Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr5

Orthogroup ID

OG0001478

Physical Location & Seq

Genomic Coordinates Forward (+)

1813638 .. 1814822

Gene Structure 1185 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw5G002140.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1185 bp

ATGGTAACTTATGAGATGTTGAGGTTAGGAGGAGAGATTTTGAGGAAGGACAACTGCATCGAATATCTAAAGACCTTGCGGAACTTCAACTACTATGTCTACCACCACTTCGTCAATCTTATGAAAGACTTCAAGCCAAAAGGTGACGACTGTATTGAAACTTTGAAGCAGAAGGTGCAGGACTTATTTGAAGGGTGTCCGGATTTGTTATTAGGGTTCAATGACTTCTTGCCCATGAGACATAAAATTAACGTCCCAATCTCAATAAAAGTCCAGACCGCCAGGAAACTCCCAATAGTTCTTTATCGAAAGAGAAAGCACGACGATGATACTAGTGATGTTGTTGATGATGCTGGATCTAATGACTCTAAGCTTCAAAAGGTGATCGGTTTTGTGAACAAGGTTAGAGATAGATTTCGCAACGATAGTGAGGAAGGTGATGATGTTTTTCAGTCCTTTTTAGATATTTTCTTGAATTATCACTGCAAAAGAAACAAGTCATCACCCAATAGAAACAAATTATCACCCAAAAAGTCCGGCAGTACTGCTGATGAAGATGAGCTTCAGATTTACAAGAAGGTTAAAGCACTTTTCGATGGCCACCCGGACTTGATTGATGAGTTCACTCACTTTTTACCAACAGTGCCTTTACCTTCACTTTCCTCAGTCATTGATTTCGCTAACTGCGAGACTTGCACTCCAAGCTACCGTCTTTTGCCAGAGAGTTTCCCCATTCCTGCTGCCACCAAACGATCGAAGCTTGCTTCTCAAGTATTGAATGATCGTTGGATATGCGTTCCGAGTACTAATTCAAGAGGAGGAGGAGGAGGAAACACACAACAAAACATGTTCGGGTGGGAAGATAAAAGGTTCGAACTTGATAGGAAGGTGAACACTGTCAGTTCAGCCTCAAAGAGTATCAAAAAGCTGCTGAAAAAGATTGAAAAGGATAGTCCATCAGAGATCTATATTGAAGATCATCTCACGGAGCTGAATTTGAAGTGCATTAAGGGATTGTATGATGAGCAAGGGCTTAATGCAATGGATGAGCTGAGGAATAATATTCGAGGGGCTTTACCTGTATTGTTGAATCGGTTGAAGCAACAGGAAGAAGAGCTGAAACAACGCCGATCATTTCTTAACCAAAAGTGGGCTCATCATATGAAAGTTTTTAATTGCAGGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko04139 ko04919 ko05016 ko05202 map04139 map04919 map05016 map05202

Pfam Domains

Protein Families

PAH Sin3_corepress Sin3a_C

Protein Analysis

394

Amino Acids

45.56

Weight (kDa)

8.85

Isoelectric Point (pI)

50.05

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PAH	PF02671	33 - 77	1.4e-11	Paired amphipathic helix repeat
PAH	PF02671	148 - 212	1.1e-07	Paired amphipathic helix repeat
Sin3_corepress	PF08295	231 - 320	5.4e-18	Sin3 family co-repressor

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
Acc36I	ACCTGC	1 cut(s)	1170
AccI	GTMKAC	1 cut(s)	99
AccIII	TCCGGA	1 cut(s)	199
AciI	CCGC	2 cut(s)	79, 279
AclWI	GGATC	1 cut(s)	364
AcoI	YGGCCR	1 cut(s)	598
AcsI	RAATTY	1 cut(s)	994
AcuI	CTGAAG	1 cut(s)	548
AfaI	GTAC	2 cut(s)	544, 805
AfiI	CCNNNNNNNGG	1 cut(s)	1150
AflIII	ACRYGT	1 cut(s)	846
AhlI	ACTAGT	1 cut(s)	332
AjnI	CCWGG	1 cut(s)	281
AluBI	AGCT	8 cut(s)	373, 562, 705, 760, 928, 991, 1051, 1117
AluI	AGCT	8 cut(s)	373, 562, 705, 760, 928, 991, 1051, 1117
Alw26I	GTCTC	2 cut(s)	232, 683
AlwI	GGATC	1 cut(s)	364
Aor13HI	TCCGGA	1 cut(s)	199
AoxI	GGCC	1 cut(s)	598
ApeKI	GCWGC	2 cut(s)	740, 928
ApoI	RAATTY	1 cut(s)	994
Asp700I	GAANNNNTTC	1 cut(s)	128
AsuC2I	CCSGG	1 cut(s)	605
AsuHPI	GGTGA	6 cut(s)	155, 394, 449, 495, 516, 901
AsuII	TTCGAA	1 cut(s)	873
BalI	TGGCCA	1 cut(s)	600
BanII	GRGCYC	1 cut(s)	1156
BbvCI	CCTCAGC	1 cut(s)	1052
BbvI	GCAGC	2 cut(s)	727, 915
BccI	CCATC	2 cut(s)	590, 964
BciT130I	CCWGG	1 cut(s)	283
BcnI	CCSGG	1 cut(s)	605
BcoDI	GTCTC	2 cut(s)	232, 683
BcuI	ACTAGT	1 cut(s)	332
BfaI	CTAG	1 cut(s)	333
BfuAI	ACCTGC	1 cut(s)	1170
BglII	AGATCT	1 cut(s)	963
BisI	GCNGC	2 cut(s)	741, 929
BlsI	GCNGC	2 cut(s)	742, 930
BmcAI	AGTACT	2 cut(s)	544, 805
Bme1390I	CCNGG	2 cut(s)	283, 605
BmrFI	CCNGG	2 cut(s)	283, 605
BmsI	GCATC	2 cut(s)	66, 340
Bpu10I	CCTNAGC	1 cut(s)	1052
Bpu14I	TTCGAA	1 cut(s)	873
BpuEI	CTTGAG	1 cut(s)	753
BpuMI	CCSGG	1 cut(s)	605
BsaWI	WCCGGW	1 cut(s)	199
BsaXI	ACNNNNNCTCC	2 cut(s)	682, 712
Bsc4I	CCNNNNNNNGG	1 cut(s)	1150
Bse3DI	GCAATG	1 cut(s)	1047
BseAI	TCCGGA	1 cut(s)	199
BseBI	CCWGG	1 cut(s)	283
BseGI	GGATG	1 cut(s)	1051
BseLI	CCNNNNNNNGG	1 cut(s)	1150
BseMI	GCAATG	1 cut(s)	1047
BseMII	CTCAG	2 cut(s)	678, 1043
BseRI	GAGGAG	5 cut(s)	45, 831, 834, 837, 840
BseXI	GCAGC	2 cut(s)	727, 915
BsgI	GTGCAG	1 cut(s)	197
Bsh1285I	CGRYCG	1 cut(s)	755
BshFI	GGCC	1 cut(s)	600
BsiEI	CGRYCG	1 cut(s)	755
BsiSI	CCGG	3 cut(s)	200, 537, 605
BslFI	GGGAC	1 cut(s)	239
BslI	CCNNNNNNNGG	1 cut(s)	1150
BsmAI	GTCTC	2 cut(s)	232, 683
BsmFI	GGGAC	1 cut(s)	239
BsnI	GGCC	1 cut(s)	600
Bsp119I	TTCGAA	1 cut(s)	873
Bsp1286I	GDGCHC	1 cut(s)	1156
Bsp13I	TCCGGA	1 cut(s)	199
Bsp143I	GATC	7 cut(s)	356, 384, 752, 781, 963, 976, 1130
BspACI	CCGC	2 cut(s)	79, 279
BspANI	GGCC	1 cut(s)	600
BspCNI	CTCAG	2 cut(s)	677, 1044
BspEI	TCCGGA	1 cut(s)	199
BspMI	ACCTGC	1 cut(s)	1170
BspPI	GGATC	1 cut(s)	364
BspQI	GCTCTTC	1 cut(s)	1107
BspT104I	TTCGAA	1 cut(s)	873
BsrDI	GCAATG	1 cut(s)	1047
BssMI	GATC	7 cut(s)	356, 384, 752, 781, 963, 976, 1130
Bst2UI	CCWGG	1 cut(s)	283
Bst4CI	ACNGT	4 cut(s)	152, 643, 710, 898
Bst6I	CTCTTC	1 cut(s)	1107
BstAPI	GCANNNNNTGC	1 cut(s)	175
BstBI	TTCGAA	1 cut(s)	873
BstC8I	GCNNGC	1 cut(s)	762
BstDEI	CTNAG	3 cut(s)	369, 664, 1052
BstF5I	GGATG	1 cut(s)	1051
BstKTI	GATC	7 cut(s)	359, 387, 755, 784, 966, 979, 1133
BstMAI	GTCTC	2 cut(s)	232, 683
BstMBI	GATC	7 cut(s)	356, 384, 752, 781, 963, 976, 1130
BstMCI	CGRYCG	1 cut(s)	755
BstMWI	GCNNNNNNNGC	3 cut(s)	175, 693, 702
BstNI	CCWGG	1 cut(s)	283
BstNSI	RCATGY	1 cut(s)	850
BstSCI	CCNGG	2 cut(s)	281, 603
BstV1I	GCAGC	2 cut(s)	727, 915
BstX2I	RGATCY	2 cut(s)	356, 963
BstYI	RGATCY	2 cut(s)	356, 963
BsuRI	GGCC	1 cut(s)	600
BtsCI	GGATG	1 cut(s)	1051
BtsI	GCAGTG	1 cut(s)	481
BtsIMutI	CAGTG	3 cut(s)	481, 648, 894
BveI	ACCTGC	1 cut(s)	1170
Cac8I	GCNNGC	1 cut(s)	762
Csp6I	GTAC	2 cut(s)	543, 804
CviAII	CATG	2 cut(s)	235, 847
CviQI	GTAC	2 cut(s)	543, 804
DdeI	CTNAG	3 cut(s)	369, 664, 1052
DpnI	GATC	7 cut(s)	358, 386, 754, 783, 965, 978, 1132
DpnII	GATC	7 cut(s)	356, 384, 752, 781, 963, 976, 1130
EaeI	YGGCCR	1 cut(s)	598
Eam1104I	CTCTTC	1 cut(s)	1107
EarI	CTCTTC	1 cut(s)	1107
Eco24I	GRGCYC	1 cut(s)	1156
Eco57I	CTGAAG	1 cut(s)	548
EcoRII	CCWGG	1 cut(s)	281
EcoT38I	GRGCYC	1 cut(s)	1156
FaeI	CATG	2 cut(s)	238, 850
FalI	AAGNNNNNCTT	2 cut(s)	546, 578
FaqI	GGGAC	1 cut(s)	239
FatI	CATG	2 cut(s)	234, 846
FauNDI	CATATG	1 cut(s)	1161
FblI	GTMKAC	1 cut(s)	99
Fnu4HI	GCNGC	2 cut(s)	741, 929
FokI	GGATG	1 cut(s)	1058
FriOI	GRGCYC	1 cut(s)	1156
Fsp4HI	GCNGC	2 cut(s)	741, 929
FspBI	CTAG	1 cut(s)	333
GluI	GCNGC	2 cut(s)	741, 929
HaeIII	GGCC	1 cut(s)	600
HapII	CCGG	3 cut(s)	200, 537, 605
Hin1II	CATG	2 cut(s)	238, 850
HindIII	AAGCTT	2 cut(s)	371, 758
HinfI	GANTC	2 cut(s)	365, 1090
HpaII	CCGG	3 cut(s)	200, 537, 605
HphI	GGTGA	6 cut(s)	155, 394, 449, 495, 516, 901
Hpy166II	GTNNAC	4 cut(s)	100, 397, 624, 892
Hpy188I	TCNGA	3 cut(s)	567, 801, 961
Hpy188III	TCNNGA	4 cut(s)	200, 274, 472, 813
Hpy8I	GTNNAC	4 cut(s)	100, 397, 624, 892
Hpy99I	CGWCG	1 cut(s)	326
HpyAV	CCTTC	7 cut(s)	40, 166, 185, 428, 571, 663, 880
HpyCH4III	ACNGT	4 cut(s)	152, 643, 710, 898
HpyCH4IV	ACGT	1 cut(s)	252
HpyCH4V	TGCA	7 cut(s)	57, 178, 486, 696, 1005, 1040, 1179
HpyF10VI	GCNNNNNNNGC	3 cut(s)	175, 693, 702
HpyF3I	CTNAG	3 cut(s)	369, 664, 1052
HpySE526I	ACGT	1 cut(s)	252
Hsp92II	CATG	2 cut(s)	238, 850
Kpn2I	TCCGGA	1 cut(s)	199
Kzo9I	GATC	7 cut(s)	356, 384, 752, 781, 963, 976, 1130
LguI	GCTCTTC	1 cut(s)	1107
LmnI	GCTCC	1 cut(s)	988
Lsp1109I	GCAGC	2 cut(s)	727, 915
LweI	GCATC	2 cut(s)	66, 340
MaeI	CTAG	1 cut(s)	333
MaeII	ACGT	1 cut(s)	252
MaeIII	GTNAC	2 cut(s)	4, 143
MalI	GATC	7 cut(s)	358, 386, 754, 783, 965, 978, 1132
MboI	GATC	7 cut(s)	356, 384, 752, 781, 963, 976, 1130
MboII	GAAGA	5 cut(s)	566, 872, 986, 1121, 1124
MflI	RGATCY	2 cut(s)	356, 963
MhlI	GDGCHC	1 cut(s)	1156
MlsI	TGGCCA	1 cut(s)	600
MluCI	AATT	6 cut(s)	246, 475, 518, 808, 994, 1174
MluNI	TGGCCA	1 cut(s)	600
MlyI	GAGTC	1 cut(s)	359
MmeI	TCCRAC	1 cut(s)	767
Mox20I	TGGCCA	1 cut(s)	600
MroI	TCCGGA	1 cut(s)	199
MroXI	GAANNNNTTC	1 cut(s)	128
MscI	TGGCCA	1 cut(s)	600
MseI	TTAA	6 cut(s)	249, 582, 1008, 1035, 1140, 1173
MslI	CAYNNNNRTG	1 cut(s)	324
Msp20I	TGGCCA	1 cut(s)	600
MspI	CCGG	3 cut(s)	200, 537, 605
MspR9I	CCNGG	2 cut(s)	283, 605
MvaI	CCWGG	1 cut(s)	283
MwoI	GCNNNNNNNGC	3 cut(s)	175, 693, 702
NciI	CCSGG	1 cut(s)	605
NdeI	CATATG	1 cut(s)	1161
NdeII	GATC	7 cut(s)	356, 384, 752, 781, 963, 976, 1130
NlaIII	CATG	2 cut(s)	238, 850
NmuCI	GTSAC	1 cut(s)	143
NspI	RCATGY	1 cut(s)	850
NspV	TTCGAA	1 cut(s)	873
PciI	ACATGT	1 cut(s)	846
PciSI	GCTCTTC	1 cut(s)	1107
PcsI	WCGNNNNNNNCGW	1 cut(s)	684
PdmI	GAANNNNTTC	1 cut(s)	128
PfeI	GAWTC	1 cut(s)	1090
PkrI	GCNGC	2 cut(s)	742, 930
Ple19I	CGATCG	1 cut(s)	755
PleI	GAGTC	1 cut(s)	359
PpsI	GAGTC	1 cut(s)	359
PscI	ACATGT	1 cut(s)	846
Psp6I	CCWGG	1 cut(s)	281
PspGI	CCWGG	1 cut(s)	281
PsrI	GAACNNNNNNTAC	2 cut(s)	74, 106
PsuI	RGATCY	2 cut(s)	356, 963
PvuI	CGATCG	1 cut(s)	755
RsaI	GTAC	2 cut(s)	544, 805
RsaNI	GTAC	2 cut(s)	543, 804
RseI	CAYNNNNRTG	1 cut(s)	324
SapI	GCTCTTC	1 cut(s)	1107
SaqAI	TTAA	6 cut(s)	249, 582, 1008, 1035, 1140, 1173
SatI	GCNGC	2 cut(s)	741, 929
Sau3AI	GATC	7 cut(s)	356, 384, 752, 781, 963, 976, 1130
ScaI	AGTACT	2 cut(s)	544, 805
SchI	GAGTC	1 cut(s)	359
ScrFI	CCNGG	2 cut(s)	283, 605
SduI	GDGCHC	1 cut(s)	1156
SfaNI	GCATC	2 cut(s)	66, 340
SfuI	TTCGAA	1 cut(s)	873
SmiMI	CAYNNNNRTG	1 cut(s)	324
SmlI	CTYRAG	1 cut(s)	768
SmoI	CTYRAG	1 cut(s)	768
SpeI	ACTAGT	1 cut(s)	332
Sse9I	AATT	6 cut(s)	246, 475, 518, 808, 994, 1174
SsiI	CCGC	2 cut(s)	79, 279
SspI	AATATT	1 cut(s)	1063
SspMI	CTAG	1 cut(s)	333
StyD4I	CCNGG	2 cut(s)	281, 603
TaaI	ACNGT	4 cut(s)	152, 643, 710, 898
TaiI	ACGT	1 cut(s)	255
TaqI	TCGA	6 cut(s)	60, 307, 594, 755, 873, 1066
TasI	AATT	6 cut(s)	246, 475, 518, 808, 994, 1174
TatI	WGTACW	2 cut(s)	542, 803
TfiI	GAWTC	1 cut(s)	1090
Tru1I	TTAA	6 cut(s)	249, 582, 1008, 1035, 1140, 1173
Tru9I	TTAA	6 cut(s)	249, 582, 1008, 1035, 1140, 1173
TscAI	CASTG	3 cut(s)	488, 648, 901
TseFI	GTSAC	1 cut(s)	143
TseI	GCWGC	2 cut(s)	740, 928
Tsp45I	GTSAC	1 cut(s)	143
TspDTI	ATGAA	3 cut(s)	137, 567, 1178
TspGWI	ACGGA	1 cut(s)	1001
TspRI	CASTG	3 cut(s)	488, 648, 901
XapI	RAATTY	1 cut(s)	994
XceI	RCATGY	1 cut(s)	850
XmiI	GTMKAC	1 cut(s)	99
XmnI	GAANNNNTTC	1 cut(s)	128
XspI	CTAG	1 cut(s)	333
ZrmI	AGTACT	2 cut(s)	544, 805

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