Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0002522

Physical Location & Seq

Genomic Coordinates Forward (+)

13828736 .. 13831989

Gene Structure 3254 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG153200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1389 bp

ATGTCTGCCCATTTGAGAAGGCCGCCGGAGGACATGGCTTGCGTGAAGCTGGGAGTGAAGTCTGAAGCATTTCATCGGGAAGGCCAGACTTGGGTTTGCACAACTGGGCTACCGAGCGATATTATTGTTCAAGTTGGGGAAATGTCTTTCCACCTCCATAAGTTTCCATTGCTTTCTAAAAGTGGGCTATTAGAGCAGCTTATCGAACAGTGTTCTATGGAGGAAAGCTCACTTTGTGCATTGAAACTTCATGGTGTGCCTGGGGGAGCTAAAGCATTTGAGCTTGTAACCAAATTTTGCTATGGTGTCAAAATAGAGCTGACTGCGTTGAATGTAGTCATCCTTAGATGTGCAGCAGAATACCTCCGGATGACTGAAGAATATGAACAAGGAAACCTCATTGCACAAACAGAGGTTTTCCTTAATGAAGTCTTCGGCAGTTGGAGAGACTCCATAATAGCTCTTGAAACATGTGAAGAAGTGCAACCATATGTTGAAGAGCTCCACATTGTGTCAAGATGCATTGATTCACTGGCTACAAAAGCTTGTTCAGACCCAAAGTTGTTCAGCAGGCCTATGTCGGGAGGAAGTGACATTAAGAAGCCAACTGGCACTGTGTCATGGAATGGAATTGCTGCTGAAAGTAAGCCACAATCTCCCGGCGAAAATTGGTGGTATGAAGATACATCCTTCCTGAGCTTACCTCTCTATAAACGCCTGATTCAAGCTGTCGAATCAAAAGGCATGAGGCCCGAGAGTATTGCAGCTTCTCTTATAACCTATGCTAGAAAGTATCTGCCCTTGATGAATAGGCTATCAAGCTTCAACGATGCAAATCATGCAAACTCGGGCACAAACATTTCTGATGAAGACCAAAGGGTTTTACTTGAAGAAATTGTGGGGTTGCTTCCTAATAAGAAAGGAGTAACATCCTCCAAGTTTCTGCTTAGGCTCTTAAGAACTGCTATGATATTACATGCAAGTCAATCATGTACAGATAATTTGGAGAAAAGGGTGGGTACACAGCTGGACCAAGCTGTTCTCATTGATCTTCTCATACCAAATATGGGCTACTCAGTGGAGACTCTTTATGACATAGACTGCATTCAGAGGATTCTTGATCATTTCATGTTGGTAAACCAGCCTTATCCATCATCTTCACCATGCATAATTGAAGAGGGGCAACTGATGACTGGCACTGATCCATTGACACCTGTTACCATGGTGGCCAGTCTGGTAGATGGATATCTTGCCGAGGTAGCACCAGATGTTAATTTGAAGTTACCGAAATTTCAGGCACTCGCTGCTGTCATACCTGAATATGCCAGGCCGCTGGATGATGGCATTTATCATGCCATTGATGTTTTCTTGAAGGTAAAACAAGCTTAG

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

BTB NPH3

Protein Analysis

462

Amino Acids

51.25

Weight (kDa)

5.22

Isoelectric Point (pI)

47.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
BTB	PF00651	38 - 126	2.3e-07	BTB/POZ domain
NPH3	PF03000	223 - 459	5e-77	NPH3 family

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: OG0002522)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G03250 AT5G03250
fragaria_vesca	FvH4_6g16010 FvH4_7g19310 FvH4_7g19310 FvH4_7g19310
malus_domestica	MD01G1107700.v1.1 MD04G1096800.v1.1 MD07G1173300.v1.1
prunus_persica	Prupe.2G212500_v2.0.a1 Prupe.6G236100_v2.0.a1
pyrus_communis	pycom01g13460 pycom04g09190 pycom07g16800 pycom12g11690
rosa_chinensis	RchiOBHm_Chr1g0363191 RchiOBHm_Chr3g0469731
rosa_laevigata	RLG00000024326 RLG00000027585
rosa_multiflora	Rmu_sc0002925.1_g000004 Rmu_sc0010644.1_g000001 Rmu_sc0022819.1_g000002
rosa_roxburghii	Rroxscaffold_4G00293390 Rroxscaffold_6G00411520
rosa_rugosa	Rorug01G0305300 Rorug03G0103400 Rorug03G0103500 Rorug03G0103600 Rorug03G0103700 Rorug03G0103800 Rorug03G0103800
rosa_samantha	Rh1AG314100 Rh1BG277600 Rh1CG294000 Rh1DG308300 Rh3AG153200 Rh3BG177200 Rh3CG168100 Rh3DG198400
rosa_wichuraiana	Rw1G027830 Rw3G014440

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	776
AccIII	TCCGGA	1 cut(s)	366
AciI	CCGC	2 cut(s)	23, 1331
AclWI	GGATC	1 cut(s)	1196
AcoI	YGGCCR	1 cut(s)	1227
AcsI	RAATTY	2 cut(s)	293, 1289
AcuI	CTGAAG	2 cut(s)	84, 396
AdeI	CACNNNGTG	2 cut(s)	236, 511
AfaI	GTAC	2 cut(s)	994, 1021
AfiI	CCNNNNNNNGG	3 cut(s)	91, 581, 1067
AflII	CTTAAG	1 cut(s)	955
AflIII	ACRYGT	1 cut(s)	470
AjnI	CCWGG	2 cut(s)	259, 1325
Alw21I	GWGCWC	1 cut(s)	504
Alw26I	GTCTC	2 cut(s)	441, 1076
AlwI	GGATC	1 cut(s)	1196
Ama87I	CYCGRG	2 cut(s)	752, 847
Aor13HI	TCCGGA	1 cut(s)	366
AoxI	GGCC	6 cut(s)	20, 82, 572, 749, 1227, 1328
ApeKI	GCWGC	5 cut(s)	196, 353, 635, 764, 1304
ApoI	RAATTY	2 cut(s)	293, 1289
Asp700I	GAANNNNTTC	1 cut(s)	69
AspS9I	GGNCC	2 cut(s)	750, 1030
AsuC2I	CCSGG	1 cut(s)	660
AsuHPI	GGTGA	1 cut(s)	1152
AvaI	CYCGRG	2 cut(s)	752, 847
AvaII	GGWCC	1 cut(s)	1030
BaeGI	GKGCMC	1 cut(s)	854
BalI	TGGCCA	1 cut(s)	1229
BanII	GRGCYC	1 cut(s)	504
BarI	GAAGNNNNNNTAC	2 cut(s)	751, 783
BbsI	GAAGAC	2 cut(s)	424, 876
Bbv12I	GWGCWC	1 cut(s)	504
BbvI	GCAGC	5 cut(s)	208, 365, 622, 776, 1291
BccI	CCATC	3 cut(s)	1159, 1235, 1334
BcgI	CGANNNNNNTGC	2 cut(s)	743, 777
BciT130I	CCWGG	2 cut(s)	261, 1327
BclI	TGATCA	1 cut(s)	1120
BcnI	CCSGG	1 cut(s)	660
BcoDI	GTCTC	2 cut(s)	441, 1076
BfaI	CTAG	1 cut(s)	786
BfrI	CTTAAG	1 cut(s)	955
BisI	GCNGC	7 cut(s)	23, 197, 354, 636, 765, 1305, 1331
BlsI	GCNGC	7 cut(s)	24, 198, 355, 637, 766, 1306, 1332
Bme1390I	CCNGG	3 cut(s)	261, 660, 1327
Bme18I	GGWCC	1 cut(s)	1030
BmeT110I	CYCGRG	2 cut(s)	752, 847
BmgT120I	GGNCC	2 cut(s)	750, 1030
BmrFI	CCNGG	3 cut(s)	261, 660, 1327
BmrI	ACTGGG	1 cut(s)	114
BmsI	GCATC	2 cut(s)	509, 820
BmuI	ACTGGG	1 cut(s)	114
BpiI	GAAGAC	2 cut(s)	424, 876
BplI	GAGNNNNNCTC	4 cut(s)	212, 244, 688, 720
Bpu10I	CCTNAGC	2 cut(s)	695, 947
BpuMI	CCSGG	1 cut(s)	660
BsaBI	GATNNNNATC	2 cut(s)	834, 1245
BsaJI	CCNNGG	3 cut(s)	260, 1221, 1254
BsaWI	WCCGGW	1 cut(s)	366
Bsc4I	CCNNNNNNNGG	3 cut(s)	91, 581, 1067
Bse1I	ACTGG	5 cut(s)	109, 537, 613, 1198, 1230
Bse3DI	GCAATG	2 cut(s)	167, 399
Bse8I	GATNNNNATC	2 cut(s)	834, 1245
BseAI	TCCGGA	1 cut(s)	366
BseBI	CCWGG	2 cut(s)	261, 1327
BseDI	CCNNGG	3 cut(s)	260, 1221, 1254
BseGI	GGATG	5 cut(s)	339, 375, 686, 929, 1342
BseJI	GATNNNNATC	2 cut(s)	834, 1245
BseLI	CCNNNNNNNGG	3 cut(s)	91, 581, 1067
BseMI	GCAATG	2 cut(s)	167, 399
BseMII	CTCAG	2 cut(s)	686, 1089
BseNI	ACTGG	5 cut(s)	109, 537, 613, 1198, 1230
BseSI	GKGCMC	1 cut(s)	854
BseXI	GCAGC	5 cut(s)	208, 365, 622, 776, 1291
BseYI	CCCAGC	1 cut(s)	49
BsgI	GTGCAG	1 cut(s)	372
BshFI	GGCC	6 cut(s)	22, 84, 574, 751, 1229, 1330
BsiHKAI	GWGCWC	1 cut(s)	504
BsiHKCI	CYCGRG	2 cut(s)	752, 847
BsiSI	CCGG	3 cut(s)	26, 367, 660
BslI	CCNNNNNNNGG	3 cut(s)	91, 581, 1067
BsmAI	GTCTC	2 cut(s)	441, 1076
BsmI	GAATGC	1 cut(s)	1104
BsnI	GGCC	6 cut(s)	22, 84, 574, 751, 1229, 1330
BsoBI	CYCGRG	2 cut(s)	752, 847
Bsp1286I	GDGCHC	2 cut(s)	504, 854
Bsp13I	TCCGGA	1 cut(s)	366
Bsp1407I	TGTACA	1 cut(s)	992
Bsp143I	GATC	3 cut(s)	1048, 1120, 1201
Bsp19I	CCATGG	1 cut(s)	1221
BspACI	CCGC	2 cut(s)	23, 1331
BspANI	GGCC	6 cut(s)	22, 84, 574, 751, 1229, 1330
BspCNI	CTCAG	2 cut(s)	687, 1088
BspEI	TCCGGA	1 cut(s)	366
BspPI	GGATC	1 cut(s)	1196
BspQI	GCTCTTC	1 cut(s)	492
BspTI	CTTAAG	1 cut(s)	955
BsrDI	GCAATG	2 cut(s)	167, 399
BsrGI	TGTACA	1 cut(s)	992
BsrI	ACTGG	5 cut(s)	109, 537, 613, 1198, 1230
BssECI	CCNNGG	3 cut(s)	260, 1221, 1254
BssMI	GATC	3 cut(s)	1048, 1120, 1201
BssT1I	CCWWGG	1 cut(s)	1221
Bst2UI	CCWGG	2 cut(s)	261, 1327
Bst4CI	ACNGT	2 cut(s)	210, 616
Bst6I	CTCTTC	2 cut(s)	492, 1170
BstAFI	CTTAAG	1 cut(s)	955
BstAPI	GCANNNNNTGC	2 cut(s)	839, 1304
BstAUI	TGTACA	1 cut(s)	992
BstC8I	GCNNGC	2 cut(s)	40, 572
BstDEI	CTNAG	5 cut(s)	344, 695, 947, 1075, 1386
BstDSI	CCRYGG	1 cut(s)	1221
BstF5I	GGATG	5 cut(s)	339, 375, 686, 929, 1342
BstKTI	GATC	3 cut(s)	1051, 1123, 1204
BstMAI	GTCTC	2 cut(s)	441, 1076
BstMBI	GATC	3 cut(s)	1048, 1120, 1201
BstMWI	GCNNNNNNNGC	5 cut(s)	193, 542, 839, 1259, 1304
BstNI	CCWGG	2 cut(s)	261, 1327
BstNSI	RCATGY	2 cut(s)	474, 980
BstSCI	CCNGG	3 cut(s)	259, 658, 1325
BstSLI	GKGCMC	1 cut(s)	854
BstV1I	GCAGC	5 cut(s)	208, 365, 622, 776, 1291
BstV2I	GAAGAC	2 cut(s)	424, 876
BstXI	CCANNNNNNTGG	1 cut(s)	1333
BsuRI	GGCC	6 cut(s)	22, 84, 574, 751, 1229, 1330
BtgI	CCRYGG	1 cut(s)	1221
BtsCI	GGATG	5 cut(s)	339, 375, 686, 929, 1342
BtsIMutI	CAGTG	5 cut(s)	215, 530, 612, 1083, 1197
Cac8I	GCNNGC	2 cut(s)	40, 572
Cfr13I	GGNCC	2 cut(s)	750, 1030
Csp6I	GTAC	2 cut(s)	993, 1020
CviQI	GTAC	2 cut(s)	993, 1020
DdeI	CTNAG	5 cut(s)	344, 695, 947, 1075, 1386
DpnI	GATC	3 cut(s)	1050, 1122, 1203
DpnII	GATC	3 cut(s)	1048, 1120, 1201
DraIII	CACNNNGTG	2 cut(s)	236, 511
EaeI	YGGCCR	1 cut(s)	1227
Eam1104I	CTCTTC	2 cut(s)	492, 1170
EarI	CTCTTC	2 cut(s)	492, 1170
Ecl136II	GAGCTC	1 cut(s)	502
Eco130I	CCWWGG	1 cut(s)	1221
Eco147I	AGGCCT	1 cut(s)	574
Eco24I	GRGCYC	1 cut(s)	504
Eco32I	GATATC	1 cut(s)	1247
Eco47I	GGWCC	1 cut(s)	1030
Eco53kI	GAGCTC	1 cut(s)	502
Eco57I	CTGAAG	2 cut(s)	84, 396
Eco88I	CYCGRG	2 cut(s)	752, 847
EcoICRI	GAGCTC	1 cut(s)	502
EcoRII	CCWGG	2 cut(s)	259, 1325
EcoRV	GATATC	1 cut(s)	1247
EcoT14I	CCWWGG	1 cut(s)	1221
EcoT22I	ATGCAT	2 cut(s)	524, 1169
EcoT38I	GRGCYC	1 cut(s)	504
ErhI	CCWWGG	1 cut(s)	1221
FauNDI	CATATG	1 cut(s)	490
FbaI	TGATCA	1 cut(s)	1120
Fnu4HI	GCNGC	7 cut(s)	23, 197, 354, 636, 765, 1305, 1331
FokI	GGATG	5 cut(s)	326, 382, 673, 916, 1349
FriOI	GRGCYC	1 cut(s)	504
Fsp4HI	GCNGC	7 cut(s)	23, 197, 354, 636, 765, 1305, 1331
FspBI	CTAG	1 cut(s)	786
GluI	GCNGC	7 cut(s)	23, 197, 354, 636, 765, 1305, 1331
GsaI	CCCAGC	1 cut(s)	53
HaeIII	GGCC	6 cut(s)	22, 84, 574, 751, 1229, 1330
HapII	CCGG	3 cut(s)	26, 367, 660
HindIII	AAGCTT	3 cut(s)	543, 820, 1383
HinfI	GANTC	6 cut(s)	449, 527, 721, 734, 1084, 1114
HpaII	CCGG	3 cut(s)	26, 367, 660
HphI	GGTGA	1 cut(s)	1152
Hpy166II	GTNNAC	2 cut(s)	1022, 1138
Hpy188I	TCNGA	4 cut(s)	64, 553, 865, 1110
Hpy188III	TCNNGA	8 cut(s)	77, 367, 464, 516, 582, 694, 1118, 1369
Hpy8I	GTNNAC	2 cut(s)	1022, 1138
HpyAV	CCTTC	4 cut(s)	12, 74, 700, 1366
HpyCH4III	ACNGT	2 cut(s)	210, 616
HpyF10VI	GCNNNNNNNGC	5 cut(s)	193, 542, 839, 1259, 1304
HpyF3I	CTNAG	5 cut(s)	344, 695, 947, 1075, 1386
Kpn2I	TCCGGA	1 cut(s)	366
Ksp22I	TGATCA	1 cut(s)	1120
Kzo9I	GATC	3 cut(s)	1048, 1120, 1201
LguI	GCTCTTC	1 cut(s)	492
LmnI	GCTCC	2 cut(s)	266, 507
Lsp1109I	GCAGC	5 cut(s)	208, 365, 622, 776, 1291
LweI	GCATC	2 cut(s)	509, 820
MaeI	CTAG	1 cut(s)	786
MaeIII	GTNAC	5 cut(s)	286, 590, 925, 1216, 1281
MalI	GATC	3 cut(s)	1050, 1122, 1203
MboI	GATC	3 cut(s)	1048, 1120, 1201
MhlI	GDGCHC	2 cut(s)	504, 854
MlsI	TGGCCA	1 cut(s)	1229
MluCI	AATT	8 cut(s)	293, 630, 667, 894, 1000, 1170, 1273, 1289
MluNI	TGGCCA	1 cut(s)	1229
MlyI	GAGTC	2 cut(s)	443, 1078
MmeI	TCCRAC	1 cut(s)	422
Mox20I	TGGCCA	1 cut(s)	1229
Mph1103I	ATGCAT	2 cut(s)	524, 1169
MroI	TCCGGA	1 cut(s)	366
MroXI	GAANNNNTTC	1 cut(s)	69
MscI	TGGCCA	1 cut(s)	1229
MseI	TTAA	4 cut(s)	423, 597, 956, 1272
Msp20I	TGGCCA	1 cut(s)	1229
MspA1I	CMGCKG	2 cut(s)	1027, 1333
MspCI	CTTAAG	1 cut(s)	955
MspI	CCGG	3 cut(s)	26, 367, 660
MspR9I	CCNGG	3 cut(s)	261, 660, 1327
Mva1269I	GAATGC	1 cut(s)	1104
MvaI	CCWGG	2 cut(s)	261, 1327
MwoI	GCNNNNNNNGC	5 cut(s)	193, 542, 839, 1259, 1304
NciI	CCSGG	1 cut(s)	660
NcoI	CCATGG	1 cut(s)	1221
NdeI	CATATG	1 cut(s)	490
NdeII	GATC	3 cut(s)	1048, 1120, 1201
NmeAIII	GCCGAG	1 cut(s)	1279
NmuCI	GTSAC	1 cut(s)	590
NsiI	ATGCAT	2 cut(s)	524, 1169
NspI	RCATGY	2 cut(s)	474, 980
PceI	AGGCCT	1 cut(s)	574
PciI	ACATGT	1 cut(s)	470
PciSI	GCTCTTC	1 cut(s)	492
PctI	GAATGC	1 cut(s)	1104
PdmI	GAANNNNTTC	1 cut(s)	69
PfeI	GAWTC	4 cut(s)	527, 721, 734, 1114
PkrI	GCNGC	7 cut(s)	24, 198, 355, 637, 766, 1306, 1332
PleI	GAGTC	2 cut(s)	443, 1078
PpsI	GAGTC	2 cut(s)	443, 1078
PscI	ACATGT	1 cut(s)	470
PsiI	TTATAA	1 cut(s)	776
Psp124BI	GAGCTC	1 cut(s)	504
Psp6I	CCWGG	2 cut(s)	259, 1325
PspFI	CCCAGC	1 cut(s)	49
PspGI	CCWGG	2 cut(s)	259, 1325
PspPI	GGNCC	2 cut(s)	750, 1030
PvuII	CAGCTG	1 cut(s)	1027
RsaI	GTAC	2 cut(s)	994, 1021
RsaNI	GTAC	2 cut(s)	993, 1020
SacI	GAGCTC	1 cut(s)	504
SapI	GCTCTTC	1 cut(s)	492
SaqAI	TTAA	4 cut(s)	423, 597, 956, 1272
SatI	GCNGC	7 cut(s)	23, 197, 354, 636, 765, 1305, 1331
Sau3AI	GATC	3 cut(s)	1048, 1120, 1201
Sau96I	GGNCC	2 cut(s)	750, 1030
SchI	GAGTC	2 cut(s)	443, 1078
ScrFI	CCNGG	3 cut(s)	261, 660, 1327
SduI	GDGCHC	2 cut(s)	504, 854
SfaNI	GCATC	2 cut(s)	509, 820
SinI	GGWCC	1 cut(s)	1030
SmlI	CTYRAG	1 cut(s)	955
SmoI	CTYRAG	1 cut(s)	955
Sse9I	AATT	8 cut(s)	293, 630, 667, 894, 1000, 1170, 1273, 1289
SseBI	AGGCCT	1 cut(s)	574
SsiI	CCGC	2 cut(s)	23, 1331
SspMI	CTAG	1 cut(s)	786
SstI	GAGCTC	1 cut(s)	504
StuI	AGGCCT	1 cut(s)	574
StyD4I	CCNGG	3 cut(s)	259, 658, 1325
StyI	CCWWGG	1 cut(s)	1221
TaaI	ACNGT	2 cut(s)	210, 616
TaqI	TCGA	2 cut(s)	204, 732
TasI	AATT	8 cut(s)	293, 630, 667, 894, 1000, 1170, 1273, 1289
TatI	WGTACW	1 cut(s)	992
TauI	GCSGC	2 cut(s)	25, 1333
TfiI	GAWTC	4 cut(s)	527, 721, 734, 1114
Tru1I	TTAA	4 cut(s)	423, 597, 956, 1272
Tru9I	TTAA	4 cut(s)	423, 597, 956, 1272
TscAI	CASTG	5 cut(s)	215, 537, 619, 1083, 1204
TseFI	GTSAC	1 cut(s)	590
TseI	GCWGC	5 cut(s)	196, 353, 635, 764, 1304
Tsp45I	GTSAC	1 cut(s)	590
TspDTI	ATGAA	8 cut(s)	62, 239, 399, 441, 693, 821, 882, 1117
TspRI	CASTG	5 cut(s)	215, 537, 619, 1083, 1204
Vha464I	CTTAAG	1 cut(s)	955
VpaK11BI	GGWCC	1 cut(s)	1030
XapI	RAATTY	2 cut(s)	293, 1289
XceI	RCATGY	2 cut(s)	474, 980
XmnI	GAANNNNTTC	1 cut(s)	69
XspI	CTAG	1 cut(s)	786
Zsp2I	ATGCAT	2 cut(s)	524, 1169

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