Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0007195

Physical Location & Seq

Genomic Coordinates Forward (+)

33170960 .. 33177075

Gene Structure 6116 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG192000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1191 bp

ATGGCAGCATCAACTTCTTGTGCCAGTAAGAGCCCATTTCCCATGAAAGACACAACCTCTAACTTAATTCCATACCCAGCACCTCTAGCTAAATATGAGGAGGTTGCTGCGAATCCTAAGCTGTTCATGTCTACTTTGGAAAAGCTCCATACTTCAATGGGAACCAAGTTTATGATACCTATAATAGGAGGAAGAGAGTTAGACTTGCATCGACTGTTTGTGGAGGTAACTTCCCGTGGTGGTATGGCAAAGATTGTTAAAGATAGAAGATGGAAGGAAGTTACCGCTGTATTCAACTTCCCCTCCACAGCTACAAATGCTTCTTTTGTGCTGCGGAAATATTATAATTCGTTGCTTCTCCACTATGAACAAATATACTATTTCAAAGCTCAAGCATGGAATCCTCTCTCTTCTGATATTTCACAGAACCCTAACATGACACCCGGTCCAGCTCCAAGGGGAGGAACTAAACGAAAATCAACTGAAGCTCAGACACTTCTGCTTCAGCAACCACATATAATTCCAGATATTCCTGGAGCCGGGACACCAGGACCGTCAGAAGATGACACTGTGTTAGGGTTTATAGATGGGAAATTCGAAAGTGGATATCTTGTTACCGTCACCAAAGGCACAGAGAAGTTAAGTGGTGTACTGTACCAAGTTCCACAGAATCCAGTACAGGAGGTTCCACAAGGCCCACAGAATTATAGCATGGTGGTCAACAGAAACGACAGTACCTCAGCTGTACCTGTTCCCCATCGTCGTCGACGAAGGAAGAAATCTGAGATAAAAAGGAGGGACCCTGCTCACCCAAAACCGAACAGAAGTGGGTATAACTTTTTCTTTGCTGAACAGCATGCAAGGCTGAAGCCACTTCATCCGGGGAAGGATAGAGAGATAAGTAGAATGATTGGTGAATTGTGGAATAAATTGAAGGAGTCTGATAAAGGAGTGTATCAGGAGAAAGCCGTGAAAGATAAAGAGAGGTACCGAGTAGAAATGGAGGAATACAGGGAGAGGTTGAAGGCTGCTCAAGTCATCAGTGATGCAGTCCCACTACAGCAGCGGTCTCCTGAAGCAGATGCAAGTATGGCAGAATCAGAAACCAAGATTGAAGAAACCGAGCCCGGCGACTCTCCCGAAACTGCAGATGAAAGTAGCGAGAGTAGTTCTAGCAAATCAGAGAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000217 GO:0000400 GO:0000902 GO:0000904 GO:0001067 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005515 GO:0005575 GO:0005623 GO:0006082 GO:0006355 GO:0006790 GO:0006807 GO:0008134 GO:0008150 GO:0008152 GO:0009653 GO:0009826 GO:0009846 GO:0009856 GO:0009860 GO:0009889 GO:0009932 GO:0009987 GO:0010468 GO:0010556 GO:0016043 GO:0016049 GO:0016143 GO:0019219 GO:0019222 GO:0019748 GO:0019757 GO:0019760 GO:0022414 GO:0030154 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0032989 GO:0040007 GO:0042995 GO:0043436 GO:0043565 GO:0044212 GO:0044237 GO:0044281 GO:0044464 GO:0044706 GO:0048468 GO:0048588 GO:0048589 GO:0048856 GO:0048868 GO:0048869 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0051704 GO:0060255 GO:0060560 GO:0065007 GO:0071704 GO:0071840 GO:0080090 GO:0090406 GO:0097159 GO:0120025 GO:0140110 GO:1901135 GO:1901363 GO:1901564 GO:1901657 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

ARID HMG_box

Protein Analysis

396

Amino Acids

44.43

Weight (kDa)

9.12

Isoelectric Point (pI)

55.23

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
ARID	PF01388	39 - 123	3.8e-22	ARID/BRIGHT DNA binding domain
HMG_box_2	PF09011	268 - 337	2.2e-10	HMG-box domain
HMG_box	PF00505	271 - 338	2.7e-15	HMG (high mobility group) box

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0007195)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G04880
fragaria_vesca	FvH4_4g16370 FvH4_4g16370 FvH4_4g16370 FvH4_4g16370 FvH4_4g16370 FvH4_4g16370
malus_domestica	MD04G1008800.v1.1
prunus_persica	Prupe.1G008100_v2.0.a1 Prupe.1G008100_v2.0.a1 Prupe.1G008100_v2.0.a1 Prupe.1G008100_v2.0.a1
pyrus_communis	pycom04g00660
rosa_chinensis	RchiOBHm_Chr4g0415261
rosa_laevigata	RLG00000008083
rosa_multiflora	Rmu_sc0003551.1_g000023
rosa_roxburghii	Rroxscaffold_5G00359070
rosa_rugosa	Rorug04G0132600 Rorug04G0132700 Rorug04G0132800
rosa_samantha	Rh4AG193400 Rh4BG192000 Rh4CG204500 Rh4DG191300
rosa_wichuraiana	Rw4G016460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	345
Acc65I	GGTACC	1 cut(s)	987
AccB1I	GGYRCC	1 cut(s)	987
AccI	GTMKAC	2 cut(s)	131, 766
AciI	CCGC	3 cut(s)	285, 334, 1066
AcsI	RAATTY	1 cut(s)	593
AcuI	CTGAAG	4 cut(s)	488, 504, 887, 1095
AfaI	GTAC	6 cut(s)	651, 656, 678, 736, 747, 989
AfiI	CCNNNNNNNGG	3 cut(s)	185, 461, 539
AgsI	TTSAA	6 cut(s)	156, 295, 385, 934, 1024, 1115
AhdI	GACNNNNNGTC	1 cut(s)	444
AjnI	CCWGG	2 cut(s)	532, 547
AluBI	AGCT	8 cut(s)	89, 121, 145, 311, 389, 452, 488, 743
AluI	AGCT	8 cut(s)	89, 121, 145, 311, 389, 452, 488, 743
Alw26I	GTCTC	1 cut(s)	1074
AoxI	GGCC	1 cut(s)	694
ApeKI	GCWGC	5 cut(s)	5, 107, 331, 1028, 1063
ApoI	RAATTY	1 cut(s)	593
Asp718I	GGTACC	1 cut(s)	987
AspS9I	GGNCC	4 cut(s)	446, 551, 695, 799
AsuC2I	CCSGG	4 cut(s)	444, 541, 882, 1128
AsuHPI	GGTGA	3 cut(s)	613, 800, 926
AsuII	TTCGAA	1 cut(s)	597
AvaII	GGWCC	3 cut(s)	446, 551, 799
BaeI	ACNNNNGTAYC	2 cut(s)	718, 751
BanI	GGYRCC	1 cut(s)	987
BanII	GRGCYC	2 cut(s)	35, 1128
BbvCI	CCTCAGC	1 cut(s)	739
BbvI	GCAGC	5 cut(s)	17, 94, 318, 1015, 1075
BccI	CCATC	3 cut(s)	264, 581, 765
BceAI	ACGGC	1 cut(s)	953
BciT130I	CCWGG	2 cut(s)	534, 549
BcnI	CCSGG	4 cut(s)	444, 541, 882, 1128
BcoDI	GTCTC	1 cut(s)	1074
BfaI	CTAG	2 cut(s)	86, 1173
BfmI	CTRYAG	2 cut(s)	1058, 1146
BisI	GCNGC	5 cut(s)	6, 108, 332, 1029, 1064
BlsI	GCNGC	5 cut(s)	7, 109, 333, 1030, 1065
Bme1390I	CCNGG	6 cut(s)	444, 534, 541, 549, 882, 1128
Bme18I	GGWCC	3 cut(s)	446, 551, 799
BmeRI	GACNNNNNGTC	1 cut(s)	444
BmgT120I	GGNCC	4 cut(s)	446, 551, 695, 799
BmiI	GGNNCC	6 cut(s)	163, 538, 687, 800, 801, 989
BmrFI	CCNGG	6 cut(s)	444, 534, 541, 549, 882, 1128
BmsI	GCATC	4 cut(s)	17, 217, 1036, 1072
BpmI	CTGGAG	1 cut(s)	555
Bpu10I	CCTNAGC	2 cut(s)	117, 739
Bpu14I	TTCGAA	1 cut(s)	597
BpuEI	CTTGAG	2 cut(s)	375, 1017
BpuMI	CCSGG	4 cut(s)	444, 541, 882, 1128
BsaI	GGTCTC	1 cut(s)	1074
BsaJI	CCNNGG	3 cut(s)	235, 455, 881
BsaXI	ACNNNNNCTCC	2 cut(s)	287, 317
Bsc4I	CCNNNNNNNGG	3 cut(s)	185, 461, 539
Bse1I	ACTGG	2 cut(s)	24, 674
BseBI	CCWGG	2 cut(s)	534, 549
BseDI	CCNNGG	3 cut(s)	235, 455, 881
BseGI	GGATG	1 cut(s)	877
BseLI	CCNNNNNNNGG	3 cut(s)	185, 461, 539
BseMII	CTCAG	3 cut(s)	503, 753, 774
BseNI	ACTGG	2 cut(s)	24, 674
BseRI	GAGGAG	1 cut(s)	113
BseXI	GCAGC	5 cut(s)	17, 94, 318, 1015, 1075
BseYI	CCCAGC	1 cut(s)	76
BshFI	GGCC	1 cut(s)	696
BshNI	GGYRCC	1 cut(s)	987
BsiSI	CCGG	4 cut(s)	444, 540, 881, 1128
BslFI	GGGAC	3 cut(s)	556, 812, 1037
BslI	CCNNNNNNNGG	3 cut(s)	185, 461, 539
BsmAI	GTCTC	1 cut(s)	1074
BsmFI	GGGAC	3 cut(s)	556, 812, 1037
BsnI	GGCC	1 cut(s)	696
Bso31I	GGTCTC	1 cut(s)	1074
Bsp119I	TTCGAA	1 cut(s)	597
Bsp1286I	GDGCHC	2 cut(s)	35, 1128
BspACI	CCGC	3 cut(s)	285, 334, 1066
BspANI	GGCC	1 cut(s)	696
BspCNI	CTCAG	3 cut(s)	502, 752, 775
BspLI	GGNNCC	6 cut(s)	163, 538, 687, 800, 801, 989
BspMAI	CTGCAG	1 cut(s)	1150
BspT104I	TTCGAA	1 cut(s)	597
BspT107I	GGYRCC	1 cut(s)	987
BspTNI	GGTCTC	1 cut(s)	1074
BsrI	ACTGG	2 cut(s)	24, 674
BssECI	CCNNGG	3 cut(s)	235, 455, 881
BssT1I	CCWWGG	1 cut(s)	455
Bst2UI	CCWGG	2 cut(s)	534, 549
Bst4CI	ACNGT	6 cut(s)	216, 555, 571, 619, 654, 734
Bst6I	CTCTTC	2 cut(s)	187, 415
BstBI	TTCGAA	1 cut(s)	597
BstC8I	GCNNGC	1 cut(s)	858
BstDEI	CTNAG	4 cut(s)	117, 489, 739, 783
BstDSI	CCRYGG	1 cut(s)	235
BstENI	CCTNNNNNAGG	1 cut(s)	183
BstF5I	GGATG	1 cut(s)	877
BstMAI	GTCTC	1 cut(s)	1074
BstMWI	GCNNNNNNNGC	4 cut(s)	86, 317, 862, 1091
BstNI	CCWGG	2 cut(s)	534, 549
BstNSI	RCATGY	1 cut(s)	860
BstSCI	CCNGG	6 cut(s)	442, 532, 539, 547, 880, 1126
BstSFI	CTRYAG	2 cut(s)	1058, 1146
BstV1I	GCAGC	5 cut(s)	17, 94, 318, 1015, 1075
BsuRI	GGCC	1 cut(s)	696
BtgI	CCRYGG	1 cut(s)	235
BtsCI	GGATG	1 cut(s)	877
BtsIMutI	CAGTG	2 cut(s)	567, 1048
Cac8I	GCNNGC	1 cut(s)	858
Cfr13I	GGNCC	4 cut(s)	446, 551, 695, 799
Csp6I	GTAC	6 cut(s)	650, 655, 677, 735, 746, 988
CviAII	CATG	6 cut(s)	43, 127, 396, 436, 712, 857
CviQI	GTAC	6 cut(s)	650, 655, 677, 735, 746, 988
DdeI	CTNAG	4 cut(s)	117, 489, 739, 783
DriI	GACNNNNNGTC	1 cut(s)	444
Eam1104I	CTCTTC	2 cut(s)	187, 415
Eam1105I	GACNNNNNGTC	1 cut(s)	444
EarI	CTCTTC	2 cut(s)	187, 415
Eco130I	CCWWGG	1 cut(s)	455
Eco24I	GRGCYC	2 cut(s)	35, 1128
Eco31I	GGTCTC	1 cut(s)	1074
Eco32I	GATATC	1 cut(s)	608
Eco47I	GGWCC	3 cut(s)	446, 551, 799
Eco57I	CTGAAG	4 cut(s)	488, 504, 887, 1095
EcoNI	CCTNNNNNAGG	1 cut(s)	183
EcoO109I	RGGNCCY	1 cut(s)	799
EcoRII	CCWGG	2 cut(s)	532, 547
EcoRV	GATATC	1 cut(s)	608
EcoT14I	CCWWGG	1 cut(s)	455
EcoT38I	GRGCYC	2 cut(s)	35, 1128
ErhI	CCWWGG	1 cut(s)	455
FaeI	CATG	6 cut(s)	46, 130, 399, 439, 715, 860
FaqI	GGGAC	3 cut(s)	556, 812, 1037
FatI	CATG	6 cut(s)	42, 126, 395, 435, 711, 856
FblI	GTMKAC	2 cut(s)	131, 766
Fnu4HI	GCNGC	5 cut(s)	6, 108, 332, 1029, 1064
FokI	GGATG	1 cut(s)	864
FriOI	GRGCYC	2 cut(s)	35, 1128
Fsp4HI	GCNGC	5 cut(s)	6, 108, 332, 1029, 1064
FspBI	CTAG	2 cut(s)	86, 1173
GluI	GCNGC	5 cut(s)	6, 108, 332, 1029, 1064
GsaI	CCCAGC	1 cut(s)	80
GsuI	CTGGAG	1 cut(s)	555
HaeIII	GGCC	1 cut(s)	696
HapII	CCGG	4 cut(s)	444, 540, 881, 1128
Hin1II	CATG	6 cut(s)	46, 130, 399, 439, 715, 860
HincII	GTYRAC	2 cut(s)	721, 767
HindII	GTYRAC	2 cut(s)	721, 767
HinfI	GANTC	6 cut(s)	112, 400, 670, 938, 1097, 1133
HpaII	CCGG	4 cut(s)	444, 540, 881, 1128
HphI	GGTGA	3 cut(s)	613, 800, 926
Hpy166II	GTNNAC	4 cut(s)	132, 650, 721, 767
Hpy188I	TCNGA	7 cut(s)	415, 492, 559, 784, 943, 1102, 1183
Hpy188III	TCNNGA	4 cut(s)	524, 959, 1073, 1139
Hpy8I	GTNNAC	4 cut(s)	132, 650, 721, 767
Hpy99I	CGWCG	3 cut(s)	765, 768, 771
HpyAV	CCTTC	5 cut(s)	268, 765, 880, 928, 1018
HpyCH4III	ACNGT	6 cut(s)	216, 555, 571, 619, 654, 734
HpyCH4V	TGCA	5 cut(s)	208, 860, 1049, 1085, 1148
HpyF10VI	GCNNNNNNNGC	4 cut(s)	86, 317, 862, 1091
HpyF3I	CTNAG	4 cut(s)	117, 489, 739, 783
Hsp92II	CATG	6 cut(s)	46, 130, 399, 439, 715, 860
KflI	GGGWCCC	1 cut(s)	799
KpnI	GGTACC	1 cut(s)	991
LmnI	GCTCC	3 cut(s)	150, 457, 536
Lsp1109I	GCAGC	5 cut(s)	17, 94, 318, 1015, 1075
LweI	GCATC	4 cut(s)	17, 217, 1036, 1072
MaeI	CTAG	2 cut(s)	86, 1173
MaeIII	GTNAC	4 cut(s)	226, 280, 613, 619
MboII	GAAGA	6 cut(s)	204, 279, 402, 572, 787, 1127
MhlI	GDGCHC	2 cut(s)	35, 1128
MluCI	AATT	7 cut(s)	66, 346, 519, 593, 703, 917, 929
MlyI	GAGTC	2 cut(s)	947, 1127
MseI	TTAA	3 cut(s)	65, 258, 641
MspA1I	CMGCKG	3 cut(s)	287, 743, 1066
MspI	CCGG	4 cut(s)	444, 540, 881, 1128
MspR9I	CCNGG	6 cut(s)	444, 534, 541, 549, 882, 1128
MvaI	CCWGG	2 cut(s)	534, 549
MwoI	GCNNNNNNNGC	4 cut(s)	86, 317, 862, 1091
NciI	CCSGG	4 cut(s)	444, 541, 882, 1128
NlaIII	CATG	6 cut(s)	46, 130, 399, 439, 715, 860
NlaIV	GGNNCC	6 cut(s)	163, 538, 687, 800, 801, 989
NmuCI	GTSAC	1 cut(s)	619
NspI	RCATGY	1 cut(s)	860
NspV	TTCGAA	1 cut(s)	597
PaeI	GCATGC	1 cut(s)	860
PcsI	WCGNNNNNNNCGW	1 cut(s)	766
PfeI	GAWTC	4 cut(s)	112, 400, 670, 1097
PfoI	TCCNGGA	1 cut(s)	532
PkrI	GCNGC	5 cut(s)	7, 109, 333, 1030, 1065
PleI	GAGTC	2 cut(s)	946, 1127
PpsI	GAGTC	2 cut(s)	946, 1127
PpuMI	RGGWCCY	1 cut(s)	799
PsiI	TTATAA	1 cut(s)	345
Psp5II	RGGWCCY	1 cut(s)	799
Psp6I	CCWGG	2 cut(s)	532, 547
PspFI	CCCAGC	1 cut(s)	76
PspGI	CCWGG	2 cut(s)	532, 547
PspN4I	GGNNCC	6 cut(s)	163, 538, 687, 800, 801, 989
PspPI	GGNCC	4 cut(s)	446, 551, 695, 799
PspPPI	RGGWCCY	1 cut(s)	799
PsrI	GAACNNNNNNTAC	2 cut(s)	669, 701
PstI	CTGCAG	1 cut(s)	1150
PvuII	CAGCTG	1 cut(s)	743
RsaI	GTAC	6 cut(s)	651, 656, 678, 736, 747, 989
RsaNI	GTAC	6 cut(s)	650, 655, 677, 735, 746, 988
SalI	GTCGAC	1 cut(s)	765
SaqAI	TTAA	3 cut(s)	65, 258, 641
SatI	GCNGC	5 cut(s)	6, 108, 332, 1029, 1064
Sau96I	GGNCC	4 cut(s)	446, 551, 695, 799
SchI	GAGTC	2 cut(s)	947, 1127
ScrFI	CCNGG	6 cut(s)	444, 534, 541, 549, 882, 1128
SduI	GDGCHC	2 cut(s)	35, 1128
SfaNI	GCATC	4 cut(s)	17, 217, 1036, 1072
SfcI	CTRYAG	2 cut(s)	1058, 1146
SfuI	TTCGAA	1 cut(s)	597
SgrDI	CGTCGACG	1 cut(s)	765
SinI	GGWCC	3 cut(s)	446, 551, 799
SmlI	CTYRAG	2 cut(s)	390, 1032
SmoI	CTYRAG	2 cut(s)	390, 1032
SphI	GCATGC	1 cut(s)	860
Sse9I	AATT	7 cut(s)	66, 346, 519, 593, 703, 917, 929
SsiI	CCGC	3 cut(s)	285, 334, 1066
SspI	AATATT	1 cut(s)	341
SspMI	CTAG	2 cut(s)	86, 1173
StyD4I	CCNGG	6 cut(s)	442, 532, 539, 547, 880, 1126
StyI	CCWWGG	1 cut(s)	455
TaaI	ACNGT	6 cut(s)	216, 555, 571, 619, 654, 734
TaqI	TCGA	3 cut(s)	211, 597, 766
TasI	AATT	7 cut(s)	66, 346, 519, 593, 703, 917, 929
TatI	WGTACW	2 cut(s)	649, 676
TfiI	GAWTC	4 cut(s)	112, 400, 670, 1097
Tru1I	TTAA	3 cut(s)	65, 258, 641
Tru9I	TTAA	3 cut(s)	65, 258, 641
TscAI	CASTG	2 cut(s)	574, 1048
TseFI	GTSAC	1 cut(s)	619
TseI	GCWGC	5 cut(s)	5, 107, 331, 1028, 1063
Tsp45I	GTSAC	1 cut(s)	619
TspDTI	ATGAA	5 cut(s)	59, 115, 381, 866, 1167
TspRI	CASTG	2 cut(s)	574, 1048
VpaK11BI	GGWCC	3 cut(s)	446, 551, 799
XagI	CCTNNNNNAGG	1 cut(s)	183
XapI	RAATTY	1 cut(s)	593
XceI	RCATGY	1 cut(s)	860
XmiI	GTMKAC	2 cut(s)	131, 766
XspI	CTAG	2 cut(s)	86, 1173

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