Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0004160

Physical Location & Seq

Genomic Coordinates Forward (+)

13681217 .. 13687072

Gene Structure 5856 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG090600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1155 bp

ATGGTCTCAGAAGAGGAGAAGACGAAAGTTGTTTTCTTGACAAAGCCATTGTCATTAGAAAGCGAATCGAATGGTGATTACAGAGCTCCTAATATACTTAAGCGCGTCCTAAGCCTATTCAGAAATGTACGGCCAGGATCAGATCTCACTCGCTTCCAGCTGTCACCTCTCTTTAACATACCAAAGTCACAGCTCCAGTGTTTCGGTGAATGTGTGTACTGCATTAATAATGATATGTTAGGGAATTGCAACGAAGGGGAAACCCCCAAGGACAGGTTCACAGCCGTTGTATCGTGGAGTATTTCTACTTTGCGTCCTATGATTTTTGGAATTGCTCCATACAACCCCATTCTTGGAGAAACTCATCATGCGTCAAGGGGGAACCTCAATGTTCTACTTGAGCAGATTTCACATCATCCACCAGTTACTGCGATGCATGCAACTGATGAGAAATCAAACGTTGAAATGATATGGTGTAACCATCCTACTCCCAAATTCTATGGTACTTCCGTGGAAACTGAGGTGCATGGAAAAAGGGAGCTGAAGCTCCTGAATCATGGAGAAACTTATGAAATGAACGCCCCAAAACTTTTAATCAAATTCCTCCCAGTACCTTGGGTTAATTGGGTTGGTGAAAATAGAATCCGTTGTCATGAGACCGGCCTTGAAGCTGAGTTATACTATGGAAGCAGTTCCCTTTTTGGCCTTAGGGGAAATCCTAGATCAGTCAAGGGAAAGATCTTCGACTCATCATCCTTGGAGATTCTTTATGAGATAGATGGTCAATGGGATAGAACTGTCAAATTGAAGGACGTTAGCAGTGGGAAAGAAACAGTTATATACAATGCAAAAGAAGCCATCTCAGGACTCAAATCTCCTGTTGTTACAGATCCGAAGGGAGTCTGGCCGAGTGAGTCAGCTGTGATCTGGGGTTTGTTAAGCCAATCTATCCTGAACAAGGACTGGGGAAGAGCAAGAGAAGAAAAGAAAGAAGTTGAAGAAAAACAAAGGGAGCTATTTAGAGAAAGAGAAGCCAGAGGTGAAACTTGGGCTCCTAAGCATTTCATTGTGAACTATAGCAAAGAAGGTGGATGGGATTGCTCACCCATTCACAAGTGGGTACCACCAGCCCCCATATCTGTACCCATCTCGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Oxysterol_BP

Protein Analysis

384

Amino Acids

43.5

Weight (kDa)

6.84

Isoelectric Point (pI)

39.26

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Oxysterol_BP	PF01237	44 - 282	7.8e-44	Oxysterol-binding protein
Oxysterol_BP	PF01237	317 - 358	2.9e-06	Oxysterol-binding protein

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: OG0004160)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G25850 AT4G25850 AT4G25850 AT4G25860 AT4G25860 AT5G57240 AT5G57240 AT5G57240 AT5G57240 AT5G57240
fragaria_vesca	FvH4_4g07390 FvH4_4g07390 FvH4_4g07390 FvH4_4g07390 FvH4_4g07390 FvH4_4g07390
malus_domestica	MD13G1243400.v1.1 MD16G1249900.v1.1
prunus_persica	Prupe.1G076800_v2.0.a1 Prupe.1G076800_v2.0.a1
pyrus_communis	pycom13g21480
rosa_chinensis	RchiOBHm_Chr4g0399831
rosa_laevigata	RLG00000009239
rosa_multiflora	Rmu_sc0014676.1_g000015
rosa_roxburghii	Rroxscaffold_5G00344720
rosa_rugosa	Rorug04G0019100 Rorug04G0019200 Rorug04G0019300
rosa_samantha	Rh4AG096600 Rh4BG094000 Rh4CG105700 Rh4DG090600
rosa_wichuraiana	Rw4G007980

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	1120
AccB1I	GGYRCC	1 cut(s)	1120
AccII	CGCG	1 cut(s)	105
AclI	AACGTT	1 cut(s)	459
AclWI	GGATC	2 cut(s)	145, 884
AcoI	YGGCCR	2 cut(s)	131, 905
AcsI	RAATTY	2 cut(s)	494, 599
AcuI	CTGAAG	1 cut(s)	563
AfaI	GTAC	6 cut(s)	129, 218, 505, 612, 1122, 1143
AfiI	CCNNNNNNNGG	3 cut(s)	273, 353, 958
AflII	CTTAAG	1 cut(s)	98
AgsI	TTSAA	4 cut(s)	464, 668, 808, 998
AjnI	CCWGG	1 cut(s)	133
AjuI	GAANNNNNNNTTGG	2 cut(s)	260, 292
AluBI	AGCT	8 cut(s)	86, 160, 193, 541, 547, 671, 920, 1015
AluI	AGCT	8 cut(s)	86, 160, 193, 541, 547, 671, 920, 1015
Alw21I	GWGCWC	1 cut(s)	88
Alw26I	GTCTC	2 cut(s)	10, 650
AlwI	GGATC	2 cut(s)	145, 884
AlwNI	CAGNNNCTG	1 cut(s)	428
AoxI	GGCC	4 cut(s)	131, 661, 703, 905
ApoI	RAATTY	2 cut(s)	494, 599
ArsI	GACNNNNNNTTYG	2 cut(s)	35, 67
AseI	ATTAAT	1 cut(s)	225
Asp700I	GAANNNNTTC	1 cut(s)	691
Asp718I	GGTACC	1 cut(s)	1120
AspLEI	GCGC	1 cut(s)	105
AsuHPI	GGTGA	6 cut(s)	86, 156, 218, 644, 1052, 1095
AxyI	CCTNAGG	1 cut(s)	707
BaeI	ACNNNNGTAYC	2 cut(s)	495, 528
BanI	GGYRCC	1 cut(s)	1120
BanII	GRGCYC	2 cut(s)	88, 1054
BbsI	GAAGAC	1 cut(s)	26
Bbv12I	GWGCWC	1 cut(s)	88
BccI	CCATC	5 cut(s)	489, 773, 866, 1086, 1154
BceAI	ACGGC	2 cut(s)	146, 269
BciT130I	CCWGG	1 cut(s)	135
BcoDI	GTCTC	2 cut(s)	10, 650
BfaI	CTAG	1 cut(s)	720
BfmI	CTRYAG	1 cut(s)	1075
BfrI	CTTAAG	1 cut(s)	98
BglII	AGATCT	2 cut(s)	142, 738
Bme1390I	CCNGG	1 cut(s)	135
BmiI	GGNNCC	3 cut(s)	383, 1053, 1122
BmrFI	CCNGG	1 cut(s)	135
BmrI	ACTGGG	2 cut(s)	602, 973
BmsI	GCATC	1 cut(s)	423
BmuI	ACTGGG	2 cut(s)	602, 973
BpiI	GAAGAC	1 cut(s)	26
BpmI	CTGGAG	1 cut(s)	179
Bpu10I	CCTNAGC	2 cut(s)	110, 1056
BpuEI	CTTGAG	1 cut(s)	419
BsaI	GGTCTC	2 cut(s)	10, 650
BsaJI	CCNNGG	4 cut(s)	267, 510, 614, 756
BsaXI	ACNNNNNCTCC	2 cut(s)	1036, 1066
Bsc4I	CCNNNNNNNGG	3 cut(s)	273, 353, 958
Bse118I	RCCGGY	1 cut(s)	659
Bse1I	ACTGG	4 cut(s)	196, 422, 608, 968
Bse21I	CCTNAGG	1 cut(s)	707
BseBI	CCWGG	1 cut(s)	135
BseDI	CCNNGG	4 cut(s)	267, 510, 614, 756
BseGI	GGATG	4 cut(s)	415, 481, 752, 1097
BseLI	CCNNNNNNNGG	3 cut(s)	273, 353, 958
BseMII	CTCAG	4 cut(s)	21, 510, 663, 876
BseNI	ACTGG	4 cut(s)	196, 422, 608, 968
BseRI	GAGGAG	1 cut(s)	29
Bsh1236I	CGCG	1 cut(s)	105
BshFI	GGCC	4 cut(s)	133, 663, 705, 907
BshNI	GGYRCC	1 cut(s)	1120
BsiHKAI	GWGCWC	1 cut(s)	88
BsiSI	CCGG	1 cut(s)	660
BslI	CCNNNNNNNGG	3 cut(s)	273, 353, 958
BsmAI	GTCTC	2 cut(s)	10, 650
BsnI	GGCC	4 cut(s)	133, 663, 705, 907
Bso31I	GGTCTC	2 cut(s)	10, 650
Bsp1286I	GDGCHC	2 cut(s)	88, 1054
Bsp143I	GATC	6 cut(s)	137, 142, 722, 738, 889, 924
BspANI	GGCC	4 cut(s)	133, 663, 705, 907
BspCNI	CTCAG	4 cut(s)	20, 511, 664, 875
BspFNI	CGCG	1 cut(s)	105
BspHI	TCATGA	1 cut(s)	652
BspLI	GGNNCC	3 cut(s)	383, 1053, 1122
BspPI	GGATC	2 cut(s)	145, 884
BspQI	GCTCTTC	1 cut(s)	964
BspT107I	GGYRCC	1 cut(s)	1120
BspTI	CTTAAG	1 cut(s)	98
BspTNI	GGTCTC	2 cut(s)	10, 650
BsrFI	RCCGGY	1 cut(s)	659
BsrI	ACTGG	4 cut(s)	196, 422, 608, 968
BssAI	RCCGGY	1 cut(s)	659
BssECI	CCNNGG	4 cut(s)	267, 510, 614, 756
BssMI	GATC	6 cut(s)	137, 142, 722, 738, 889, 924
BssT1I	CCWWGG	3 cut(s)	267, 614, 756
Bst2UI	CCWGG	1 cut(s)	135
Bst4CI	ACNGT	2 cut(s)	799, 835
Bst6I	CTCTTC	2 cut(s)	6, 964
BstAFI	CTTAAG	1 cut(s)	98
BstC8I	GCNNGC	1 cut(s)	438
BstDEI	CTNAG	7 cut(s)	7, 110, 519, 672, 707, 862, 1056
BstDSI	CCRYGG	1 cut(s)	510
BstENI	CCTNNNNNAGG	1 cut(s)	956
BstF5I	GGATG	4 cut(s)	415, 481, 752, 1097
BstFNI	CGCG	1 cut(s)	105
BstHHI	GCGC	1 cut(s)	105
BstKTI	GATC	6 cut(s)	140, 145, 725, 741, 892, 927
BstMAI	GTCTC	2 cut(s)	10, 650
BstMBI	GATC	6 cut(s)	137, 142, 722, 738, 889, 924
BstMWI	GCNNNNNNNGC	3 cut(s)	111, 437, 854
BstNI	CCWGG	1 cut(s)	135
BstNSI	RCATGY	1 cut(s)	440
BstSCI	CCNGG	1 cut(s)	133
BstSFI	CTRYAG	1 cut(s)	1075
BstUI	CGCG	1 cut(s)	105
BstV2I	GAAGAC	1 cut(s)	26
BstX2I	RGATCY	3 cut(s)	142, 738, 889
BstXI	CCANNNNNNTGG	1 cut(s)	615
BstYI	RGATCY	3 cut(s)	142, 738, 889
Bsu36I	CCTNAGG	1 cut(s)	707
BsuRI	GGCC	4 cut(s)	133, 663, 705, 907
BtgI	CCRYGG	1 cut(s)	510
BtgZI	GCGATG	1 cut(s)	446
BtsCI	GGATG	4 cut(s)	415, 481, 752, 1097
BtsI	GCAGTG	1 cut(s)	826
BtsIMutI	CAGTG	2 cut(s)	203, 826
Cac8I	GCNNGC	1 cut(s)	438
CaiI	CAGNNNCTG	1 cut(s)	428
CciI	TCATGA	1 cut(s)	652
CfoI	GCGC	1 cut(s)	105
Cfr10I	RCCGGY	1 cut(s)	659
CseI	GACGC	3 cut(s)	94, 302, 360
Csp6I	GTAC	6 cut(s)	128, 217, 504, 611, 1121, 1142
CspCI	CAANNNNNGTGG	2 cut(s)	1069, 1104
CviAII	CATG	5 cut(s)	368, 437, 527, 557, 653
CviQI	GTAC	6 cut(s)	128, 217, 504, 611, 1121, 1142
DdeI	CTNAG	7 cut(s)	7, 110, 519, 672, 707, 862, 1056
DpnI	GATC	6 cut(s)	139, 144, 724, 740, 891, 926
DpnII	GATC	6 cut(s)	137, 142, 722, 738, 889, 924
EaeI	YGGCCR	2 cut(s)	131, 905
Eam1104I	CTCTTC	2 cut(s)	6, 964
EarI	CTCTTC	2 cut(s)	6, 964
Ecl136II	GAGCTC	1 cut(s)	86
Eco130I	CCWWGG	3 cut(s)	267, 614, 756
Eco24I	GRGCYC	2 cut(s)	88, 1054
Eco31I	GGTCTC	2 cut(s)	10, 650
Eco53kI	GAGCTC	1 cut(s)	86
Eco57I	CTGAAG	1 cut(s)	563
Eco81I	CCTNAGG	1 cut(s)	707
EcoICRI	GAGCTC	1 cut(s)	86
EcoNI	CCTNNNNNAGG	1 cut(s)	956
EcoRII	CCWGG	1 cut(s)	133
EcoT14I	CCWWGG	3 cut(s)	267, 614, 756
EcoT22I	ATGCAT	1 cut(s)	438
EcoT38I	GRGCYC	2 cut(s)	88, 1054
ErhI	CCWWGG	3 cut(s)	267, 614, 756
FaeI	CATG	5 cut(s)	371, 440, 530, 560, 656
FatI	CATG	5 cut(s)	367, 436, 526, 556, 652
FokI	GGATG	4 cut(s)	402, 468, 739, 1104
FriOI	GRGCYC	2 cut(s)	88, 1054
FspBI	CTAG	1 cut(s)	720
GlaI	GCGC	1 cut(s)	104
GsuI	CTGGAG	1 cut(s)	179
HaeIII	GGCC	4 cut(s)	133, 663, 705, 907
HapII	CCGG	1 cut(s)	660
HgaI	GACGC	3 cut(s)	94, 302, 360
HhaI	GCGC	1 cut(s)	105
Hin1II	CATG	5 cut(s)	371, 440, 530, 560, 656
Hin6I	GCGC	1 cut(s)	103
HinP1I	GCGC	1 cut(s)	103
HinfI	GANTC	8 cut(s)	65, 553, 642, 746, 763, 867, 900, 914
HpaII	CCGG	1 cut(s)	660
HphI	GGTGA	6 cut(s)	86, 156, 218, 644, 1052, 1095
Hpy166II	GTNNAC	3 cut(s)	217, 279, 1072
Hpy188I	TCNGA	4 cut(s)	10, 122, 142, 894
Hpy188III	TCNNGA	5 cut(s)	37, 550, 653, 864, 952
Hpy8I	GTNNAC	3 cut(s)	217, 279, 1072
HpyAV	CCTTC	4 cut(s)	248, 802, 889, 1079
HpyCH4III	ACNGT	2 cut(s)	799, 835
HpyCH4IV	ACGT	2 cut(s)	459, 813
HpyCH4V	TGCA	6 cut(s)	222, 249, 436, 440, 526, 848
HpyF10VI	GCNNNNNNNGC	3 cut(s)	111, 437, 854
HpyF3I	CTNAG	7 cut(s)	7, 110, 519, 672, 707, 862, 1056
HpySE526I	ACGT	2 cut(s)	459, 813
Hsp92II	CATG	5 cut(s)	371, 440, 530, 560, 656
HspAI	GCGC	1 cut(s)	103
KpnI	GGTACC	1 cut(s)	1124
Kzo9I	GATC	6 cut(s)	137, 142, 722, 738, 889, 924
LguI	GCTCTTC	1 cut(s)	964
LmnI	GCTCC	7 cut(s)	91, 198, 340, 538, 552, 1012, 1057
LweI	GCATC	1 cut(s)	423
MaeI	CTAG	1 cut(s)	720
MaeII	ACGT	2 cut(s)	459, 813
MaeIII	GTNAC	5 cut(s)	162, 186, 424, 476, 883
MalI	GATC	6 cut(s)	139, 144, 724, 740, 891, 926
MboI	GATC	6 cut(s)	137, 142, 722, 738, 889, 924
MboII	GAAGA	6 cut(s)	23, 31, 733, 981, 992, 1010
MflI	RGATCY	3 cut(s)	142, 738, 889
MhlI	GDGCHC	2 cut(s)	88, 1054
MluCI	AATT	6 cut(s)	244, 330, 494, 599, 622, 803
MlyI	GAGTC	4 cut(s)	740, 861, 909, 923
MnlI	CCTC	6 cut(s)	7, 177, 395, 514, 614, 1031
Mph1103I	ATGCAT	1 cut(s)	438
MroXI	GAANNNNTTC	1 cut(s)	691
MseI	TTAA	6 cut(s)	99, 174, 225, 593, 621, 938
MspA1I	CMGCKG	2 cut(s)	160, 920
MspCI	CTTAAG	1 cut(s)	98
MspI	CCGG	1 cut(s)	660
MspR9I	CCNGG	1 cut(s)	135
MvaI	CCWGG	1 cut(s)	135
MvnI	CGCG	1 cut(s)	105
MwoI	GCNNNNNNNGC	3 cut(s)	111, 437, 854
NdeII	GATC	6 cut(s)	137, 142, 722, 738, 889, 924
NlaIII	CATG	5 cut(s)	371, 440, 530, 560, 656
NlaIV	GGNNCC	3 cut(s)	383, 1053, 1122
NmeAIII	GCCGAG	1 cut(s)	933
NmuCI	GTSAC	2 cut(s)	162, 186
NsiI	ATGCAT	1 cut(s)	438
NspI	RCATGY	1 cut(s)	440
PaeI	GCATGC	1 cut(s)	440
PagI	TCATGA	1 cut(s)	652
PciSI	GCTCTTC	1 cut(s)	964
PdmI	GAANNNNTTC	1 cut(s)	691
PfeI	GAWTC	4 cut(s)	65, 553, 642, 763
PleI	GAGTC	4 cut(s)	740, 861, 908, 922
PpsI	GAGTC	4 cut(s)	740, 861, 908, 922
PshBI	ATTAAT	1 cut(s)	225
Psp124BI	GAGCTC	1 cut(s)	88
Psp1406I	AACGTT	1 cut(s)	459
Psp6I	CCWGG	1 cut(s)	133
PspGI	CCWGG	1 cut(s)	133
PspN4I	GGNNCC	3 cut(s)	383, 1053, 1122
PstNI	CAGNNNCTG	1 cut(s)	428
PsuI	RGATCY	3 cut(s)	142, 738, 889
PvuII	CAGCTG	2 cut(s)	160, 920
RsaI	GTAC	6 cut(s)	129, 218, 505, 612, 1122, 1143
RsaNI	GTAC	6 cut(s)	128, 217, 504, 611, 1121, 1142
SacI	GAGCTC	1 cut(s)	88
SapI	GCTCTTC	1 cut(s)	964
SaqAI	TTAA	6 cut(s)	99, 174, 225, 593, 621, 938
Sau3AI	GATC	6 cut(s)	137, 142, 722, 738, 889, 924
SchI	GAGTC	4 cut(s)	740, 861, 909, 923
ScrFI	CCNGG	1 cut(s)	135
SduI	GDGCHC	2 cut(s)	88, 1054
SfaNI	GCATC	1 cut(s)	423
SfcI	CTRYAG	1 cut(s)	1075
SmlI	CTYRAG	2 cut(s)	98, 398
SmoI	CTYRAG	2 cut(s)	98, 398
SphI	GCATGC	1 cut(s)	440
Sse9I	AATT	6 cut(s)	244, 330, 494, 599, 622, 803
SspMI	CTAG	1 cut(s)	720
SstI	GAGCTC	1 cut(s)	88
StyD4I	CCNGG	1 cut(s)	133
StyI	CCWWGG	3 cut(s)	267, 614, 756
TaaI	ACNGT	2 cut(s)	799, 835
TaiI	ACGT	2 cut(s)	462, 816
TaqI	TCGA	2 cut(s)	68, 744
TasI	AATT	6 cut(s)	244, 330, 494, 599, 622, 803
TatI	WGTACW	1 cut(s)	216
TfiI	GAWTC	4 cut(s)	65, 553, 642, 763
Tru1I	TTAA	6 cut(s)	99, 174, 225, 593, 621, 938
Tru9I	TTAA	6 cut(s)	99, 174, 225, 593, 621, 938
TscAI	CASTG	2 cut(s)	203, 826
TseFI	GTSAC	2 cut(s)	162, 186
Tsp45I	GTSAC	2 cut(s)	162, 186
TspDTI	ATGAA	3 cut(s)	585, 590, 1054
TspGWI	ACGGA	2 cut(s)	499, 635
TspRI	CASTG	2 cut(s)	203, 826
Vha464I	CTTAAG	1 cut(s)	98
VspI	ATTAAT	1 cut(s)	225
XagI	CCTNNNNNAGG	1 cut(s)	956
XapI	RAATTY	2 cut(s)	494, 599
XceI	RCATGY	1 cut(s)	440
XmnI	GAANNNNTTC	1 cut(s)	691
XspI	CTAG	1 cut(s)	720
Zsp2I	ATGCAT	1 cut(s)	438

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