Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0007914

Physical Location & Seq

Genomic Coordinates Reverse (-)

30645122 .. 30647703

Gene Structure 2582 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG269300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1338 bp

ATGGAAGAGAGCGAGAAAGTGAGAGAGTGGATCAGGAAGGAAGTTCAAGATTGGGATGACGAATTGGTTTGCAGAGCCCGATTCAAAGCCTTCAGTGGCCAACGATCCGATTGGGAACCCATTTACCTCTTCTGGAGAAACTTGATTCTCACCATCGCTCGGCAATTAGGCCTCTTCATCATCCGACCCTCTCACCTAAAGACCCATTGGTTCAATCGAGGAGGACTCACTCCCTTATGCCTCGACGACGTTTTGTTTGTGATGTACAATGAAGGTGAAATTGTGCCCACTGTGGATGTTGCGGACCCCACTTCGGGTCGTCTCTCCCAGATTTTCAGAAGAGTCACCAGCTCCGTGCTTGGCCTTGCTTCATCAACCCCAACTCCTCAGCTTCTTGTGTCCCATGAGCGTCTCGTTCTTACCCCACTTCTCAAGGATAAAGCTGTTCAAATTGTGGAAGGTTTGTCGGAATGCCATTGGAATTCTTGGTGCATTGTCACCATGAAGAGGTTCCGGGACTTGTGTGGAGGACCCTTTGAAGGTTCTGCAATCTTGTCTCACTTGTCTGCGCAAGGCAAGGCGCGGTATCTCTCACTTCCCAACAGGGGAGACTTATTCGAGGGTGTGAAAGTTTCCATTTCAGCATCTTCTGTTCCTAGTGTTTCAAGTTTAGATCGTGATGTTTTGCACTTGAATTGGACGAGAGAGAGACTTCAACAACAACTTGATGTAATTGACCGCCGCTGTGAAACGTTAAGAAAATCAGCATTAGCTTGTTTGCATTCCGGAAACAAGAAAGTGGCTCTGCGGCATGCAAGGGAGTTGAAGTTGGCGAATGAGAGTAGAGAAAAATGTGCAAACTTCTTGAACAGAGTGGTGGAAGTGCTTGATTTTATCGCAAATGCTGAATTGACAAAGAAGGTTTCTGAAGCCATCCAAATTGGAGCTAAAGCTATAAAGGAAAATAGGATTAGTATGGAAGAAGTCGAAGATAGCCTACAAGAAATTGAGGAGAGCATTGATACATTAAAGCAATTAGAAAATGTTATAGAATCAACCCCCCTGTACTCAGTTACGGATGATGAAGAAAATATCGAAGAGGAGTTCAAGAAACTAGAACTGGATATTGGACTTGAAAACCATCACGAACCAATCCAGGAAACCGAGATTAATAATGCAGTAGAAACAGACATTTCAGAATCTGCTGAAGCGTTGATAGATTCTTTATCAAATCTCAAGCTCGTGGATGGTGGTCAAGCAAGGATACCAGCAGTTCACAGCACTGCCTCGACAGCAAGAAACAACAAAACAAAAGGTCCTGAGCTAGCAACTGCCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000278 GO:0000280 GO:0000815 GO:0003674 GO:0005215 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005635 GO:0005737 GO:0005768 GO:0006810 GO:0006996 GO:0006997 GO:0006998 GO:0007034 GO:0007049 GO:0008104 GO:0008150 GO:0008565 GO:0009987 GO:0010008 GO:0010256 GO:0010458 GO:0012505 GO:0015031 GO:0015833 GO:0016020 GO:0016043 GO:0016192 GO:0022402 GO:0031090 GO:0031410 GO:0031468 GO:0031967 GO:0031975 GO:0031982 GO:0032991 GO:0033036 GO:0036452 GO:0042886 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044425 GO:0044428 GO:0044433 GO:0044440 GO:0044444 GO:0044446 GO:0044464 GO:0044770 GO:0044772 GO:0045184 GO:0045324 GO:0046907 GO:0048285 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0061024 GO:0071702 GO:0071705 GO:0071840 GO:0097708 GO:0098588 GO:0098796 GO:0098805 GO:0140014 GO:1903047

KEGG Pathways

Metabolic & Signaling

ko04144 ko04217 map04144 map04217

Pfam Domains

Protein Families

Snf7

Protein Analysis

445

Amino Acids

50.16

Weight (kDa)

5.35

Isoelectric Point (pI)

41.69

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_CHMP7_1st	PF25880	15 - 96	1.1e-23	CHMP7 N-terminal winged helix domain
Snf7	PF03357	229 - 387	1.6e-14	Snf7

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: OG0007914)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G62080 AT3G62080
fragaria_vesca	FvH4_1g26150 FvH4_1g26150
malus_domestica	MD09G1291400.v1.1
prunus_persica	Prupe.3G001500_v2.0.a1 Prupe.3G001500_v2.0.a1 Prupe.3G001500_v2.0.a1
pyrus_communis	pycom09g19930
rosa_chinensis	RchiOBHm_Chr3g0485641
rosa_laevigata	RLG00000023138
rosa_multiflora	Rmu_co8480455.1_g000001 Rmu_sc0001272.1_g000001 Rmu_sc0004711.1_g000003
rosa_roxburghii	Rroxscaffold_4G00290290 Rroxscaffold_4G00311870 Rroxscaffold_6G00396560 Rroxscaffold_6G00396870
rosa_rugosa	Rorug03G0220400
rosa_samantha	Rh3AG269300 Rh3BG305100 Rh3CG303400 Rh3DG299600
rosa_wichuraiana	Rw3G024000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	570
AccII	CGCG	1 cut(s)	583
AccIII	TCCGGA	1 cut(s)	785
AciI	CCGC	5 cut(s)	302, 583, 739, 742, 808
AclI	AACGTT	1 cut(s)	752
AclWI	GGATC	2 cut(s)	38, 99
AcoI	YGGCCR	1 cut(s)	97
AcsI	RAATTY	1 cut(s)	481
AcuI	CTGAAG	3 cut(s)	76, 948, 1227
AfaI	GTAC	2 cut(s)	266, 1067
AfiI	CCNNNNNNNGG	6 cut(s)	159, 313, 314, 507, 539, 605
AjnI	CCWGG	1 cut(s)	1155
AjuI	GAANNNNNNNTTGG	2 cut(s)	1110, 1142
AluBI	AGCT	8 cut(s)	351, 391, 443, 773, 947, 953, 1240, 1324
AluI	AGCT	8 cut(s)	351, 391, 443, 773, 947, 953, 1240, 1324
Alw26I	GTCTC	5 cut(s)	326, 416, 561, 603, 703
AlwI	GGATC	2 cut(s)	38, 99
AlwNI	CAGNNNCTG	1 cut(s)	1202
Aor13HI	TCCGGA	1 cut(s)	785
AoxI	GGCC	3 cut(s)	97, 169, 361
ApoI	RAATTY	1 cut(s)	481
ArsI	GACNNNNNNTTYG	2 cut(s)	239, 271
AseI	ATTAAT	1 cut(s)	1170
Asp700I	GAANNNNTTC	1 cut(s)	509
AspLEI	GCGC	2 cut(s)	571, 583
AspS9I	GGNCC	3 cut(s)	304, 530, 1316
AsuC2I	CCSGG	1 cut(s)	515
AsuHPI	GGTGA	5 cut(s)	142, 185, 287, 337, 490
AsuNHI	GCTAGC	1 cut(s)	1324
AvaII	GGWCC	3 cut(s)	304, 530, 1316
BaeGI	GKGCMC	1 cut(s)	288
BalI	TGGCCA	1 cut(s)	99
BanII	GRGCYC	1 cut(s)	79
BarI	GAAGNNNNNNTAC	2 cut(s)	981, 1013
BauI	CACGAG	1 cut(s)	1241
BbvCI	CCTCAGC	1 cut(s)	387
BccI	CCATC	4 cut(s)	161, 941, 1149, 1241
BciT130I	CCWGG	1 cut(s)	1157
BciVI	GTATCC	1 cut(s)	1257
BcnI	CCSGG	1 cut(s)	515
BcoDI	GTCTC	5 cut(s)	326, 416, 561, 603, 703
BfaI	CTAG	3 cut(s)	657, 1115, 1325
BfuI	GTATCC	1 cut(s)	1257
BisI	GCNGC	2 cut(s)	742, 809
BlsI	GCNGC	2 cut(s)	743, 810
Bme1390I	CCNGG	2 cut(s)	515, 1157
Bme18I	GGWCC	3 cut(s)	304, 530, 1316
BmgT120I	GGNCC	3 cut(s)	304, 530, 1316
BmiI	GGNNCC	4 cut(s)	117, 306, 512, 532
BmrFI	CCNGG	2 cut(s)	515, 1157
BmsI	GCATC	1 cut(s)	653
BmtI	GCTAGC	1 cut(s)	1328
BplI	GAGNNNNNCTC	2 cut(s)	210, 242
BpmI	CTGGAG	1 cut(s)	154
Bpu10I	CCTNAGC	2 cut(s)	387, 1320
BpuEI	CTTGAG	2 cut(s)	416, 1220
BpuMI	CCSGG	1 cut(s)	515
BsaWI	WCCGGW	1 cut(s)	785
BsaXI	ACNNNNNCTCC	4 cut(s)	367, 397, 812, 842
Bsc4I	CCNNNNNNNGG	6 cut(s)	159, 313, 314, 507, 539, 605
Bse1I	ACTGG	1 cut(s)	1125
BseAI	TCCGGA	1 cut(s)	785
BseBI	CCWGG	1 cut(s)	1157
BseGI	GGATG	6 cut(s)	61, 180, 301, 933, 1084, 1252
BseLI	CCNNNNNNNGG	6 cut(s)	159, 313, 314, 507, 539, 605
BseMII	CTCAG	3 cut(s)	401, 1083, 1311
BseNI	ACTGG	1 cut(s)	1125
BseRI	GAGGAG	4 cut(s)	234, 375, 1025, 1115
BseSI	GKGCMC	1 cut(s)	288
Bsh1236I	CGCG	1 cut(s)	583
BshFI	GGCC	3 cut(s)	99, 171, 363
BsiSI	CCGG	2 cut(s)	514, 786
BslFI	GGGAC	2 cut(s)	385, 530
BslI	CCNNNNNNNGG	6 cut(s)	159, 313, 314, 507, 539, 605
BsmAI	GTCTC	5 cut(s)	326, 416, 561, 603, 703
BsmBI	CGTCTC	2 cut(s)	326, 416
BsmFI	GGGAC	2 cut(s)	385, 530
BsmI	GAATGC	2 cut(s)	476, 781
BsnI	GGCC	3 cut(s)	99, 171, 363
Bsp1286I	GDGCHC	2 cut(s)	79, 288
Bsp13I	TCCGGA	1 cut(s)	785
Bsp1407I	TGTACA	1 cut(s)	264
Bsp143I	GATC	3 cut(s)	30, 104, 673
BspACI	CCGC	5 cut(s)	302, 583, 739, 742, 808
BspANI	GGCC	3 cut(s)	99, 171, 363
BspCNI	CTCAG	3 cut(s)	400, 1082, 1312
BspEI	TCCGGA	1 cut(s)	785
BspFNI	CGCG	1 cut(s)	583
BspLI	GGNNCC	4 cut(s)	117, 306, 512, 532
BspOI	GCTAGC	1 cut(s)	1328
BspPI	GGATC	2 cut(s)	38, 99
BsrGI	TGTACA	1 cut(s)	264
BsrI	ACTGG	1 cut(s)	1125
BssMI	GATC	3 cut(s)	30, 104, 673
BssSI	CACGAG	1 cut(s)	1241
Bst2BI	CACGAG	1 cut(s)	1241
Bst2UI	CCWGG	1 cut(s)	1157
Bst4CI	ACNGT	1 cut(s)	292
Bst6I	CTCTTC	5 cut(s)	134, 179, 334, 500, 1092
BstAUI	TGTACA	1 cut(s)	264
BstC8I	GCNNGC	2 cut(s)	813, 1326
BstDEI	CTNAG	3 cut(s)	387, 1069, 1320
BstF5I	GGATG	6 cut(s)	61, 180, 301, 933, 1084, 1252
BstFNI	CGCG	1 cut(s)	583
BstHHI	GCGC	2 cut(s)	571, 583
BstKTI	GATC	3 cut(s)	33, 107, 676
BstMAI	GTCTC	5 cut(s)	326, 416, 561, 603, 703
BstMBI	GATC	3 cut(s)	30, 104, 673
BstMWI	GCNNNNNNNGC	1 cut(s)	1292
BstNI	CCWGG	1 cut(s)	1157
BstNSI	RCATGY	1 cut(s)	815
BstSCI	CCNGG	2 cut(s)	513, 1155
BstSLI	GKGCMC	1 cut(s)	288
BstUI	CGCG	1 cut(s)	583
BsuI	GTATCC	1 cut(s)	1257
BsuRI	GGCC	3 cut(s)	99, 171, 363
BtgZI	GCGATG	1 cut(s)	139
BtsCI	GGATG	6 cut(s)	61, 180, 301, 933, 1084, 1252
BtsI	GCAGTG	1 cut(s)	1281
BtsIMutI	CAGTG	3 cut(s)	100, 288, 1281
Cac8I	GCNNGC	2 cut(s)	813, 1326
CaiI	CAGNNNCTG	1 cut(s)	1202
CfoI	GCGC	2 cut(s)	571, 583
Cfr13I	GGNCC	3 cut(s)	304, 530, 1316
CseI	GACGC	1 cut(s)	398
Csp6I	GTAC	2 cut(s)	265, 1066
CviAII	CATG	3 cut(s)	404, 502, 812
CviQI	GTAC	2 cut(s)	265, 1066
DdeI	CTNAG	3 cut(s)	387, 1069, 1320
DpnI	GATC	3 cut(s)	32, 106, 675
DpnII	GATC	3 cut(s)	30, 104, 673
EaeI	YGGCCR	1 cut(s)	97
Eam1104I	CTCTTC	5 cut(s)	134, 179, 334, 500, 1092
EarI	CTCTTC	5 cut(s)	134, 179, 334, 500, 1092
Eco147I	AGGCCT	1 cut(s)	171
Eco24I	GRGCYC	1 cut(s)	79
Eco47I	GGWCC	3 cut(s)	304, 530, 1316
Eco57I	CTGAAG	3 cut(s)	76, 948, 1227
EcoO109I	RGGNCCY	2 cut(s)	530, 1316
EcoRI	GAATTC	1 cut(s)	481
EcoRII	CCWGG	1 cut(s)	1155
EcoT38I	GRGCYC	1 cut(s)	79
Esp3I	CGTCTC	2 cut(s)	326, 416
FaeI	CATG	3 cut(s)	407, 505, 815
FaiI	YATR	7 cut(s)	238, 405, 503, 813, 956, 977, 1049
FaqI	GGGAC	2 cut(s)	385, 530
FatI	CATG	3 cut(s)	403, 501, 811
Fnu4HI	GCNGC	2 cut(s)	742, 809
FokI	GGATG	6 cut(s)	68, 167, 308, 920, 1091, 1259
FriOI	GRGCYC	1 cut(s)	79
Fsp4HI	GCNGC	2 cut(s)	742, 809
FspBI	CTAG	3 cut(s)	657, 1115, 1325
FspI	TGCGCA	1 cut(s)	570
GlaI	GCGC	2 cut(s)	570, 582
GluI	GCNGC	2 cut(s)	742, 809
GsuI	CTGGAG	1 cut(s)	154
HaeIII	GGCC	3 cut(s)	99, 171, 363
HapII	CCGG	2 cut(s)	514, 786
HgaI	GACGC	1 cut(s)	398
HhaI	GCGC	2 cut(s)	571, 583
Hin1II	CATG	3 cut(s)	407, 505, 815
Hin6I	GCGC	2 cut(s)	569, 581
HinP1I	GCGC	2 cut(s)	569, 581
HinfI	GANTC	7 cut(s)	81, 145, 225, 342, 1052, 1199, 1220
HpaII	CCGG	2 cut(s)	514, 786
HphI	GGTGA	5 cut(s)	142, 185, 287, 337, 490
Hpy166II	GTNNAC	1 cut(s)	1276
Hpy188I	TCNGA	6 cut(s)	109, 185, 338, 469, 928, 1198
Hpy188III	TCNNGA	9 cut(s)	34, 47, 133, 677, 786, 865, 1108, 1145, 1319
Hpy8I	GTNNAC	1 cut(s)	1276
Hpy99I	CGWCG	2 cut(s)	248, 251
HpyAV	CCTTC	6 cut(s)	31, 100, 266, 452, 533, 913
HpyCH4III	ACNGT	1 cut(s)	292
HpyCH4IV	ACGT	2 cut(s)	249, 752
HpyCH4V	TGCA	8 cut(s)	72, 492, 548, 688, 781, 815, 857, 1178
HpyF10VI	GCNNNNNNNGC	1 cut(s)	1292
HpyF3I	CTNAG	3 cut(s)	387, 1069, 1320
HpySE526I	ACGT	2 cut(s)	249, 752
Hsp92II	CATG	3 cut(s)	407, 505, 815
HspAI	GCGC	2 cut(s)	569, 581
Kpn2I	TCCGGA	1 cut(s)	785
Kzo9I	GATC	3 cut(s)	30, 104, 673
LmnI	GCTCC	2 cut(s)	356, 944
LweI	GCATC	1 cut(s)	653
MaeI	CTAG	3 cut(s)	657, 1115, 1325
MaeII	ACGT	2 cut(s)	249, 752
MaeIII	GTNAC	3 cut(s)	343, 496, 1072
MalI	GATC	3 cut(s)	32, 106, 675
MboI	GATC	3 cut(s)	30, 104, 673
MhlI	GDGCHC	2 cut(s)	79, 288
MlsI	TGGCCA	1 cut(s)	99
MluNI	TGGCCA	1 cut(s)	99
MlyI	GAGTC	2 cut(s)	219, 351
MmeI	TCCRAC	2 cut(s)	208, 447
Mox20I	TGGCCA	1 cut(s)	99
MroI	TCCGGA	1 cut(s)	785
MroXI	GAANNNNTTC	1 cut(s)	509
MscI	TGGCCA	1 cut(s)	99
MseI	TTAA	3 cut(s)	755, 1028, 1170
Msp20I	TGGCCA	1 cut(s)	99
MspA1I	CMGCKG	1 cut(s)	744
MspI	CCGG	2 cut(s)	514, 786
MspR9I	CCNGG	2 cut(s)	515, 1157
Mva1269I	GAATGC	2 cut(s)	476, 781
MvaI	CCWGG	1 cut(s)	1157
MvnI	CGCG	1 cut(s)	583
MwoI	GCNNNNNNNGC	1 cut(s)	1292
NciI	CCSGG	1 cut(s)	515
NdeII	GATC	3 cut(s)	30, 104, 673
NheI	GCTAGC	1 cut(s)	1324
NlaIII	CATG	3 cut(s)	407, 505, 815
NlaIV	GGNNCC	4 cut(s)	117, 306, 512, 532
NmeAIII	GCCGAG	1 cut(s)	139
NmuCI	GTSAC	2 cut(s)	343, 496
NsbI	TGCGCA	1 cut(s)	570
NspI	RCATGY	1 cut(s)	815
PaeI	GCATGC	1 cut(s)	815
PceI	AGGCCT	1 cut(s)	171
PctI	GAATGC	2 cut(s)	476, 781
PdmI	GAANNNNTTC	1 cut(s)	509
PfeI	GAWTC	5 cut(s)	81, 145, 1052, 1199, 1220
PfoI	TCCNGGA	2 cut(s)	513, 1155
PkrI	GCNGC	2 cut(s)	743, 810
PleI	GAGTC	2 cut(s)	219, 350
PpsI	GAGTC	2 cut(s)	219, 350
PpuMI	RGGWCCY	2 cut(s)	530, 1316
PshBI	ATTAAT	1 cut(s)	1170
Psp1406I	AACGTT	1 cut(s)	752
Psp5II	RGGWCCY	2 cut(s)	530, 1316
Psp6I	CCWGG	1 cut(s)	1155
PspGI	CCWGG	1 cut(s)	1155
PspN4I	GGNNCC	4 cut(s)	117, 306, 512, 532
PspPI	GGNCC	3 cut(s)	304, 530, 1316
PspPPI	RGGWCCY	2 cut(s)	530, 1316
PstNI	CAGNNNCTG	1 cut(s)	1202
RsaI	GTAC	2 cut(s)	266, 1067
RsaNI	GTAC	2 cut(s)	265, 1066
SaqAI	TTAA	3 cut(s)	755, 1028, 1170
SatI	GCNGC	2 cut(s)	742, 809
Sau3AI	GATC	3 cut(s)	30, 104, 673
Sau96I	GGNCC	3 cut(s)	304, 530, 1316
SchI	GAGTC	2 cut(s)	219, 351
ScrFI	CCNGG	2 cut(s)	515, 1157
SduI	GDGCHC	2 cut(s)	79, 288
SfaNI	GCATC	1 cut(s)	653
SinI	GGWCC	3 cut(s)	304, 530, 1316
SmlI	CTYRAG	2 cut(s)	431, 1235
SmoI	CTYRAG	2 cut(s)	431, 1235
SphI	GCATGC	1 cut(s)	815
SseBI	AGGCCT	1 cut(s)	171
SsiI	CCGC	5 cut(s)	302, 583, 739, 742, 808
SspMI	CTAG	3 cut(s)	657, 1115, 1325
StuI	AGGCCT	1 cut(s)	171
StyD4I	CCNGG	2 cut(s)	513, 1155
TaaI	ACNGT	1 cut(s)	292
TaiI	ACGT	2 cut(s)	252, 755
TaqI	TCGA	6 cut(s)	217, 243, 618, 987, 1095, 1289
TatI	WGTACW	2 cut(s)	264, 1065
TauI	GCSGC	2 cut(s)	744, 811
TfiI	GAWTC	5 cut(s)	81, 145, 1052, 1199, 1220
Tru1I	TTAA	3 cut(s)	755, 1028, 1170
Tru9I	TTAA	3 cut(s)	755, 1028, 1170
TscAI	CASTG	3 cut(s)	100, 295, 1288
TseFI	GTSAC	2 cut(s)	343, 496
Tsp45I	GTSAC	2 cut(s)	343, 496
TspDTI	ATGAA	5 cut(s)	166, 285, 360, 518, 1098
TspGWI	ACGGA	2 cut(s)	343, 1091
TspRI	CASTG	3 cut(s)	100, 295, 1288
VpaK11BI	GGWCC	3 cut(s)	304, 530, 1316
VspI	ATTAAT	1 cut(s)	1170
XapI	RAATTY	1 cut(s)	481
XceI	RCATGY	1 cut(s)	815
XmnI	GAANNNNTTC	1 cut(s)	509
XspI	CTAG	3 cut(s)	657, 1115, 1325

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