Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0005324

Physical Location & Seq

Genomic Coordinates Reverse (-)

30144900 .. 30151166

Gene Structure 6267 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG300100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1245 bp

ATGGGCTCTTTCACTTGGGTTGGGGAGTACAACGCCGCCGTCACCGCCACCGCCACCGCCGATGTCGACGCCGCCGCCGCTGCTGCTCCGACGAGGAGGAGCAAGAGGCTGCACCGCCCCAAGAAGTTTGAGTTTCTCAGCTGGGGCTCGAGGCCGCTGATTGAATTTCTCGAGTCGATTGGGAAGGACACGACGAAGCAGATCTCCCAATACGACGTCGCTACGATCATCACCGACTACGTCAACCACCGCAGGCTCCTCCACCCGACGAAGAGGAAGAGGATCGTCTGCGACGAGGGGCTTCATATTCTGTTCGGCAGGAAGACCATTGCTCGGATCAAGATCTACGATCTGCTCCAGCCGCATTTCGCTGATAATCTCGAGGACGATTCCGATGATTCGTCGGATGAGTCCGACGACGACGGTTTGGACGAGGAGGACGAGGATAAGCAGCAGCGGCGGCAGCTGCAGAGGAAGAAGCAGCTGAAGAGGAGAGCCTCCGCCGCTCTGCATGCGCCTCCTCCGGTTCCGAAGAGCTGCTACGCCGCCGTGATTCCGGAGAATTTGAAGCTGGTGTACCTGAGGAGGTCGGTGGTGGAAGCTCTGCTGAAGCAGGACGAGGCTCAGGTGTTTGAGGACAAAGTCGTGGGGAGCTTTGTGAGGACGAAATCGGACCCCAATGACTATCTGCAGAAGAATTCTCACCAGCTAATGCAGGTGAAGGCGATTCTGAAGAAGCCGGAGCCGAATTCGGAATCGTCTGCTGGAGGTGGAGTTCTTCTTCAGCTTCATGGGGCTGTTAGAGACTTCTCCATTTCCGTGCTCTCTGATGATAACTTCTTCCCGGAAGAATGTGAGGATTTACGTGAAAGAGTTAAAGGTGGTTTGCTGAAGAGACCTACAGTGGTGGAGCTTCAACAAAAGGTCCAGATTTTGCATCTGGATGTAACAAAGCATTGGCTTGTGAGAGAACTTCAATACTTACAGAACTCAATTGATCGAGCGAATGAAAAGGGATTGCGCCGAGAGCTGTTTGACTACTTGGAAAGAAGGGAACTGCTGCAGTCTCCAGATGAACAAGCACGTCTTTTGCGAGAGGTTCCCGAAGTTATTGCAGAAGAATTAGAGGAAGAACCAAAAGATTCTCCAGATGAAACAGAACAAGGAAACCATGGCTCCCCAGGACATATCCTCAGGGGAGAATCAACTCCTATTTCTGAAGGTGCGTCATCAATAAAAACTTGA

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

GYF Plus-3 SWIB

Protein Analysis

414

Amino Acids

47.01

Weight (kDa)

5.75

Isoelectric Point (pI)

64.75

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SWIB	PF02201	51 - 123	1.3e-08	SWIB/MDM2 domain
Plus-3	PF03126	188 - 292	1.3e-13	Plus-3 domain
NERD_plant	PF25980	315 - 363	1.1e-22	Plant NERD domain

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: OG0005324)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G08430 AT5G08430 AT5G23480 AT5G23480 AT5G23480 AT5G23480 AT5G23480 AT5G23480
fragaria_vesca	FvH4_1g25810 FvH4_1g25810 FvH4_1g25810
malus_domestica	MD15G1140400.v1.1
prunus_persica	Prupe.4G286800_v2.0.a1 Prupe.4G286800_v2.0.a1
rosa_chinensis	RchiOBHm_Chr3g0484911 RchiOBHm_Chr3g0484921
rosa_laevigata	RLG00000013602 RLG00000023186
rosa_multiflora	Rmu_sc0002231.1_g000024 Rmu_sc0005946.1_g000003 Rmu_sc0005946.1_g000004
rosa_roxburghii	Rroxscaffold_6G00397360
rosa_rugosa	Rorug03G0214200
rosa_samantha	Rh3AG264600 Rh3BG300100 Rh3CG297800 Rh3DG293900 Rh6CG195000
rosa_wichuraiana	Rw3G023650

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	706
AatII	GACGTC	1 cut(s)	219
Acc36I	ACCTGC	1 cut(s)	706
AccBSI	CCGCTC	1 cut(s)	506
AccI	GTMKAC	1 cut(s)	66
AccIII	TCCGGA	1 cut(s)	556
AclWI	GGATC	2 cut(s)	290, 344
AcsI	RAATTY	4 cut(s)	164, 562, 697, 748
AcuI	CTGAAG	6 cut(s)	506, 629, 752, 767, 911, 1239
AcyI	GRCGYC	2 cut(s)	69, 216
AfaI	GTAC	2 cut(s)	29, 578
AfiI	CCNNNNNNNGG	1 cut(s)	333
AgsI	TTSAA	4 cut(s)	164, 568, 917, 977
AjiI	CACGTC	1 cut(s)	1085
AjnI	CCWGG	1 cut(s)	1180
AloI	GAACNNNNNNTCC	2 cut(s)	759, 791
Alw21I	GWGCWC	1 cut(s)	825
Alw26I	GTCTC	3 cut(s)	798, 889, 1071
AlwI	GGATC	2 cut(s)	290, 344
Ama87I	CYCGRG	3 cut(s)	148, 170, 380
Aor13HI	TCCGGA	1 cut(s)	556
AoxI	GGCC	1 cut(s)	152
ApoI	RAATTY	4 cut(s)	164, 562, 697, 748
AspLEI	GCGC	2 cut(s)	517, 1023
AspS9I	GGNCC	2 cut(s)	673, 925
AsuC2I	CCSGG	1 cut(s)	845
AsuHPI	GGTGA	4 cut(s)	34, 223, 695, 730
AvaI	CYCGRG	3 cut(s)	148, 170, 380
AvaII	GGWCC	2 cut(s)	673, 925
AxyI	CCTNAGG	2 cut(s)	581, 1193
BanII	GRGCYC	2 cut(s)	8, 149
BarI	GAAGNNNNNNTAC	4 cut(s)	524, 556, 560, 592
BbsI	GAAGAC	1 cut(s)	329
Bbv12I	GWGCWC	1 cut(s)	825
BceAI	ACGGC	2 cut(s)	23, 533
BcgI	CGANNNNNNTGC	2 cut(s)	1094, 1128
BciT130I	CCWGG	1 cut(s)	1182
BcnI	CCSGG	1 cut(s)	845
BcoDI	GTCTC	3 cut(s)	798, 889, 1071
BfmI	CTRYAG	4 cut(s)	467, 689, 900, 1061
BfuAI	ACCTGC	1 cut(s)	706
BglII	AGATCT	2 cut(s)	201, 342
Bme1390I	CCNGG	2 cut(s)	845, 1182
Bme18I	GGWCC	2 cut(s)	673, 925
BmeT110I	CYCGRG	3 cut(s)	148, 170, 380
BmgBI	CACGTC	1 cut(s)	1085
BmgT120I	GGNCC	2 cut(s)	673, 925
BmiI	GGNNCC	6 cut(s)	257, 528, 675, 744, 1101, 1177
BmrFI	CCNGG	2 cut(s)	845, 1182
BmsI	GCATC	1 cut(s)	946
BpiI	GAAGAC	1 cut(s)	329
BpmI	CTGGAG	4 cut(s)	341, 786, 1053, 1131
Bpu10I	CCTNAGC	1 cut(s)	624
BpuMI	CCSGG	1 cut(s)	845
BsaAI	YACGTR	1 cut(s)	866
BsaBI	GATNNNNATC	1 cut(s)	341
BsaHI	GRCGYC	2 cut(s)	69, 216
BsaI	GGTCTC	1 cut(s)	889
BsaJI	CCNNGG	2 cut(s)	1171, 1180
BsaWI	WCCGGW	2 cut(s)	523, 556
BsaXI	ACNNNNNCTCC	4 cut(s)	759, 789, 1160, 1190
Bsc4I	CCNNNNNNNGG	1 cut(s)	333
Bse21I	CCTNAGG	2 cut(s)	581, 1193
Bse3DI	GCAATG	1 cut(s)	327
Bse8I	GATNNNNATC	1 cut(s)	341
BseAI	TCCGGA	1 cut(s)	556
BseBI	CCWGG	1 cut(s)	1182
BseDI	CCNNGG	2 cut(s)	1171, 1180
BseGI	GGATG	2 cut(s)	412, 949
BseJI	GATNNNNATC	1 cut(s)	341
BseLI	CCNNNNNNNGG	1 cut(s)	333
BseMI	GCAATG	1 cut(s)	327
BseMII	CTCAG	4 cut(s)	151, 572, 638, 1207
BseRI	GAGGAG	7 cut(s)	109, 112, 248, 449, 505, 510, 598
BseYI	CCCAGC	1 cut(s)	141
BsgI	GTGCAG	1 cut(s)	95
BshFI	GGCC	1 cut(s)	154
BsiHKAI	GWGCWC	1 cut(s)	825
BsiHKCI	CYCGRG	3 cut(s)	148, 170, 380
BsiSI	CCGG	4 cut(s)	524, 557, 740, 845
BslI	CCNNNNNNNGG	1 cut(s)	333
BsmAI	GTCTC	3 cut(s)	798, 889, 1071
BsnI	GGCC	1 cut(s)	154
Bso31I	GGTCTC	1 cut(s)	889
BsoBI	CYCGRG	3 cut(s)	148, 170, 380
Bsp1286I	GDGCHC	3 cut(s)	8, 149, 825
Bsp13I	TCCGGA	1 cut(s)	556
Bsp143I	GATC	7 cut(s)	201, 225, 282, 336, 342, 349, 997
Bsp19I	CCATGG	1 cut(s)	1171
BspANI	GGCC	1 cut(s)	154
BspCNI	CTCAG	4 cut(s)	150, 573, 637, 1206
BspEI	TCCGGA	1 cut(s)	556
BspLI	GGNNCC	6 cut(s)	257, 528, 675, 744, 1101, 1177
BspMAI	CTGCAG	3 cut(s)	471, 693, 1065
BspMI	ACCTGC	1 cut(s)	706
BspPI	GGATC	2 cut(s)	290, 344
BspQI	GCTCTTC	1 cut(s)	527
BspTNI	GGTCTC	1 cut(s)	889
BsrBI	CCGCTC	1 cut(s)	506
BsrDI	GCAATG	1 cut(s)	327
BssECI	CCNNGG	2 cut(s)	1171, 1180
BssMI	GATC	7 cut(s)	201, 225, 282, 336, 342, 349, 997
BssNI	GRCGYC	2 cut(s)	69, 216
BssT1I	CCWWGG	1 cut(s)	1171
Bst2UI	CCWGG	1 cut(s)	1182
Bst4CI	ACNGT	2 cut(s)	425, 904
Bst6I	CTCTTC	5 cut(s)	266, 272, 482, 527, 887
BstACI	GRCGYC	2 cut(s)	69, 216
BstBAI	YACGTR	1 cut(s)	866
BstC8I	GCNNGC	2 cut(s)	254, 513
BstDEI	CTNAG	4 cut(s)	137, 581, 624, 1193
BstDSI	CCRYGG	1 cut(s)	1171
BstF5I	GGATG	2 cut(s)	412, 949
BstHHI	GCGC	2 cut(s)	517, 1023
BstKTI	GATC	7 cut(s)	204, 228, 285, 339, 345, 352, 1000
BstMAI	GTCTC	3 cut(s)	798, 889, 1071
BstMBI	GATC	7 cut(s)	201, 225, 282, 336, 342, 349, 997
BstNI	CCWGG	1 cut(s)	1182
BstNSI	RCATGY	1 cut(s)	515
BstSCI	CCNGG	2 cut(s)	843, 1180
BstSFI	CTRYAG	4 cut(s)	467, 689, 900, 1061
BstV2I	GAAGAC	1 cut(s)	329
BstX2I	RGATCY	2 cut(s)	201, 342
BstYI	RGATCY	2 cut(s)	201, 342
Bsu36I	CCTNAGG	2 cut(s)	581, 1193
BsuRI	GGCC	1 cut(s)	154
BtgI	CCRYGG	1 cut(s)	1171
BtrI	CACGTC	1 cut(s)	1085
BtsCI	GGATG	2 cut(s)	412, 949
BtsIMutI	CAGTG	1 cut(s)	909
BveI	ACCTGC	1 cut(s)	706
Cac8I	GCNNGC	2 cut(s)	254, 513
CfoI	GCGC	2 cut(s)	517, 1023
Cfr13I	GGNCC	2 cut(s)	673, 925
CseI	GACGC	2 cut(s)	77, 1215
Csp6I	GTAC	2 cut(s)	28, 577
CviAII	CATG	3 cut(s)	512, 791, 1172
CviQI	GTAC	2 cut(s)	28, 577
DdeI	CTNAG	4 cut(s)	137, 581, 624, 1193
DpnI	GATC	7 cut(s)	203, 227, 284, 338, 344, 351, 999
DpnII	GATC	7 cut(s)	201, 225, 282, 336, 342, 349, 997
Eam1104I	CTCTTC	5 cut(s)	266, 272, 482, 527, 887
EarI	CTCTTC	5 cut(s)	266, 272, 482, 527, 887
EciI	GGCGGA	1 cut(s)	490
Eco130I	CCWWGG	1 cut(s)	1171
Eco24I	GRGCYC	2 cut(s)	8, 149
Eco31I	GGTCTC	1 cut(s)	889
Eco47I	GGWCC	2 cut(s)	673, 925
Eco57I	CTGAAG	6 cut(s)	506, 629, 752, 767, 911, 1239
Eco81I	CCTNAGG	2 cut(s)	581, 1193
Eco88I	CYCGRG	3 cut(s)	148, 170, 380
EcoRI	GAATTC	2 cut(s)	697, 748
EcoRII	CCWGG	1 cut(s)	1180
EcoT14I	CCWWGG	1 cut(s)	1171
EcoT38I	GRGCYC	2 cut(s)	8, 149
ErhI	CCWWGG	1 cut(s)	1171
FaeI	CATG	3 cut(s)	515, 794, 1175
FaiI	YATR	5 cut(s)	306, 513, 792, 1173, 1188
FalI	AAGNNNNNCTT	2 cut(s)	1071, 1103
FatI	CATG	3 cut(s)	511, 790, 1171
FblI	GTMKAC	1 cut(s)	66
FokI	GGATG	2 cut(s)	419, 956
FriOI	GRGCYC	2 cut(s)	8, 149
GlaI	GCGC	2 cut(s)	516, 1022
GsaI	CCCAGC	1 cut(s)	145
GsuI	CTGGAG	4 cut(s)	341, 786, 1053, 1131
HaeIII	GGCC	1 cut(s)	154
HapII	CCGG	4 cut(s)	524, 557, 740, 845
HgaI	GACGC	2 cut(s)	77, 1215
HhaI	GCGC	2 cut(s)	517, 1023
Hin1I	GRCGYC	2 cut(s)	69, 216
Hin1II	CATG	3 cut(s)	515, 794, 1175
Hin6I	GCGC	2 cut(s)	515, 1021
HinP1I	GCGC	2 cut(s)	515, 1021
HincII	GTYRAC	2 cut(s)	67, 244
HindII	GTYRAC	2 cut(s)	67, 244
HinfI	GANTC	9 cut(s)	173, 389, 398, 410, 553, 727, 755, 1142, 1202
HpaII	CCGG	4 cut(s)	524, 557, 740, 845
HphI	GGTGA	4 cut(s)	34, 223, 695, 730
Hpy166II	GTNNAC	3 cut(s)	67, 244, 577
Hpy188III	TCNNGA	9 cut(s)	170, 340, 380, 557, 928, 941, 1070, 1103, 1148
Hpy8I	GTNNAC	3 cut(s)	67, 244, 577
HpyAV	CCTTC	4 cut(s)	178, 715, 1044, 1214
HpyCH4III	ACNGT	2 cut(s)	425, 904
HpyCH4IV	ACGT	4 cut(s)	216, 240, 865, 1084
HpyCH4V	TGCA	8 cut(s)	112, 469, 511, 691, 715, 937, 1063, 1115
HpyF3I	CTNAG	4 cut(s)	137, 581, 624, 1193
HpySE526I	ACGT	4 cut(s)	216, 240, 865, 1084
Hsp92I	GRCGYC	2 cut(s)	69, 216
Hsp92II	CATG	3 cut(s)	515, 794, 1175
HspAI	GCGC	2 cut(s)	515, 1021
Kpn2I	TCCGGA	1 cut(s)	556
Kzo9I	GATC	7 cut(s)	201, 225, 282, 336, 342, 349, 997
LguI	GCTCTTC	1 cut(s)	527
LmnI	GCTCC	8 cut(s)	91, 99, 261, 360, 651, 742, 910, 1181
LweI	GCATC	1 cut(s)	946
MaeII	ACGT	4 cut(s)	216, 240, 865, 1084
MaeIII	GTNAC	2 cut(s)	40, 946
MalI	GATC	7 cut(s)	203, 227, 284, 338, 344, 351, 999
MbiI	CCGCTC	1 cut(s)	506
MboI	GATC	7 cut(s)	201, 225, 282, 336, 342, 349, 997
MfeI	CAATTG	1 cut(s)	993
MflI	RGATCY	2 cut(s)	201, 342
MhlI	GDGCHC	3 cut(s)	8, 149, 825
MluCI	AATT	6 cut(s)	164, 562, 697, 748, 993, 1121
MlyI	GAGTC	2 cut(s)	182, 419
MmeI	TCCRAC	3 cut(s)	113, 384, 438
MroI	TCCGGA	1 cut(s)	556
MseI	TTAA	1 cut(s)	876
MslI	CAYNNNNRTG	2 cut(s)	818, 942
MspA1I	CMGCKG	6 cut(s)	80, 141, 157, 457, 466, 484
MspI	CCGG	4 cut(s)	524, 557, 740, 845
MspR9I	CCNGG	2 cut(s)	845, 1182
MunI	CAATTG	1 cut(s)	993
MvaI	CCWGG	1 cut(s)	1182
NciI	CCSGG	1 cut(s)	845
NcoI	CCATGG	1 cut(s)	1171
NdeII	GATC	7 cut(s)	201, 225, 282, 336, 342, 349, 997
NlaIII	CATG	3 cut(s)	515, 794, 1175
NlaIV	GGNNCC	6 cut(s)	257, 528, 675, 744, 1101, 1177
NmeAIII	GCCGAG	1 cut(s)	1049
NmuCI	GTSAC	1 cut(s)	40
NspI	RCATGY	1 cut(s)	515
PaeI	GCATGC	1 cut(s)	515
PaeR7I	CTCGAG	3 cut(s)	148, 170, 380
PaqCI	CACCTGC	1 cut(s)	706
PciSI	GCTCTTC	1 cut(s)	527
PcsI	WCGNNNNNNNCGW	4 cut(s)	291, 429, 438, 1090
PfeI	GAWTC	7 cut(s)	389, 398, 553, 727, 755, 1142, 1202
PflFI	GACNNNGTC	2 cut(s)	239, 641
PfoI	TCCNGGA	1 cut(s)	843
PleI	GAGTC	2 cut(s)	181, 418
PpsI	GAGTC	2 cut(s)	181, 418
Ppu21I	YACGTR	1 cut(s)	866
Psp6I	CCWGG	1 cut(s)	1180
PspFI	CCCAGC	1 cut(s)	141
PspGI	CCWGG	1 cut(s)	1180
PspN4I	GGNNCC	6 cut(s)	257, 528, 675, 744, 1101, 1177
PspPI	GGNCC	2 cut(s)	673, 925
PspXI	VCTCGAGB	1 cut(s)	148
PstI	CTGCAG	3 cut(s)	471, 693, 1065
PsuI	RGATCY	2 cut(s)	201, 342
PsyI	GACNNNGTC	2 cut(s)	239, 641
PvuII	CAGCTG	3 cut(s)	141, 466, 484
RsaI	GTAC	2 cut(s)	29, 578
RsaNI	GTAC	2 cut(s)	28, 577
RseI	CAYNNNNRTG	2 cut(s)	818, 942
SalI	GTCGAC	1 cut(s)	65
SapI	GCTCTTC	1 cut(s)	527
SaqAI	TTAA	1 cut(s)	876
Sau3AI	GATC	7 cut(s)	201, 225, 282, 336, 342, 349, 997
Sau96I	GGNCC	2 cut(s)	673, 925
SchI	GAGTC	2 cut(s)	182, 419
ScrFI	CCNGG	2 cut(s)	845, 1182
SduI	GDGCHC	3 cut(s)	8, 149, 825
SfaNI	GCATC	1 cut(s)	946
SfcI	CTRYAG	4 cut(s)	467, 689, 900, 1061
Sfr274I	CTCGAG	3 cut(s)	148, 170, 380
SinI	GGWCC	2 cut(s)	673, 925
SlaI	CTCGAG	3 cut(s)	148, 170, 380
SmiMI	CAYNNNNRTG	2 cut(s)	818, 942
SmlI	CTYRAG	3 cut(s)	148, 170, 380
SmoI	CTYRAG	3 cut(s)	148, 170, 380
SphI	GCATGC	1 cut(s)	515
Sse9I	AATT	6 cut(s)	164, 562, 697, 748, 993, 1121
StyD4I	CCNGG	2 cut(s)	843, 1180
StyI	CCWWGG	1 cut(s)	1171
TaaI	ACNGT	2 cut(s)	425, 904
TaiI	ACGT	4 cut(s)	219, 243, 868, 1087
TaqI	TCGA	6 cut(s)	66, 149, 171, 176, 381, 1000
TasI	AATT	6 cut(s)	164, 562, 697, 748, 993, 1121
TatI	WGTACW	1 cut(s)	27
TfiI	GAWTC	7 cut(s)	389, 398, 553, 727, 755, 1142, 1202
Tru1I	TTAA	1 cut(s)	876
Tru9I	TTAA	1 cut(s)	876
TscAI	CASTG	1 cut(s)	909
TseFI	GTSAC	1 cut(s)	40
Tsp45I	GTSAC	1 cut(s)	40
TspDTI	ATGAA	5 cut(s)	293, 779, 1023, 1089, 1167
TspGWI	ACGGA	1 cut(s)	808
TspRI	CASTG	1 cut(s)	909
Tth111I	GACNNNGTC	2 cut(s)	239, 641
VpaK11BI	GGWCC	2 cut(s)	673, 925
XapI	RAATTY	4 cut(s)	164, 562, 697, 748
XceI	RCATGY	1 cut(s)	515
XhoI	CTCGAG	3 cut(s)	148, 170, 380
XmiI	GTMKAC	1 cut(s)	66
ZraI	GACGTC	1 cut(s)	217

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