Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0007075

Physical Location & Seq

Genomic Coordinates Forward (+)

18017978 .. 18019216

Gene Structure 1239 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000012373

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1239 bp

ATGATTTTGAATCGCGTGAGATATTATTCAACTAACTGTTTCCCAACCCCAAAACCTCATCTTCAACCACCCAAAACCCTCTCGGAGAACCCACCTTCCATAGTTGATAGAATCAGGCAATGTGGTACTCAGACAGGGCTAGAACAGATATGTGCTTCAATGATGAAGACCAACGCAATCCAAGACTCCTTCTTTACAAACCAACTCATCACCGCCTGTTCCTCTCTTTCCCGCCTAGACCACGCAGCTTTAGCCTTTTCCCACATCCAAAACCCAAACATCTTCGTCTACAACGCAATGATCAAAGCCTTTGTTCACTGCGGACGCCCATTTCAGGGTTTACACTGTTACATCAATATGTTGAGGAACGGGGTCTTCCCTACCAGCTATACGTTTCCGTCTTTGATCAAGGCTTGTGCCTCGCTTTCTGTGATGGGTTTTGGAGAAGCTGTACATGGCTGTGTTTGGAAAAGTGGGTTTGATTCACATGTGTTTGTGCAGACTGCTTTGATTGATTTGTATTCGAAGCTGGGACGAATTGGTGAAGCCCGGAAGGTGTTCGATGAAATGCCTGAGAGAGATGGTTTTGCTTGGACTACAATGGTTTCTTCTCATGCTCGTGTAGGGGATATGAGGTCGGCGAGGACATTGTTTGATGTGATGATGGAAAGGTGTATAGCTAATTCGGCTACTTGGAATACTATGATCGACGGCTATGCGAGACTTGGTGATGTGGAGTCTGCAGAGTTGTTGTTTAATCAAATGCCAACCAGGGATTTGATCTCGTGGACAGCTATGATCAATTGTTATTCTCAGAACAGGAAATTTGGAGAAGCATTAGCAGTGTTTAATGATATGAGGTTGAATGGGGTCAGTCCTGATGCAGTGACCATGTCGACTGTTATTTCGGCTTGTGCTCATCTCGGAGCTCTAGACTTGGGGAAAGGGATTCACTTTTACGTAACGCAGAATGGGTTTGATCTTGATGTTTATATTGGGTCTGCGTTGATTGATATGTATGCGAAATGTGGCACATTGGACAGGGCTCTTGTTGTTTTCTTTAACTTGAGGGATAAGAACTTGTTCTGTTGGAATTCAGTGATTGAAGGGCTTGCAGCTCATGGATTTGCCAAAAAAGCACTAGCAATGTTTAGCAAGATGGAGAGAGAGAAGATCAAGCCAAATGGGATTACTTTTATAAGTGTTTTAAGTGCCTGCACTCATGCCGGGGCTTGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003700 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0004672 GO:0004674 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006139 GO:0006355 GO:0006464 GO:0006468 GO:0006725 GO:0006793 GO:0006796 GO:0006807 GO:0007154 GO:0007165 GO:0007275 GO:0008150 GO:0008152 GO:0009451 GO:0009889 GO:0009987 GO:0010468 GO:0010556 GO:0016070 GO:0016301 GO:0016310 GO:0016740 GO:0016772 GO:0016773 GO:0016787 GO:0016788 GO:0019219 GO:0019222 GO:0019538 GO:0022622 GO:0023052 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0034641 GO:0035556 GO:0036211 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0048364 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0051716 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0090305 GO:0097159 GO:0099402 GO:0140096 GO:0140110 GO:1901360 GO:1901363 GO:1901564 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase PPR PPR_2 bHLH-MYC_N

Protein Analysis

413

Amino Acids

45.72

Weight (kDa)

8.45

Isoelectric Point (pI)

30.42

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	92 - 140	1.3e-10	PPR repeat family
PPR_1	PF12854	225 - 255	2e-07	PPR repeat
PPR_2	PF13041	228 - 258	4.5e-07	PPR repeat family
PPR	PF01535	231 - 258	1.9e-08	PPR repeat
PPR_2	PF13041	259 - 307	5.2e-14	PPR repeat family
PPR	PF01535	261 - 291	5.3e-08	PPR repeat
PPR_2	PF13041	360 - 407	3.3e-09	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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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0007075)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G06143
fragaria_vesca	FvH4_2g21860
malus_domestica	MD05G1200200.v1.1 MD10G1186800.v1.1
prunus_persica	Prupe.8G226200_v2.0.a1
pyrus_communis	pycom05g18700
rosa_chinensis	RchiOBHm_Chr6g0288721 RchiOBHm_Chr6g0288731
rosa_laevigata	RLG00000012369 RLG00000012373 RLG00000012374 RLG00000012381
rosa_multiflora	Rmu_sc0004861.1_g000010
rosa_roxburghii	Rroxscaffold_7G00179910
rosa_rugosa	Rorug06G0197800 Rorug06G0197900 Rorug06G0198000
rosa_samantha	Rh6BG314900 Rh6BG315000 Rh6CG322200 Rh6CG322300 Rh6DG308000 Rh6DG308100
rosa_wichuraiana	Rw6G026720 Rw6G026730

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	1199
AccI	GTMKAC	2 cut(s)	288, 896
AccII	CGCG	1 cut(s)	15
AciI	CCGC	3 cut(s)	213, 232, 321
AcsI	RAATTY	2 cut(s)	824, 1093
AcyI	GRCGYC	1 cut(s)	325
AfaI	GTAC	2 cut(s)	127, 453
AfiI	CCNNNNNNNGG	2 cut(s)	334, 335
AflIII	ACRYGT	1 cut(s)	487
AgsI	TTSAA	6 cut(s)	10, 30, 65, 159, 865, 1106
AjnI	CCWGG	1 cut(s)	770
AloI	GAACNNNNNNTCC	2 cut(s)	80, 112
AluBI	AGCT	8 cut(s)	248, 387, 449, 529, 680, 794, 929, 1118
AluI	AGCT	8 cut(s)	248, 387, 449, 529, 680, 794, 929, 1118
Alw21I	GWGCWC	2 cut(s)	919, 931
Alw26I	GTCTC	1 cut(s)	715
ApeKI	GCWGC	2 cut(s)	245, 1115
ApoI	RAATTY	2 cut(s)	824, 1093
ArsI	GACNNNNNNTTYG	2 cut(s)	889, 921
Asp700I	GAANNNNTTC	2 cut(s)	557, 1082
AsuC2I	CCSGG	2 cut(s)	550, 1228
AsuHPI	GGTGA	3 cut(s)	202, 554, 740
AsuII	TTCGAA	1 cut(s)	524
BanII	GRGCYC	2 cut(s)	931, 1048
BauI	CACGAG	2 cut(s)	618, 784
BbsI	GAAGAC	2 cut(s)	173, 367
Bbv12I	GWGCWC	2 cut(s)	919, 931
BbvI	GCAGC	2 cut(s)	257, 1127
BccI	CCATC	4 cut(s)	427, 575, 658, 1153
BceAI	ACGGC	1 cut(s)	727
BcgI	CGANNNNNNTGC	2 cut(s)	698, 732
BciT130I	CCWGG	1 cut(s)	772
BclI	TGATCA	3 cut(s)	300, 405, 798
BcnI	CCSGG	2 cut(s)	550, 1228
BcoDI	GTCTC	1 cut(s)	715
BfaI	CTAG	4 cut(s)	140, 236, 932, 1142
BfmI	CTRYAG	1 cut(s)	741
BisI	GCNGC	2 cut(s)	246, 1116
BlsI	GCNGC	2 cut(s)	247, 1117
Bme1390I	CCNGG	3 cut(s)	550, 772, 1228
BmrFI	CCNGG	3 cut(s)	550, 772, 1228
BmsI	GCATC	1 cut(s)	871
BpiI	GAAGAC	2 cut(s)	173, 367
Bpu14I	TTCGAA	1 cut(s)	524
BpuEI	CTTGAG	1 cut(s)	1087
BpuMI	CCSGG	2 cut(s)	550, 1228
BsaAI	YACGTR	1 cut(s)	961
BsaHI	GRCGYC	1 cut(s)	325
BsaJI	CCNNGG	2 cut(s)	771, 1227
BsaXI	ACNNNNNCTCC	2 cut(s)	435, 465
Bsc4I	CCNNNNNNNGG	2 cut(s)	334, 335
Bse3DI	GCAATG	3 cut(s)	125, 303, 1152
BseBI	CCWGG	1 cut(s)	772
BseDI	CCNNGG	2 cut(s)	771, 1227
BseGI	GGATG	1 cut(s)	264
BseLI	CCNNNNNNNGG	2 cut(s)	334, 335
BseMI	GCAATG	3 cut(s)	125, 303, 1152
BseMII	CTCAG	3 cut(s)	143, 564, 827
BseXI	GCAGC	2 cut(s)	257, 1127
BseYI	CCCAGC	1 cut(s)	529
BsgI	GTGCAG	2 cut(s)	518, 1201
Bsh1236I	CGCG	1 cut(s)	15
BsiHKAI	GWGCWC	2 cut(s)	919, 931
BsiSI	CCGG	2 cut(s)	550, 1227
BslFI	GGGAC	1 cut(s)	546
BslI	CCNNNNNNNGG	2 cut(s)	334, 335
BsmAI	GTCTC	1 cut(s)	715
BsmFI	GGGAC	1 cut(s)	546
Bsp119I	TTCGAA	1 cut(s)	524
Bsp1286I	GDGCHC	3 cut(s)	919, 931, 1048
Bsp1407I	TGTACA	1 cut(s)	451
Bsp143I	GATC	7 cut(s)	300, 405, 705, 780, 798, 979, 1173
BspACI	CCGC	3 cut(s)	213, 232, 321
BspCNI	CTCAG	3 cut(s)	142, 565, 826
BspFNI	CGCG	1 cut(s)	15
BspMAI	CTGCAG	1 cut(s)	745
BspT104I	TTCGAA	1 cut(s)	524
BsrDI	GCAATG	3 cut(s)	125, 303, 1152
BsrGI	TGTACA	1 cut(s)	451
BssECI	CCNNGG	2 cut(s)	771, 1227
BssMI	GATC	7 cut(s)	300, 405, 705, 780, 798, 979, 1173
BssNI	GRCGYC	1 cut(s)	325
BssSI	CACGAG	2 cut(s)	618, 784
Bst2BI	CACGAG	2 cut(s)	618, 784
Bst2UI	CCWGG	1 cut(s)	772
Bst4CI	ACNGT	3 cut(s)	38, 347, 901
BstACI	GRCGYC	1 cut(s)	325
BstAUI	TGTACA	1 cut(s)	451
BstBAI	YACGTR	1 cut(s)	961
BstBI	TTCGAA	1 cut(s)	524
BstC8I	GCNNGC	2 cut(s)	1113, 1216
BstDEI	CTNAG	3 cut(s)	129, 573, 813
BstF5I	GGATG	1 cut(s)	264
BstFNI	CGCG	1 cut(s)	15
BstKTI	GATC	7 cut(s)	303, 408, 708, 783, 801, 982, 1176
BstMAI	GTCTC	1 cut(s)	715
BstMBI	GATC	7 cut(s)	300, 405, 705, 780, 798, 979, 1173
BstMWI	GCNNNNNNNGC	3 cut(s)	251, 686, 1136
BstNI	CCWGG	1 cut(s)	772
BstNSI	RCATGY	1 cut(s)	491
BstSCI	CCNGG	3 cut(s)	548, 770, 1226
BstSFI	CTRYAG	1 cut(s)	741
BstSNI	TACGTA	1 cut(s)	961
BstUI	CGCG	1 cut(s)	15
BstV1I	GCAGC	2 cut(s)	257, 1127
BstV2I	GAAGAC	2 cut(s)	173, 367
BtsCI	GGATG	1 cut(s)	264
BtsI	GCAGTG	3 cut(s)	316, 849, 891
BtsIMutI	CAGTG	5 cut(s)	316, 343, 849, 891, 1104
Cac8I	GCNNGC	2 cut(s)	1113, 1216
CseI	GACGC	1 cut(s)	333
Csp6I	GTAC	2 cut(s)	126, 452
CviAII	CATG	6 cut(s)	455, 488, 614, 892, 1121, 1223
CviQI	GTAC	2 cut(s)	126, 452
DdeI	CTNAG	3 cut(s)	129, 573, 813
DpnI	GATC	7 cut(s)	302, 407, 707, 782, 800, 981, 1175
DpnII	GATC	7 cut(s)	300, 405, 705, 780, 798, 979, 1173
Ecl136II	GAGCTC	1 cut(s)	929
Eco105I	TACGTA	1 cut(s)	961
Eco24I	GRGCYC	2 cut(s)	931, 1048
Eco53kI	GAGCTC	1 cut(s)	929
EcoICRI	GAGCTC	1 cut(s)	929
EcoRI	GAATTC	1 cut(s)	1093
EcoRII	CCWGG	1 cut(s)	770
EcoT38I	GRGCYC	2 cut(s)	931, 1048
FaeI	CATG	6 cut(s)	458, 491, 617, 895, 1124, 1226
FaqI	GGGAC	1 cut(s)	546
FatI	CATG	6 cut(s)	454, 487, 613, 891, 1120, 1222
FauI	CCCGC	1 cut(s)	239
FbaI	TGATCA	3 cut(s)	300, 405, 798
FblI	GTMKAC	2 cut(s)	288, 896
Fnu4HI	GCNGC	2 cut(s)	246, 1116
FokI	GGATG	1 cut(s)	251
FriOI	GRGCYC	2 cut(s)	931, 1048
Fsp4HI	GCNGC	2 cut(s)	246, 1116
FspBI	CTAG	4 cut(s)	140, 236, 932, 1142
GluI	GCNGC	2 cut(s)	246, 1116
GsaI	CCCAGC	1 cut(s)	533
HapII	CCGG	2 cut(s)	550, 1227
HgaI	GACGC	1 cut(s)	333
Hin1I	GRCGYC	1 cut(s)	325
Hin1II	CATG	6 cut(s)	458, 491, 617, 895, 1124, 1226
HincII	GTYRAC	1 cut(s)	897
HindII	GTYRAC	1 cut(s)	897
HinfI	GANTC	6 cut(s)	10, 111, 185, 482, 737, 949
HpaII	CCGG	2 cut(s)	550, 1227
HphI	GGTGA	3 cut(s)	202, 554, 740
Hpy166II	GTNNAC	5 cut(s)	289, 316, 341, 789, 897
Hpy188I	TCNGA	4 cut(s)	85, 132, 816, 926
Hpy188III	TCNNGA	3 cut(s)	878, 932, 983
Hpy8I	GTNNAC	5 cut(s)	289, 316, 341, 789, 897
Hpy99I	CGWCG	1 cut(s)	713
HpyAV	CCTTC	4 cut(s)	105, 199, 547, 1100
HpyCH4III	ACNGT	3 cut(s)	38, 347, 901
HpyCH4IV	ACGT	2 cut(s)	392, 960
HpyCH4V	TGCA	5 cut(s)	499, 743, 884, 1115, 1218
HpyF10VI	GCNNNNNNNGC	3 cut(s)	251, 686, 1136
HpyF3I	CTNAG	3 cut(s)	129, 573, 813
HpySE526I	ACGT	2 cut(s)	392, 960
Hsp92I	GRCGYC	1 cut(s)	325
Hsp92II	CATG	6 cut(s)	458, 491, 617, 895, 1124, 1226
Ksp22I	TGATCA	3 cut(s)	300, 405, 798
Kzo9I	GATC	7 cut(s)	300, 405, 705, 780, 798, 979, 1173
LmnI	GCTCC	1 cut(s)	926
Lsp1109I	GCAGC	2 cut(s)	257, 1127
LweI	GCATC	1 cut(s)	871
MaeI	CTAG	4 cut(s)	140, 236, 932, 1142
MaeII	ACGT	2 cut(s)	392, 960
MaeIII	GTNAC	3 cut(s)	347, 886, 961
MalI	GATC	7 cut(s)	302, 407, 707, 782, 800, 981, 1175
MboI	GATC	7 cut(s)	300, 405, 705, 780, 798, 979, 1173
MboII	GAAGA	6 cut(s)	53, 178, 274, 367, 600, 1183
MfeI	CAATTG	1 cut(s)	802
MhlI	GDGCHC	3 cut(s)	919, 931, 1048
MluCI	AATT	5 cut(s)	537, 682, 802, 824, 1093
MlyI	GAGTC	2 cut(s)	179, 746
MmeI	TCCRAC	1 cut(s)	1070
MnlI	CCTC	9 cut(s)	66, 89, 232, 357, 430, 627, 636, 852, 1062
MroXI	GAANNNNTTC	2 cut(s)	557, 1082
MseI	TTAA	4 cut(s)	756, 849, 1062, 1208
MslI	CAYNNNNRTG	3 cut(s)	356, 459, 618
MspI	CCGG	2 cut(s)	550, 1227
MspR9I	CCNGG	3 cut(s)	550, 772, 1228
MunI	CAATTG	1 cut(s)	802
MvaI	CCWGG	1 cut(s)	772
MvnI	CGCG	1 cut(s)	15
MwoI	GCNNNNNNNGC	3 cut(s)	251, 686, 1136
NciI	CCSGG	2 cut(s)	550, 1228
NdeII	GATC	7 cut(s)	300, 405, 705, 780, 798, 979, 1173
NlaIII	CATG	6 cut(s)	458, 491, 617, 895, 1124, 1226
NmuCI	GTSAC	1 cut(s)	886
NspI	RCATGY	1 cut(s)	491
NspV	TTCGAA	1 cut(s)	524
PciI	ACATGT	1 cut(s)	487
PdmI	GAANNNNTTC	2 cut(s)	557, 1082
PfeI	GAWTC	4 cut(s)	10, 111, 482, 949
PflFI	GACNNNGTC	1 cut(s)	892
PkrI	GCNGC	2 cut(s)	247, 1117
PleI	GAGTC	2 cut(s)	179, 745
PpsI	GAGTC	2 cut(s)	179, 745
Ppu21I	YACGTR	1 cut(s)	961
PscI	ACATGT	1 cut(s)	487
PsiI	TTATAA	1 cut(s)	1199
Psp124BI	GAGCTC	1 cut(s)	931
Psp6I	CCWGG	1 cut(s)	770
PspFI	CCCAGC	1 cut(s)	529
PspGI	CCWGG	1 cut(s)	770
PstI	CTGCAG	1 cut(s)	745
PsyI	GACNNNGTC	1 cut(s)	892
RsaI	GTAC	2 cut(s)	127, 453
RsaNI	GTAC	2 cut(s)	126, 452
RseI	CAYNNNNRTG	3 cut(s)	356, 459, 618
SacI	GAGCTC	1 cut(s)	931
SalI	GTCGAC	1 cut(s)	895
SaqAI	TTAA	4 cut(s)	756, 849, 1062, 1208
SatI	GCNGC	2 cut(s)	246, 1116
Sau3AI	GATC	7 cut(s)	300, 405, 705, 780, 798, 979, 1173
SchI	GAGTC	2 cut(s)	179, 746
ScrFI	CCNGG	3 cut(s)	550, 772, 1228
SduI	GDGCHC	3 cut(s)	919, 931, 1048
SfaNI	GCATC	1 cut(s)	871
SfcI	CTRYAG	1 cut(s)	741
SfuI	TTCGAA	1 cut(s)	524
SmiMI	CAYNNNNRTG	3 cut(s)	356, 459, 618
SmlI	CTYRAG	1 cut(s)	1066
SmoI	CTYRAG	1 cut(s)	1066
SnaBI	TACGTA	1 cut(s)	961
Sse9I	AATT	5 cut(s)	537, 682, 802, 824, 1093
SsiI	CCGC	3 cut(s)	213, 232, 321
SspMI	CTAG	4 cut(s)	140, 236, 932, 1142
SstI	GAGCTC	1 cut(s)	931
StyD4I	CCNGG	3 cut(s)	548, 770, 1226
TaaI	ACNGT	3 cut(s)	38, 347, 901
TaiI	ACGT	2 cut(s)	395, 963
TaqI	TCGA	4 cut(s)	524, 561, 708, 896
TasI	AATT	5 cut(s)	537, 682, 802, 824, 1093
TatI	WGTACW	1 cut(s)	451
TfiI	GAWTC	4 cut(s)	10, 111, 482, 949
Tru1I	TTAA	4 cut(s)	756, 849, 1062, 1208
Tru9I	TTAA	4 cut(s)	756, 849, 1062, 1208
TscAI	CASTG	5 cut(s)	323, 350, 849, 891, 1104
TseFI	GTSAC	1 cut(s)	886
TseI	GCWGC	2 cut(s)	245, 1115
Tsp45I	GTSAC	1 cut(s)	886
TspDTI	ATGAA	2 cut(s)	179, 579
TspGWI	ACGGA	1 cut(s)	387
TspRI	CASTG	5 cut(s)	323, 350, 849, 891, 1104
Tth111I	GACNNNGTC	1 cut(s)	892
XapI	RAATTY	2 cut(s)	824, 1093
XbaI	TCTAGA	1 cut(s)	931
XceI	RCATGY	1 cut(s)	491
XmiI	GTMKAC	2 cut(s)	288, 896
XmnI	GAANNNNTTC	2 cut(s)	557, 1082
XspI	CTAG	4 cut(s)	140, 236, 932, 1142

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