Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0001478

Physical Location & Seq

Genomic Coordinates Forward (+)

41439809 .. 41441634

Gene Structure 1826 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00248150.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1083 bp

ATGGTTCCGGGACTGGTTTCTTTTCGAGAAGAAGAAGAAGAGCTTTCTGGGACTTTCAAGATGATCAATAAGACAACAGCAAGAGGTATCCGAAAACTTACCAGAGGTGACTACTTCACATATCTGAAGGCAGTAAGGGACGTACTTGAAGACGAAGGGAAAATCTACCACGACTTCACTCAACTCCTGAAAGACTATAGTACCCAAAGACTTGATCTTGAAAGTGTGATAGATATGGTGAAAATTTTATTTGAAGGGCATCCAGATTTACTAATGGGTTTCAATACCTTCTTGCCAAAGGGATATGAAATCACCATCACACCAACCACTCCTGATTTCGTATCCGAAGAAGCTCTCACTTTTGTGAAAAGGGTAAAGGCACGATTTCAAGATGAATATCATGTTTATCTATCTTTTATTGAAATCTTAAAAGGTGAAAACAAGTCCAGAATTTTCCCAAAGGTTGCAGCACTTTTCCGAGATCACCCAGACTTGATTGATGAATTCACTCACTTTCTTCCAAGTGAACCTTCCTGTTCTATTGACCTCTCTAACTGTGAGACTTGCACTCCAAGTTACCATGTTTTGCCAGAGGATTACCCAATTCCTGCTGCGACCCGAAGAACATTGCTTGATTCTCAAGTACTGAATGATCGAGTCTGCATCACTCCTTCAGCTGCTTCCTGTTCAAGAGGAATACACAAAAGCAGATGTGAGCAGAGCCTATTTCAGTGTGAAAATGACATGTTCGAACTTGATATGTTGTTAAGTTCTGTGAATTCAACGATAGGGAGTGCGGAACAGCTAAAACAGAAGATTGAAAACAATAGTAGTAGTGCATCAATTTGTCTTGAAGATCACTTGACGGTTCTCAATCTGAGGTGCATTGAGAGACTTTATGGTAAACAAGGGCTTGAAGTGGTGGACCTCTTGAGGGAAAATGCTGAAGTGGCTCTTCCTGTTATATTAGTCCGACTGAAGCAAAAGCAAGAAGAGTGGGAACAATGTCGCTCGGATTTTAGTCAAGTTTGGGCTCAAGTATATGCCAAGAACCTTAACAATCAAGCTAATCATGATGTTTAA

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: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: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

360

Amino Acids

41.24

Weight (kDa)

5.14

Isoelectric Point (pI)

46.12

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PAH	PF02671	55 - 98	1.8e-14	Paired amphipathic helix repeat
PAH	PF02671	134 - 173	1e-06	Paired amphipathic helix repeat
Sin3_corepress	PF08295	188 - 278	6.5e-20	Sin3 family co-repressor

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)

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Publication-ready

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Orthologous Genes (Group: OG0001478)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G23810 AT1G24210 AT1G24220 AT1G24220 AT1G24230 AT1G24250 AT1G27240 AT1G27260 AT1G27270 AT1G27280
fragaria_vesca	FvH4_3g01921 FvH4_3g01930 FvH4_5g11770 FvH4_5g22630
malus_domestica	MD08G1247800.v1.1
pyrus_communis	pycom08g21470 pycom15g39040
rosa_chinensis	RchiOBHm_Chr5g0002831 RchiOBHm_Chr5g0002841
rosa_laevigata	RLG00000003026 RLG00000003029 RLG00000031063 RLG00000031064
rosa_multiflora	Rmu_co8115592.1_g000001 Rmu_co8158784.1_g000001 Rmu_sc0012670.1_g000008 Rmu_sc0012670.1_g000009 Rmu_sc0013603.1_g000011 Rmu_sc0013603.1_g000012
rosa_roxburghii	Rroxscaffold_1G00073010 Rroxscaffold_1G00073020 Rroxscaffold_3G00248150
rosa_rugosa	Rorug04G0400000 Rorug04G0400100
rosa_samantha	Rh5AG022900 Rh5BG025500 Rh5BG025600 Rh5CG025400 Rh5CG025500 Rh5DG024000 Rh5DG024100 Rh7AG255700 Rh7AG256500 Rh7BG250100 Rh7CG272100 Rh7CG272900 Rh7CG273000 Rh7DG262900
rosa_wichuraiana	Rw5G002120 Rw5G002140 Rw7G021870

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	797
AcsI	RAATTY	4 cut(s)	243, 450, 503, 778
AcuI	CTGAAG	4 cut(s)	146, 657, 966, 998
AfaI	GTAC	3 cut(s)	144, 202, 645
AfiI	CCNNNNNNNGG	1 cut(s)	934
AflIII	ACRYGT	1 cut(s)	744
AjuI	GAANNNNNNNTTGG	2 cut(s)	514, 546
AleI	CACNNNNGTG	1 cut(s)	362
AluBI	AGCT	5 cut(s)	43, 353, 677, 805, 1067
AluI	AGCT	5 cut(s)	43, 353, 677, 805, 1067
Alw26I	GTCTC	2 cut(s)	554, 886
ApeKI	GCWGC	3 cut(s)	467, 611, 677
ApoI	RAATTY	4 cut(s)	243, 450, 503, 778
AspS9I	GGNCC	1 cut(s)	925
AsuC2I	CCSGG	1 cut(s)	9
AsuHPI	GGTGA	5 cut(s)	119, 250, 304, 446, 476
AsuII	TTCGAA	1 cut(s)	750
AvaII	GGWCC	1 cut(s)	925
BaeI	ACNNNNGTAYC	2 cut(s)	184, 217
BanII	GRGCYC	1 cut(s)	1036
BbsI	GAAGAC	1 cut(s)	156
BbvI	GCAGC	3 cut(s)	479, 598, 664
BccI	CCATC	1 cut(s)	323
BciVI	GTATCC	2 cut(s)	98, 352
BclI	TGATCA	1 cut(s)	63
BcnI	CCSGG	1 cut(s)	9
BcoDI	GTCTC	2 cut(s)	554, 886
BfmI	CTRYAG	1 cut(s)	196
BfuI	GTATCC	2 cut(s)	98, 352
BisI	GCNGC	3 cut(s)	468, 612, 678
BlsI	GCNGC	3 cut(s)	469, 613, 679
BmcAI	AGTACT	1 cut(s)	645
Bme1390I	CCNGG	1 cut(s)	9
Bme18I	GGWCC	1 cut(s)	925
BmgT120I	GGNCC	1 cut(s)	925
BmiI	GGNNCC	1 cut(s)	6
BmrFI	CCNGG	1 cut(s)	9
BmsI	GCATC	3 cut(s)	268, 672, 848
BpiI	GAAGAC	1 cut(s)	156
Bpu14I	TTCGAA	1 cut(s)	750
BpuEI	CTTGAG	3 cut(s)	624, 952, 1020
BpuMI	CCSGG	1 cut(s)	9
BsaBI	GATNNNNATC	1 cut(s)	396
BsaXI	ACNNNNNCTCC	2 cut(s)	553, 583
Bsc4I	CCNNNNNNNGG	1 cut(s)	934
Bse1I	ACTGG	1 cut(s)	18
Bse3DI	GCAATG	1 cut(s)	626
Bse8I	GATNNNNATC	1 cut(s)	396
BseGI	GGATG	1 cut(s)	259
BseJI	GATNNNNATC	1 cut(s)	396
BseLI	CCNNNNNNNGG	1 cut(s)	934
BseMI	GCAATG	1 cut(s)	626
BseMII	CTCAG	1 cut(s)	869
BseNI	ACTGG	1 cut(s)	18
BseXI	GCAGC	3 cut(s)	479, 598, 664
BsiSI	CCGG	1 cut(s)	8
BslFI	GGGAC	3 cut(s)	24, 64, 152
BslI	CCNNNNNNNGG	1 cut(s)	934
BsmAI	GTCTC	2 cut(s)	554, 886
BsmFI	GGGAC	3 cut(s)	24, 64, 152
Bsp119I	TTCGAA	1 cut(s)	750
Bsp1286I	GDGCHC	1 cut(s)	1036
Bsp143I	GATC	5 cut(s)	63, 214, 481, 652, 856
BspACI	CCGC	1 cut(s)	797
BspCNI	CTCAG	1 cut(s)	870
BspHI	TCATGA	1 cut(s)	1072
BspLI	GGNNCC	1 cut(s)	6
BspQI	GCTCTTC	2 cut(s)	33, 960
BspT104I	TTCGAA	1 cut(s)	750
BsrDI	GCAATG	1 cut(s)	626
BsrI	ACTGG	1 cut(s)	18
BssMI	GATC	5 cut(s)	63, 214, 481, 652, 856
Bst4CI	ACNGT	2 cut(s)	557, 868
Bst6I	CTCTTC	3 cut(s)	33, 960, 987
BstBI	TTCGAA	1 cut(s)	750
BstDEI	CTNAG	1 cut(s)	878
BstF5I	GGATG	1 cut(s)	259
BstKTI	GATC	5 cut(s)	66, 217, 484, 655, 859
BstMAI	GTCTC	2 cut(s)	554, 886
BstMBI	GATC	5 cut(s)	63, 214, 481, 652, 856
BstMWI	GCNNNNNNNGC	1 cut(s)	950
BstNSI	RCATGY	1 cut(s)	748
BstSCI	CCNGG	1 cut(s)	7
BstSFI	CTRYAG	1 cut(s)	196
BstV1I	GCAGC	3 cut(s)	479, 598, 664
BstV2I	GAAGAC	1 cut(s)	156
BsuI	GTATCC	2 cut(s)	98, 352
BtsCI	GGATG	1 cut(s)	259
BtsIMutI	CAGTG	1 cut(s)	737
CciI	TCATGA	1 cut(s)	1072
Cfr13I	GGNCC	1 cut(s)	925
Csp6I	GTAC	3 cut(s)	143, 201, 644
CspCI	CAANNNNNGTGG	2 cut(s)	977, 1012
CviAII	CATG	4 cut(s)	401, 581, 745, 1073
CviJI	RGCY	9 cut(s)	43, 353, 677, 723, 805, 913, 953, 1034, 1067
CviKI_1	RGCY	9 cut(s)	43, 353, 677, 723, 805, 913, 953, 1034, 1067
CviQI	GTAC	3 cut(s)	143, 201, 644
DdeI	CTNAG	1 cut(s)	878
DpnI	GATC	5 cut(s)	65, 216, 483, 654, 858
DpnII	GATC	5 cut(s)	63, 214, 481, 652, 856
Eam1104I	CTCTTC	3 cut(s)	33, 960, 987
EarI	CTCTTC	3 cut(s)	33, 960, 987
Eco24I	GRGCYC	1 cut(s)	1036
Eco47I	GGWCC	1 cut(s)	925
Eco57I	CTGAAG	4 cut(s)	146, 657, 966, 998
EcoRI	GAATTC	2 cut(s)	503, 778
EcoT38I	GRGCYC	1 cut(s)	1036
FaeI	CATG	4 cut(s)	404, 584, 748, 1076
FalI	AAGNNNNNCTT	6 cut(s)	27, 59, 514, 546, 939, 971
FaqI	GGGAC	3 cut(s)	24, 64, 152
FatI	CATG	4 cut(s)	400, 580, 744, 1072
FbaI	TGATCA	1 cut(s)	63
Fnu4HI	GCNGC	3 cut(s)	468, 612, 678
FokI	GGATG	1 cut(s)	246
FriOI	GRGCYC	1 cut(s)	1036
Fsp4HI	GCNGC	3 cut(s)	468, 612, 678
GluI	GCNGC	3 cut(s)	468, 612, 678
HapII	CCGG	1 cut(s)	8
Hin1II	CATG	4 cut(s)	404, 584, 748, 1076
HinfI	GANTC	2 cut(s)	635, 657
HpaII	CCGG	1 cut(s)	8
HphI	GGTGA	5 cut(s)	119, 250, 304, 446, 476
Hpy166II	GTNNAC	3 cut(s)	527, 905, 925
Hpy188I	TCNGA	7 cut(s)	92, 126, 346, 479, 879, 974, 1015
Hpy8I	GTNNAC	3 cut(s)	527, 905, 925
HpyAV	CCTTC	6 cut(s)	121, 149, 248, 298, 540, 681
HpyCH4III	ACNGT	2 cut(s)	557, 868
HpyCH4IV	ACGT	1 cut(s)	141
HpyCH4V	TGCA	5 cut(s)	467, 567, 663, 839, 885
HpyF10VI	GCNNNNNNNGC	1 cut(s)	950
HpyF3I	CTNAG	1 cut(s)	878
HpySE526I	ACGT	1 cut(s)	141
Hsp92II	CATG	4 cut(s)	404, 584, 748, 1076
Ksp22I	TGATCA	1 cut(s)	63
Kzo9I	GATC	5 cut(s)	63, 214, 481, 652, 856
LguI	GCTCTTC	2 cut(s)	33, 960
Lsp1109I	GCAGC	3 cut(s)	479, 598, 664
LweI	GCATC	3 cut(s)	268, 672, 848
MaeII	ACGT	1 cut(s)	141
MaeIII	GTNAC	2 cut(s)	107, 575
MalI	GATC	5 cut(s)	65, 216, 483, 654, 858
MboI	GATC	5 cut(s)	63, 214, 481, 652, 856
MhlI	GDGCHC	1 cut(s)	1036
MluCI	AATT	6 cut(s)	243, 450, 503, 603, 778, 843
MlyI	GAGTC	1 cut(s)	666
MmeI	TCCRAC	1 cut(s)	997
MnlI	CCTC	8 cut(s)	77, 98, 557, 586, 686, 873, 927, 938
MseI	TTAA	4 cut(s)	428, 767, 1056, 1081
MslI	CAYNNNNRTG	1 cut(s)	362
MspA1I	CMGCKG	1 cut(s)	677
MspI	CCGG	1 cut(s)	8
MspR9I	CCNGG	1 cut(s)	9
MwoI	GCNNNNNNNGC	1 cut(s)	950
NciI	CCSGG	1 cut(s)	9
NdeII	GATC	5 cut(s)	63, 214, 481, 652, 856
NlaIII	CATG	4 cut(s)	404, 584, 748, 1076
NlaIV	GGNNCC	1 cut(s)	6
NmuCI	GTSAC	1 cut(s)	107
NspI	RCATGY	1 cut(s)	748
NspV	TTCGAA	1 cut(s)	750
OliI	CACNNNNGTG	1 cut(s)	362
PagI	TCATGA	1 cut(s)	1072
PciI	ACATGT	1 cut(s)	744
PciSI	GCTCTTC	2 cut(s)	33, 960
PfeI	GAWTC	1 cut(s)	635
PfoI	TCCNGGA	1 cut(s)	7
PkrI	GCNGC	3 cut(s)	469, 613, 679
PleI	GAGTC	1 cut(s)	665
PpsI	GAGTC	1 cut(s)	665
PscI	ACATGT	1 cut(s)	744
PspN4I	GGNNCC	1 cut(s)	6
PspPI	GGNCC	1 cut(s)	925
PvuII	CAGCTG	1 cut(s)	677
RsaI	GTAC	3 cut(s)	144, 202, 645
RsaNI	GTAC	3 cut(s)	143, 201, 644
RseI	CAYNNNNRTG	1 cut(s)	362
SapI	GCTCTTC	2 cut(s)	33, 960
SaqAI	TTAA	4 cut(s)	428, 767, 1056, 1081
SatI	GCNGC	3 cut(s)	468, 612, 678
Sau3AI	GATC	5 cut(s)	63, 214, 481, 652, 856
Sau96I	GGNCC	1 cut(s)	925
ScaI	AGTACT	1 cut(s)	645
SchI	GAGTC	1 cut(s)	666
ScrFI	CCNGG	1 cut(s)	9
SduI	GDGCHC	1 cut(s)	1036
SfaNI	GCATC	3 cut(s)	268, 672, 848
SfcI	CTRYAG	1 cut(s)	196
SfuI	TTCGAA	1 cut(s)	750
SinI	GGWCC	1 cut(s)	925
SmiMI	CAYNNNNRTG	1 cut(s)	362
SmlI	CTYRAG	3 cut(s)	639, 931, 1035
SmoI	CTYRAG	3 cut(s)	639, 931, 1035
Sse9I	AATT	6 cut(s)	243, 450, 503, 603, 778, 843
SsiI	CCGC	1 cut(s)	797
StyD4I	CCNGG	1 cut(s)	7
TaaI	ACNGT	2 cut(s)	557, 868
TaiI	ACGT	1 cut(s)	144
TaqI	TCGA	3 cut(s)	25, 655, 750
TasI	AATT	6 cut(s)	243, 450, 503, 603, 778, 843
TatI	WGTACW	1 cut(s)	643
TfiI	GAWTC	1 cut(s)	635
Tru1I	TTAA	4 cut(s)	428, 767, 1056, 1081
Tru9I	TTAA	4 cut(s)	428, 767, 1056, 1081
TscAI	CASTG	1 cut(s)	737
TseFI	GTSAC	1 cut(s)	107
TseI	GCWGC	3 cut(s)	467, 611, 677
Tsp45I	GTSAC	1 cut(s)	107
TspDTI	ATGAA	3 cut(s)	321, 408, 516
TspRI	CASTG	1 cut(s)	737
VpaK11BI	GGWCC	1 cut(s)	925
XapI	RAATTY	4 cut(s)	243, 450, 503, 778
XceI	RCATGY	1 cut(s)	748
ZrmI	AGTACT	1 cut(s)	645

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