Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0009770

Physical Location & Seq

Genomic Coordinates Reverse (-)

42696415 .. 42698365

Gene Structure 1951 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000013843

Sequence Viewer

CDS Protein Promoter (2k)

Length: 915 bp

ATGAAGAGAATAACAGGCGAAGCGTTCGCTTCTTTTCAATCATTGCCGCTTGCTTCTTCGCGCGGTGACTCCAAATGTGTTGTTGCTAGCGTTGGAGTAGGTGCCTCACAGAAATTGTCGATGAATGATGCTCTTACATACATGAAAGAAGTGGAGGATGCGTTTCAAGACCAAAGAGAAAAGTATAATATGTTTCTTGAGAAATTGCTGATGAATGCTACTCTTACATACGTCAAGGAAGTGGAGGACACGTTTCAAAACCAAAGAGAAAAGTATAATATGTTTCTTGAGGTCTTGAAGGATTTCCTCTTGAAGCCTCAAAGAGTAATGGAATTGTTTAAAGGGCATACCAAGTTACTTGTGGGGTTTAATACCTTCTTGCCAAAGGATTTGGAGATAACTGTTCGGGAAGTGGAACCAATAAGGACAGTTAAGTCCAGACAAGCTATCCGTTTTTTAAACAAGATGAAGAAATGTTTCCAAAATGATGAGCGGGTATATAAGTCATTCTTCGACATAGTGAATATGTACGTAAAGGAGCACAAGGACATAAATGAGGTTTACCAGGAGATTTGCTGGATGAGTTCACTGGATTTTTACCACCAGATATGTCAGCAACAACTTCAGCTCATCAGGGGCAATATGGTCGCAGTGCATATCCCTGTTTTACTAAGCAGAGCTCTGCTACACCCACTTTTGCGACCAATGCCTATTGGAACGCAACATAGGCTGGATAAGATTACTTCTCATGGTGATCATGATATTAGTGTTGATCGTCCTGAGCTAGATGATGACAACGGAATGATGAAAGTACTGAAGGAGCAGATAAAGCGTTTTTCTGAGATGGAGAATAGGGATAGGAGAAATCATGATCATGAAGATAGAGAACTGGAGACTGATAACAACAGAGACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000118 GO:0000122 GO:0000785 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005694 GO:0005737 GO:0005829 GO:0006325 GO:0006355 GO:0006357 GO:0006464 GO:0006476 GO:0006807 GO:0006996 GO:0008150 GO:0008152 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0016043 GO:0016569 GO:0016570 GO:0016575 GO:0019219 GO:0019222 GO:0019538 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0031974 GO:0031981 GO:0032991 GO:0035601 GO:0036211 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0045892 GO:0045934 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0051276 GO:0060255 GO:0065007 GO:0070013 GO:0071704 GO:0071840 GO:0080090 GO:0098732 GO:1901564 GO:1902494 GO:1902679 GO:1903506 GO:1903507 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04139 ko04919 ko05016 ko05202 map04139 map04919 map05016 map05202

Pfam Domains

Protein Families

PAH Sin3_corepress Sin3a_C

Protein Analysis

305

Amino Acids

35.83

Weight (kDa)

6.57

Isoelectric Point (pI)

35.04

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PAH	PF02671	90 - 127	5.5e-06	Paired amphipathic helix 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: OG0009770)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G24060 AT5G15030 AT5G15040 AT5G15040 AT5G15040
rosa_chinensis	RchiOBHm_Chr6g0269611
rosa_laevigata	RLG00000013843 RLG00000018235
rosa_multiflora	Rmu_sc0003863.1_g000005
rosa_roxburghii	Rroxscaffold_7G00198570
rosa_rugosa	Rorug06G0049100 Rorug06G0049200 Rorug06G0049200 Rorug06G0049300 Rorug06G0049400.1
rosa_samantha	Rh6AG169200 Rh6AG169300 Rh6BG174500 Rh6CG168800 Rh6DG160700
rosa_wichuraiana	Rw6G014560

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	433
AccB1I	GGYRCC	1 cut(s)	101
AccBSI	CCGCTC	1 cut(s)	493
AccII	CGCG	2 cut(s)	61, 63
AciI	CCGC	3 cut(s)	47, 63, 493
AcuI	CTGAAG	2 cut(s)	608, 836
AfaI	GTAC	2 cut(s)	530, 813
AflIII	ACRYGT	1 cut(s)	249
AgsI	TTSAA	5 cut(s)	38, 167, 257, 298, 313
AjnI	CCWGG	1 cut(s)	564
AluBI	AGCT	4 cut(s)	446, 628, 680, 784
AluI	AGCT	4 cut(s)	446, 628, 680, 784
Alw21I	GWGCWC	2 cut(s)	543, 682
Alw26I	GTCTC	2 cut(s)	887, 903
Asp700I	GAANNNNTTC	2 cut(s)	302, 476
AspLEI	GCGC	1 cut(s)	63
AsuHPI	GGTGA	2 cut(s)	77, 764
AsuNHI	GCTAGC	1 cut(s)	86
BanI	GGYRCC	1 cut(s)	101
BanII	GRGCYC	1 cut(s)	682
Bbv12I	GWGCWC	2 cut(s)	543, 682
BccI	CCATC	1 cut(s)	838
BcgI	CGANNNNNNTGC	2 cut(s)	628, 662
BciT130I	CCWGG	1 cut(s)	566
BclI	TGATCA	2 cut(s)	754, 871
BcoDI	GTCTC	2 cut(s)	887, 903
BfaI	CTAG	2 cut(s)	87, 785
BisI	GCNGC	1 cut(s)	47
BlsI	GCNGC	1 cut(s)	48
BmcAI	AGTACT	1 cut(s)	813
Bme1390I	CCNGG	1 cut(s)	566
BmiI	GGNNCC	2 cut(s)	103, 417
BmrFI	CCNGG	1 cut(s)	566
BmsI	GCATC	2 cut(s)	118, 148
BmtI	GCTAGC	1 cut(s)	90
BpmI	CTGGAG	1 cut(s)	911
Bpu10I	CCTNAGC	1 cut(s)	780
BpuEI	CTTGAG	2 cut(s)	218, 308
BsaAI	YACGTR	1 cut(s)	532
BsaXI	ACNNNNNCTCC	4 cut(s)	146, 176, 236, 266
Bse1I	ACTGG	2 cut(s)	594, 894
Bse3DI	GCAATG	1 cut(s)	41
BseBI	CCWGG	1 cut(s)	566
BseGI	GGATG	2 cut(s)	163, 585
BseMI	GCAATG	1 cut(s)	41
BseMII	CTCAG	2 cut(s)	771, 831
BseNI	ACTGG	2 cut(s)	594, 894
Bsh1236I	CGCG	2 cut(s)	61, 63
BshNI	GGYRCC	1 cut(s)	101
BsiHKAI	GWGCWC	2 cut(s)	543, 682
BsmAI	GTCTC	2 cut(s)	887, 903
BsmI	GAATGC	1 cut(s)	220
Bsp1286I	GDGCHC	2 cut(s)	543, 682
Bsp143I	GATC	3 cut(s)	754, 772, 871
BspACI	CCGC	3 cut(s)	47, 63, 493
BspCNI	CTCAG	2 cut(s)	772, 832
BspFNI	CGCG	2 cut(s)	61, 63
BspHI	TCATGA	3 cut(s)	757, 868, 874
BspLI	GGNNCC	2 cut(s)	103, 417
BspOI	GCTAGC	1 cut(s)	90
BspT107I	GGYRCC	1 cut(s)	101
BsrBI	CCGCTC	1 cut(s)	493
BsrDI	GCAATG	1 cut(s)	41
BsrI	ACTGG	2 cut(s)	594, 894
BssMI	GATC	3 cut(s)	754, 772, 871
Bst2UI	CCWGG	1 cut(s)	566
Bst4CI	ACNGT	2 cut(s)	403, 430
BstBAI	YACGTR	1 cut(s)	532
BstC8I	GCNNGC	2 cut(s)	51, 88
BstDEI	CTNAG	3 cut(s)	671, 780, 840
BstF5I	GGATG	2 cut(s)	163, 585
BstFNI	CGCG	2 cut(s)	61, 63
BstHHI	GCGC	1 cut(s)	63
BstKTI	GATC	3 cut(s)	757, 775, 874
BstMAI	GTCTC	2 cut(s)	887, 903
BstMBI	GATC	3 cut(s)	754, 772, 871
BstMWI	GCNNNNNNNGC	3 cut(s)	706, 727, 829
BstNI	CCWGG	1 cut(s)	566
BstSCI	CCNGG	1 cut(s)	564
BstSNI	TACGTA	1 cut(s)	532
BstUI	CGCG	2 cut(s)	61, 63
BtsCI	GGATG	2 cut(s)	163, 585
BtsI	GCAGTG	1 cut(s)	657
BtsIMutI	CAGTG	2 cut(s)	587, 657
Cac8I	GCNNGC	2 cut(s)	51, 88
CciI	TCATGA	3 cut(s)	757, 868, 874
CfoI	GCGC	1 cut(s)	63
Csp6I	GTAC	2 cut(s)	529, 812
CviAII	CATG	5 cut(s)	142, 749, 758, 869, 875
CviJI	RGCY	6 cut(s)	316, 446, 628, 680, 730, 784
CviKI_1	RGCY	6 cut(s)	316, 446, 628, 680, 730, 784
CviQI	GTAC	2 cut(s)	529, 812
DdeI	CTNAG	3 cut(s)	671, 780, 840
DpnI	GATC	3 cut(s)	756, 774, 873
DpnII	GATC	3 cut(s)	754, 772, 871
DraI	TTTAAA	2 cut(s)	340, 459
DrdI	GACNNNNNNGTC	1 cut(s)	433
DseDI	GACNNNNNNGTC	1 cut(s)	433
Ecl136II	GAGCTC	1 cut(s)	680
Eco105I	TACGTA	1 cut(s)	532
Eco24I	GRGCYC	1 cut(s)	682
Eco53kI	GAGCTC	1 cut(s)	680
Eco57I	CTGAAG	2 cut(s)	608, 836
EcoICRI	GAGCTC	1 cut(s)	680
EcoRII	CCWGG	1 cut(s)	564
EcoT38I	GRGCYC	1 cut(s)	682
FaeI	CATG	5 cut(s)	145, 752, 761, 872, 878
FalI	AAGNNNNNCTT	2 cut(s)	494, 526
FatI	CATG	5 cut(s)	141, 748, 757, 868, 874
FauI	CCCGC	1 cut(s)	486
FbaI	TGATCA	2 cut(s)	754, 871
Fnu4HI	GCNGC	1 cut(s)	47
FokI	GGATG	2 cut(s)	170, 592
FriOI	GRGCYC	1 cut(s)	682
Fsp4HI	GCNGC	1 cut(s)	47
FspBI	CTAG	2 cut(s)	87, 785
GlaI	GCGC	1 cut(s)	62
GluI	GCNGC	1 cut(s)	47
GsuI	CTGGAG	1 cut(s)	911
HhaI	GCGC	1 cut(s)	63
Hin1II	CATG	5 cut(s)	145, 752, 761, 872, 878
Hin6I	GCGC	1 cut(s)	61
HinP1I	GCGC	1 cut(s)	61
HinfI	GANTC	1 cut(s)	68
HphI	GGTGA	2 cut(s)	77, 764
Hpy166II	GTNNAC	2 cut(s)	562, 587
Hpy188I	TCNGA	1 cut(s)	841
Hpy8I	GTNNAC	2 cut(s)	562, 587
HpyAV	CCTTC	3 cut(s)	292, 385, 811
HpyCH4III	ACNGT	2 cut(s)	403, 430
HpyCH4IV	ACGT	3 cut(s)	231, 251, 531
HpyCH4V	TGCA	1 cut(s)	655
HpyF10VI	GCNNNNNNNGC	3 cut(s)	706, 727, 829
HpyF3I	CTNAG	3 cut(s)	671, 780, 840
HpySE526I	ACGT	3 cut(s)	231, 251, 531
Hsp92II	CATG	5 cut(s)	145, 752, 761, 872, 878
HspAI	GCGC	1 cut(s)	61
Ksp22I	TGATCA	2 cut(s)	754, 871
Kzo9I	GATC	3 cut(s)	754, 772, 871
LmnI	GCTCC	2 cut(s)	538, 820
LweI	GCATC	2 cut(s)	118, 148
MaeI	CTAG	2 cut(s)	87, 785
MaeII	ACGT	3 cut(s)	231, 251, 531
MaeIII	GTNAC	2 cut(s)	65, 354
MalI	GATC	3 cut(s)	756, 774, 873
MbiI	CCGCTC	1 cut(s)	493
MboI	GATC	3 cut(s)	754, 772, 871
MboII	GAAGA	5 cut(s)	16, 48, 481, 502, 890
MhlI	GDGCHC	2 cut(s)	543, 682
MluCI	AATT	3 cut(s)	113, 203, 332
MlyI	GAGTC	1 cut(s)	62
MmeI	TCCRAC	1 cut(s)	73
MnlI	CCTC	7 cut(s)	115, 148, 238, 283, 317, 327, 550
MroXI	GAANNNNTTC	2 cut(s)	302, 476
MseI	TTAA	4 cut(s)	339, 369, 432, 458
MslI	CAYNNNNRTG	1 cut(s)	873
MspR9I	CCNGG	1 cut(s)	566
Mva1269I	GAATGC	1 cut(s)	220
MvaI	CCWGG	1 cut(s)	566
MvnI	CGCG	2 cut(s)	61, 63
MwoI	GCNNNNNNNGC	3 cut(s)	706, 727, 829
NdeII	GATC	3 cut(s)	754, 772, 871
NheI	GCTAGC	1 cut(s)	86
NlaIII	CATG	5 cut(s)	145, 752, 761, 872, 878
NlaIV	GGNNCC	2 cut(s)	103, 417
NmuCI	GTSAC	1 cut(s)	65
PagI	TCATGA	3 cut(s)	757, 868, 874
PctI	GAATGC	1 cut(s)	220
PdmI	GAANNNNTTC	2 cut(s)	302, 476
PkrI	GCNGC	1 cut(s)	48
PleI	GAGTC	1 cut(s)	62
PpsI	GAGTC	1 cut(s)	62
Ppu21I	YACGTR	1 cut(s)	532
Psp124BI	GAGCTC	1 cut(s)	682
Psp6I	CCWGG	1 cut(s)	564
PspGI	CCWGG	1 cut(s)	564
PspN4I	GGNNCC	2 cut(s)	103, 417
RsaI	GTAC	2 cut(s)	530, 813
RsaNI	GTAC	2 cut(s)	529, 812
RseI	CAYNNNNRTG	1 cut(s)	873
SacI	GAGCTC	1 cut(s)	682
SaqAI	TTAA	4 cut(s)	339, 369, 432, 458
SatI	GCNGC	1 cut(s)	47
Sau3AI	GATC	3 cut(s)	754, 772, 871
ScaI	AGTACT	1 cut(s)	813
SchI	GAGTC	1 cut(s)	62
ScrFI	CCNGG	1 cut(s)	566
SduI	GDGCHC	2 cut(s)	543, 682
SfaNI	GCATC	2 cut(s)	118, 148
SmiMI	CAYNNNNRTG	1 cut(s)	873
SmlI	CTYRAG	2 cut(s)	197, 287
SmoI	CTYRAG	2 cut(s)	197, 287
SnaBI	TACGTA	1 cut(s)	532
Sse9I	AATT	3 cut(s)	113, 203, 332
SsiI	CCGC	3 cut(s)	47, 63, 493
SspMI	CTAG	2 cut(s)	87, 785
SstI	GAGCTC	1 cut(s)	682
StyD4I	CCNGG	1 cut(s)	564
TaaI	ACNGT	2 cut(s)	403, 430
TaiI	ACGT	3 cut(s)	234, 254, 534
TaqI	TCGA	2 cut(s)	119, 513
TasI	AATT	3 cut(s)	113, 203, 332
TatI	WGTACW	1 cut(s)	811
TauI	GCSGC	1 cut(s)	49
Tru1I	TTAA	4 cut(s)	339, 369, 432, 458
Tru9I	TTAA	4 cut(s)	339, 369, 432, 458
TscAI	CASTG	2 cut(s)	594, 657
TseFI	GTSAC	1 cut(s)	65
Tsp45I	GTSAC	1 cut(s)	65
TspDTI	ATGAA	7 cut(s)	17, 137, 158, 227, 482, 821, 891
TspGWI	ACGGA	2 cut(s)	440, 813
TspRI	CASTG	2 cut(s)	594, 657
XcmI	CCANNNNNNNNNTGG	1 cut(s)	358
XmnI	GAANNNNTTC	2 cut(s)	302, 476
XspI	CTAG	2 cut(s)	87, 785
ZrmI	AGTACT	1 cut(s)	813

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