut(s)	108, 289, 311, 1075, 1408
NlaIV	GGNNCC	4 cut(s)	146, 324, 1162, 1353
NmuCI	GTSAC	1 cut(s)	637
NspI	RCATGY	1 cut(s)	466
NspV	TTCGAA	1 cut(s)	30
PceI	AGGCCT	1 cut(s)	15
PciI	ACATGT	1 cut(s)	462
PctI	GAATGC	2 cut(s)	489, 850
PfeI	GAWTC	1 cut(s)	428
PflFI	GACNNNGTC	1 cut(s)	1382
PinAI	ACCGGT	1 cut(s)	1710
PkrI	GCNGC	3 cut(s)	449, 679, 1150
PleI	GAGTC	1 cut(s)	101
PpsI	GAGTC	1 cut(s)	101
PpuMI	RGGWCCY	1 cut(s)	323
PscI	ACATGT	1 cut(s)	462
PshBI	ATTAAT	1 cut(s)	1325
PsiI	TTATAA	1 cut(s)	410
Psp5II	RGGWCCY	1 cut(s)	323
Psp6I	CCWGG	1 cut(s)	1354
PspFI	CCCAGC	2 cut(s)	564, 1250
PspGI	CCWGG	1 cut(s)	1354
PspN4I	GGNNCC	4 cut(s)	146, 324, 1162, 1353
PspPI	GGNCC	4 cut(s)	72, 144, 323, 685
PspPPI	RGGWCCY	1 cut(s)	323
PstI	CTGCAG	1 cut(s)	1291
PsyI	GACNNNGTC	1 cut(s)	1382
RsaI	GTAC	5 cut(s)	272, 351, 364, 541, 770
RsaNI	GTAC	5 cut(s)	271, 350, 363, 540, 769
RseI	CAYNNNNRTG	3 cut(s)	708, 1191, 1404
SaqAI	TTAA	7 cut(s)	308, 894, 1113, 1122, 1197, 1325, 1469
SatI	GCNGC	3 cut(s)	448, 678, 1149
Sau3AI	GATC	5 cut(s)	108, 289, 311, 1075, 1408
Sau96I	GGNCC	4 cut(s)	72, 144, 323, 685
SchI	GAGTC	1 cut(s)	102
ScrFI	CCNGG	2 cut(s)	148, 1356
SduI	GDGCHC	2 cut(s)	138, 204
SfaNI	GCATC	3 cut(s)	178, 951, 1119
SfcI	CTRYAG	3 cut(s)	299, 862, 1287
SfuI	TTCGAA	1 cut(s)	30
SgrAI	CRCCGGYG	1 cut(s)	130
SinI	GGWCC	3 cut(s)	144, 323, 685
SmiMI	CAYNNNNRTG	3 cut(s)	708, 1191, 1404
SmlI	CTYRAG	3 cut(s)	76, 796, 1052
SmoI	CTYRAG	3 cut(s)	76, 796, 1052
SseBI	AGGCCT	1 cut(s)	15
SsiI	CCGC	1 cut(s)	128
SspMI	CTAG	2 cut(s)	1229, 1547
StuI	AGGCCT	1 cut(s)	15
StyD4I	CCNGG	2 cut(s)	146, 1354
StyI	CCWWGG	1 cut(s)	688
TaaI	ACNGT	6 cut(s)	7, 173, 349, 832, 1315, 1556
TaiI	ACGT	2 cut(s)	341, 1263
TaqI	TCGA	4 cut(s)	30, 204, 1096, 1670
TatI	WGTACW	2 cut(s)	362, 768
TfiI	GAWTC	1 cut(s)	428
Tru1I	TTAA	7 cut(s)	308, 894, 1113, 1122, 1197, 1325, 1469
Tru9I	TTAA	7 cut(s)	308, 894, 1113, 1122, 1197, 1325, 1469
TscAI	CASTG	2 cut(s)	655, 1561
TseFI	GTSAC	1 cut(s)	637
TseI	GCWGC	3 cut(s)	447, 677, 1148
Tsp45I	GTSAC	1 cut(s)	637
TspGWI	ACGGA	1 cut(s)	1601
TspRI	CASTG	2 cut(s)	655, 1561
Tth111I	GACNNNGTC	1 cut(s)	1382
VneI	GTGCAC	1 cut(s)	134
VpaK11BI	GGWCC	3 cut(s)	144, 323, 685
VspI	ATTAAT	1 cut(s)	1325
XapI	RAATTY	3 cut(s)	1004, 1115, 1208
XbaI	TCTAGA	1 cut(s)	1228
XceI	RCATGY	1 cut(s)	466
XcmI	CCANNNNNNNNNTGG	1 cut(s)	1362
XspI	CTAG	2 cut(s)	1229, 1547

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