Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0009770

Physical Location & Seq

Genomic Coordinates Forward (+)

28851831 .. 28854002

Gene Structure 2172 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG174500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1245 bp

ATGGAAGAAGGGATGAAGAGAATGAAGAGAATAACAGACGAAGCGTTCACTTCTTTTCAATCATTGCCGCTTGCTTCTTCGCGCGGTGACTCCGTTGGAGTAGGTGCCTCACAGAAATTGCCGATGAATGATGCTCTTACATACATCAAAGAAGTGGAGGACGCGTTTCAAGACCAAAGAGAAAAGTATAATATGTTTCTTGAGGTCTTGAAGGATTTCCCCTTCAAGCCTCAAAGAAATGACATGGTAGGTGTCATTGCAAGAGTAAGGGAATTGTTTAAAGGGCATACCAAGTTACTTTTGGGGTTTAATACCTTCTTGCCAAAGGGTTTTGAGATAACTCTTGAGGAAGTGGAACCAATAAAGACAGCTTCACAGAAATTGTCGATGAATGATGCTCGTACATACATCAAAGAAGTGGAGGACACGTTTCAAGACCAAAGAGAAAAGTATAATATGTTTCTTGAGGTCTTGAAGGATTTCCTTTTGAAGCCTGAAAGAAATGACATGGTAGGTGTCATTGCAAGAGTAATGGAATTGTTTAAAGGGCATACCAAGTTACTTTTGGGGTTTAATACCTTCTTGCCAAAGGGTTTTGAGATAACTCTTGAGGAAGTGGAACCAATAAGGACAGTTAAGTCCGGACAAGCTATCAGTTTTTTAAACAAGATGAAGAAACGTTTCCAAAATGATGAGCGGGTATACAAGTCATTCGTCAACATAGTGAATATGTATGTAAAGGAGCACAAGGACGTAAATGAGGTTTACCAGGAGGTTGCTTCTCTATTTGATGACCAACCAGATTTGCTGGATGAGTTCACTGGATTTTTACCACCAGATATGTCAGCAACAACTTCAACTAATCAGGGGCAATATGGTTGCAGTGCATATCCCTGTTTTAAAAAGCAGAGCTCTGCTATACCCACTTTGCAACCAATGCCTATTGGCACGCAACATAGGCTGGATAAGATTACTTCTCATGGTGATCATGATATTAGTGTTGATCGTCCTGAGCTAGATGATGACAACGGAATGATGAAAGTACTGAAGGAGCAGAGAAAGCGTTTTTCTGAGATGGAGAATAGGGATAGGAGAAATCATGACCATGAAGATAGAGAACTGGAGACTGATAACAACAGAGACTACAACTTGCAGCGTTTCCAGAGAAAAAAAAATCTTCCAGGAATGTTGAAGGTTTTGGAGCGAATGCTAACTTTACTCCTAATGATGACAAAGACACCTTGA

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

414

Amino Acids

48.22

Weight (kDa)

6.15

Isoelectric Point (pI)

30.7

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PAH	PF02671	61 - 107	2.7e-14	Paired amphipathic helix repeat
PAH	PF02671	149 - 195	1.3e-12	Paired amphipathic helix repeat
PAH	PF02671	234 - 277	2.8e-14	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)	637
AccB1I	GGYRCC	1 cut(s)	104
AccBSI	CCGCTC	1 cut(s)	697
AccI	GTMKAC	1 cut(s)	702
AccII	CGCG	3 cut(s)	82, 84, 164
AccIII	TCCGGA	1 cut(s)	641
AciI	CCGC	3 cut(s)	68, 84, 697
AclI	AACGTT	1 cut(s)	679
AcuI	CTGAAG	1 cut(s)	1067
AfaI	GTAC	2 cut(s)	403, 1044
AflIII	ACRYGT	2 cut(s)	162, 426
AgsI	TTSAA	9 cut(s)	59, 170, 211, 226, 434, 475, 490, 858, 1192
AjnI	CCWGG	2 cut(s)	768, 1180
AluBI	AGCT	4 cut(s)	371, 650, 912, 1015
AluI	AGCT	4 cut(s)	371, 650, 912, 1015
Alw21I	GWGCWC	2 cut(s)	747, 914
Alw26I	GTCTC	2 cut(s)	1118, 1134
Aor13HI	TCCGGA	1 cut(s)	641
ApeKI	GCWGC	1 cut(s)	1153
Asp700I	GAANNNNTTC	3 cut(s)	215, 479, 680
AspLEI	GCGC	1 cut(s)	84
AsuHPI	GGTGA	2 cut(s)	98, 995
BanI	GGYRCC	1 cut(s)	104
BanII	GRGCYC	1 cut(s)	914
Bbv12I	GWGCWC	2 cut(s)	747, 914
BbvI	GCAGC	1 cut(s)	1165
BccI	CCATC	1 cut(s)	1069
BciT130I	CCWGG	2 cut(s)	770, 1182
BclI	TGATCA	1 cut(s)	985
BcoDI	GTCTC	2 cut(s)	1118, 1134
BfaI	CTAG	1 cut(s)	1016
BisI	GCNGC	2 cut(s)	68, 1154
BlsI	GCNGC	2 cut(s)	69, 1155
BmcAI	AGTACT	1 cut(s)	1044
Bme1390I	CCNGG	2 cut(s)	770, 1182
BmiI	GGNNCC	3 cut(s)	106, 357, 621
BmrFI	CCNGG	2 cut(s)	770, 1182
BmsI	GCATC	2 cut(s)	121, 385
BpmI	CTGGAG	1 cut(s)	1142
Bpu10I	CCTNAGC	1 cut(s)	1011
BpuEI	CTTGAG	4 cut(s)	221, 365, 485, 629
BsaWI	WCCGGW	1 cut(s)	641
BsaXI	ACNNNNNCTCC	4 cut(s)	149, 179, 413, 443
Bse1I	ACTGG	2 cut(s)	826, 1125
Bse3DI	GCAATG	3 cut(s)	62, 255, 519
BseAI	TCCGGA	1 cut(s)	641
BseBI	CCWGG	2 cut(s)	770, 1182
BseGI	GGATG	2 cut(s)	18, 817
BseMI	GCAATG	3 cut(s)	62, 255, 519
BseMII	CTCAG	2 cut(s)	1002, 1062
BseNI	ACTGG	2 cut(s)	826, 1125
BseXI	GCAGC	1 cut(s)	1165
Bsh1236I	CGCG	3 cut(s)	82, 84, 164
BshNI	GGYRCC	1 cut(s)	104
BsiHKAI	GWGCWC	2 cut(s)	747, 914
BsiSI	CCGG	1 cut(s)	642
BsmAI	GTCTC	2 cut(s)	1118, 1134
BsmI	GAATGC	1 cut(s)	1212
Bsp1286I	GDGCHC	2 cut(s)	747, 914
Bsp13I	TCCGGA	1 cut(s)	641
Bsp143I	GATC	2 cut(s)	985, 1003
BspACI	CCGC	3 cut(s)	68, 84, 697
BspCNI	CTCAG	2 cut(s)	1003, 1063
BspEI	TCCGGA	1 cut(s)	641
BspFNI	CGCG	3 cut(s)	82, 84, 164
BspHI	TCATGA	2 cut(s)	988, 1099
BspLI	GGNNCC	3 cut(s)	106, 357, 621
BspT107I	GGYRCC	1 cut(s)	104
BsrBI	CCGCTC	1 cut(s)	697
BsrDI	GCAATG	3 cut(s)	62, 255, 519
BsrI	ACTGG	2 cut(s)	826, 1125
BssMI	GATC	2 cut(s)	985, 1003
BssNAI	GTATAC	1 cut(s)	703
Bst1107I	GTATAC	1 cut(s)	703
Bst2UI	CCWGG	2 cut(s)	770, 1182
Bst4CI	ACNGT	1 cut(s)	634
Bst6I	CTCTTC	2 cut(s)	11, 20
BstAPI	GCANNNNNTGC	1 cut(s)	937
BstC8I	GCNNGC	2 cut(s)	72, 950
BstDEI	CTNAG	2 cut(s)	1011, 1071
BstF5I	GGATG	2 cut(s)	18, 817
BstFNI	CGCG	3 cut(s)	82, 84, 164
BstHHI	GCGC	1 cut(s)	84
BstKTI	GATC	2 cut(s)	988, 1006
BstMAI	GTCTC	2 cut(s)	1118, 1134
BstMBI	GATC	2 cut(s)	985, 1003
BstMWI	GCNNNNNNNGC	3 cut(s)	937, 958, 1060
BstNI	CCWGG	2 cut(s)	770, 1182
BstSCI	CCNGG	2 cut(s)	768, 1180
BstUI	CGCG	3 cut(s)	82, 84, 164
BstV1I	GCAGC	1 cut(s)	1165
BstZ17I	GTATAC	1 cut(s)	703
BtsCI	GGATG	2 cut(s)	18, 817
BtsI	GCAGTG	1 cut(s)	889
BtsIMutI	CAGTG	2 cut(s)	819, 889
Cac8I	GCNNGC	2 cut(s)	72, 950
CciI	TCATGA	2 cut(s)	988, 1099
CfoI	GCGC	1 cut(s)	84
CseI	GACGC	1 cut(s)	170
Csp6I	GTAC	2 cut(s)	402, 1043
CviAII	CATG	6 cut(s)	244, 508, 980, 989, 1100, 1106
CviJI	RGCY	7 cut(s)	229, 371, 493, 650, 912, 961, 1015
CviKI_1	RGCY	7 cut(s)	229, 371, 493, 650, 912, 961, 1015
CviQI	GTAC	2 cut(s)	402, 1043
DdeI	CTNAG	2 cut(s)	1011, 1071
DpnI	GATC	2 cut(s)	987, 1005
DpnII	GATC	2 cut(s)	985, 1003
DraI	TTTAAA	4 cut(s)	280, 544, 663, 901
DrdI	GACNNNNNNGTC	1 cut(s)	637
DseDI	GACNNNNNNGTC	1 cut(s)	637
Eam1104I	CTCTTC	2 cut(s)	11, 20
EarI	CTCTTC	2 cut(s)	11, 20
Ecl136II	GAGCTC	1 cut(s)	912
Eco24I	GRGCYC	1 cut(s)	914
Eco53kI	GAGCTC	1 cut(s)	912
Eco57I	CTGAAG	1 cut(s)	1067
EcoICRI	GAGCTC	1 cut(s)	912
EcoRII	CCWGG	2 cut(s)	768, 1180
EcoT38I	GRGCYC	1 cut(s)	914
FaeI	CATG	6 cut(s)	247, 511, 983, 992, 1103, 1109
FatI	CATG	6 cut(s)	243, 507, 979, 988, 1099, 1105
FauI	CCCGC	1 cut(s)	690
FbaI	TGATCA	1 cut(s)	985
FblI	GTMKAC	1 cut(s)	702
Fnu4HI	GCNGC	2 cut(s)	68, 1154
FokI	GGATG	2 cut(s)	25, 824
FriOI	GRGCYC	1 cut(s)	914
Fsp4HI	GCNGC	2 cut(s)	68, 1154
FspBI	CTAG	1 cut(s)	1016
GlaI	GCGC	1 cut(s)	83
GluI	GCNGC	2 cut(s)	68, 1154
GsuI	CTGGAG	1 cut(s)	1142
HapII	CCGG	1 cut(s)	642
HgaI	GACGC	1 cut(s)	170
HhaI	GCGC	1 cut(s)	84
Hin1II	CATG	6 cut(s)	247, 511, 983, 992, 1103, 1109
Hin6I	GCGC	1 cut(s)	82
HinP1I	GCGC	1 cut(s)	82
HincII	GTYRAC	1 cut(s)	718
HindII	GTYRAC	1 cut(s)	718
HinfI	GANTC	1 cut(s)	89
HpaII	CCGG	1 cut(s)	642
HphI	GGTGA	2 cut(s)	98, 995
Hpy166II	GTNNAC	5 cut(s)	48, 703, 718, 766, 819
Hpy188I	TCNGA	1 cut(s)	1072
Hpy8I	GTNNAC	5 cut(s)	48, 703, 718, 766, 819
HpyAV	CCTTC	7 cut(s)	205, 232, 325, 469, 589, 1042, 1186
HpyCH4III	ACNGT	1 cut(s)	634
HpyCH4IV	ACGT	3 cut(s)	428, 679, 753
HpyCH4V	TGCA	6 cut(s)	260, 524, 882, 887, 931, 1153
HpyF10VI	GCNNNNNNNGC	3 cut(s)	937, 958, 1060
HpyF3I	CTNAG	2 cut(s)	1011, 1071
HpySE526I	ACGT	3 cut(s)	428, 679, 753
Hsp92II	CATG	6 cut(s)	247, 511, 983, 992, 1103, 1109
HspAI	GCGC	1 cut(s)	82
Kpn2I	TCCGGA	1 cut(s)	641
Ksp22I	TGATCA	1 cut(s)	985
Kzo9I	GATC	2 cut(s)	985, 1003
LmnI	GCTCC	3 cut(s)	742, 1051, 1201
Lsp1109I	GCAGC	1 cut(s)	1165
LweI	GCATC	2 cut(s)	121, 385
MaeI	CTAG	1 cut(s)	1016
MaeII	ACGT	3 cut(s)	428, 679, 753
MaeIII	GTNAC	3 cut(s)	86, 294, 558
MalI	GATC	2 cut(s)	987, 1005
MbiI	CCGCTC	1 cut(s)	697
MboI	GATC	2 cut(s)	985, 1003
MboII	GAAGA	7 cut(s)	17, 28, 37, 69, 685, 1121, 1169
MhlI	GDGCHC	2 cut(s)	747, 914
MluCI	AATT	4 cut(s)	116, 272, 380, 536
MluI	ACGCGT	1 cut(s)	162
MlyI	GAGTC	1 cut(s)	83
MmeI	TCCRAC	1 cut(s)	76
MroI	TCCGGA	1 cut(s)	641
MroXI	GAANNNNTTC	3 cut(s)	215, 479, 680
MseI	TTAA	7 cut(s)	279, 309, 543, 573, 636, 662, 900
MslI	CAYNNNNRTG	1 cut(s)	1104
MspI	CCGG	1 cut(s)	642
MspR9I	CCNGG	2 cut(s)	770, 1182
Mva1269I	GAATGC	1 cut(s)	1212
MvaI	CCWGG	2 cut(s)	770, 1182
MvnI	CGCG	3 cut(s)	82, 84, 164
MwoI	GCNNNNNNNGC	3 cut(s)	937, 958, 1060
NdeII	GATC	2 cut(s)	985, 1003
NlaIII	CATG	6 cut(s)	247, 511, 983, 992, 1103, 1109
NlaIV	GGNNCC	3 cut(s)	106, 357, 621
NmuCI	GTSAC	1 cut(s)	86
PagI	TCATGA	2 cut(s)	988, 1099
PctI	GAATGC	1 cut(s)	1212
PdmI	GAANNNNTTC	3 cut(s)	215, 479, 680
PfoI	TCCNGGA	1 cut(s)	1180
PkrI	GCNGC	2 cut(s)	69, 1155
PleI	GAGTC	1 cut(s)	83
PpsI	GAGTC	1 cut(s)	83
Psp124BI	GAGCTC	1 cut(s)	914
Psp1406I	AACGTT	1 cut(s)	679
Psp6I	CCWGG	2 cut(s)	768, 1180
PspGI	CCWGG	2 cut(s)	768, 1180
PspN4I	GGNNCC	3 cut(s)	106, 357, 621
RsaI	GTAC	2 cut(s)	403, 1044
RsaNI	GTAC	2 cut(s)	402, 1043
RseI	CAYNNNNRTG	1 cut(s)	1104
SacI	GAGCTC	1 cut(s)	914
SaqAI	TTAA	7 cut(s)	279, 309, 543, 573, 636, 662, 900
SatI	GCNGC	2 cut(s)	68, 1154
Sau3AI	GATC	2 cut(s)	985, 1003
ScaI	AGTACT	1 cut(s)	1044
SchI	GAGTC	1 cut(s)	83
ScrFI	CCNGG	2 cut(s)	770, 1182
SduI	GDGCHC	2 cut(s)	747, 914
SfaNI	GCATC	2 cut(s)	121, 385
SmiMI	CAYNNNNRTG	1 cut(s)	1104
SmlI	CTYRAG	4 cut(s)	200, 344, 464, 608
SmoI	CTYRAG	4 cut(s)	200, 344, 464, 608
Sse9I	AATT	4 cut(s)	116, 272, 380, 536
SsiI	CCGC	3 cut(s)	68, 84, 697
SspMI	CTAG	1 cut(s)	1016
SstI	GAGCTC	1 cut(s)	914
StyD4I	CCNGG	2 cut(s)	768, 1180
TaaI	ACNGT	1 cut(s)	634
TaiI	ACGT	3 cut(s)	431, 682, 756
TaqI	TCGA	1 cut(s)	386
TasI	AATT	4 cut(s)	116, 272, 380, 536
TatI	WGTACW	1 cut(s)	1042
TauI	GCSGC	1 cut(s)	70
Tru1I	TTAA	7 cut(s)	279, 309, 543, 573, 636, 662, 900
Tru9I	TTAA	7 cut(s)	279, 309, 543, 573, 636, 662, 900
TscAI	CASTG	2 cut(s)	826, 889
TseFI	GTSAC	1 cut(s)	86
TseI	GCWGC	1 cut(s)	1153
Tsp45I	GTSAC	1 cut(s)	86
TspDTI	ATGAA	7 cut(s)	29, 38, 140, 404, 686, 1052, 1122
TspGWI	ACGGA	2 cut(s)	82, 1044
TspRI	CASTG	2 cut(s)	826, 889
XcmI	CCANNNNNNNNNTGG	2 cut(s)	298, 562
XmiI	GTMKAC	1 cut(s)	702
XmnI	GAANNNNTTC	3 cut(s)	215, 479, 680
XspI	CTAG	1 cut(s)	1016
ZrmI	AGTACT	1 cut(s)	1044

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