Rorug02G0117700

bromo domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000002
OG0000178
Physical Location & Seq
Forward (+)
10020487 .. 10022878
2392 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug02G0117700.1

Sequence Viewer

Length: 708 bp
ATGGATTTTATAGCGCACCCATCTCGTTTCTCGTCCTCCTTTTCCTATTCCTTTGGAAATATCTTCGAGAGGGTTAAAGATTTTTGCAACTTTGCGGTTTCTGCGATTATTGGGAACGTTTTCTCTGCGATCTTCACCTTCTTCTTTGCTTTGGTGGGCACCTTGTTGGGAGCTTTGACTGGAGCTTTGATAGGACAAGAAACCGAGAGCGGATTTGTTAGGGGTGCTGCTGTTGGAGCAATCTCAGGAGCTGTTTTCTCCATTGAAGTGTTTGAATCATCCCTTATTCTATGGCAATCAGATGAATCCGGAATTGGGTGTCTTCTCTACTTGATTGATGTCATTGCGAGTCTCCTAAGTGGTAGATTAGTCCGCGAGCGAATTGGTCCAGCCATGTTGAGTGCAGTGCAAAGTCAGATGGTTGCTGTTGAATCAAGCTTTGAAGAGATTCCTAACATCTTTGACACCGGTGGGGCCAAAGGATTGCCTGGAGATTCAGTTGAAAAGATCCCAAAGATTATCATCACTAGCAACAATAATGTGGATGCTTCTGGAGATAAAGTCTCATGTTCAGTGTGCCTTCAGGACTTTCAGCTTGGAGAGACAGTCAGAAGTTTACCACAATGCCATCACATGTTTCACCTGCCATGTATAGATAAGTGGCTCCTGAGGCATGGCTCTTGCCCACTATGCAGAAGGGATCTGTGA
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
Bromodomain Transposase_24

Protein Analysis

235

Amino Acids

25.37

Weight (kDa)

5.17

Isoelectric Point (pI)

43.06

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Gly-zipper_YMGG PF13441 50 - 85 9.8e-08 YMGG-like Gly-zipper
zf-RING_2 PF13639 189 - 232 2.8e-13 Ring finger domain
zf-RING_11 PF17123 190 - 218 6.9e-09 RING-like zinc finger
zf-C3HC4_2 PF13923 190 - 231 1.6e-06 Zinc finger, C3HC4 type (RING finger)
zf-rbx1 PF12678 204 - 232 8.5e-07 RING-H2 zinc finger domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0000178)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G40087 AT3G30200
fragaria_vesca FvH4_1g23271 FvH4_3g22812 FvH4_3g22813 FvH4_3g31042 FvH4_3g31043 FvH4_7g03653
malus_domestica MD05G1321200.v1.1 MD09G1027200.v1.1 MD15G1434900.v1.1 MD15G1435000.v1.1 MD15G1435100.v1.1
prunus_persica Prupe.1G578800_v2.0.a1 Prupe.1G578800_v2.0.a1 Prupe.1G578800_v2.0.a1 Prupe.2G062700_v2.0.a1 Prupe.5G033400_v2.0.a1 Prupe.7G022900_v2.0.a1 Prupe.7G105300_v2.0.a1 Prupe.7G105300_v2.0.a1 Prupe.7G105300_v2.0.a1 Prupe.7G105300_v2.0.a1 Prupe.7G105300_v2.0.a1 Prupe.7G105300_v2.0.a1 Prupe.7G105300_v2.0.a1
pyrus_communis pycom03g07600 pycom03g11360 pycom05g02870 pycom111g02130 pycom15g38370 pycom15g38380
rosa_chinensis RchiOBHm_Chr1g0346371 RchiOBHm_Chr4g0402051 RchiOBHm_Chr4g0414991 RchiOBHm_Chr5g0051011 RchiOBHm_Chr5g0051181 RchiOBHm_Chr6g0273071 RchiOBHm_Chr7g0218301 RchiOBHm_Chr7g0241081
rosa_laevigata RLG00000007709 RLG00000008953 RLG00000012400 RLG00000012401 RLG00000013805 RLG00000014199 RLG00000014726 RLG00000017792 RLG00000017793 RLG00000018860 RLG00000020749 RLG00000030708 RLG00000033507
rosa_multiflora Rmu_co8373761.1_g000001 Rmu_sc0000028.1_g000023 Rmu_sc0000235.1_g000040 Rmu_sc0000293.1_g000017 Rmu_sc0000293.1_g000019 Rmu_sc0000651.1_g000012 Rmu_sc0000870.1_g000051 Rmu_sc0001167.1_g000031 Rmu_sc0001373.1_g000039 Rmu_sc0001861.1_g000055 Rmu_sc0001891.1_g000038 Rmu_sc0001909.1_g000015 Rmu_sc0002500.1_g000002 Rmu_sc0002868.1_g000036 Rmu_sc0002868.1_g000038 Rmu_sc0002868.1_g000039 Rmu_sc0003379.1_g000001 Rmu_sc0003778.1_g000005 Rmu_sc0003778.1_g000006 Rmu_sc0010475.1_g000011 Rmu_sc0015271.1_g000002 Rmu_sc0015271.1_g000003 Rmu_sc0017962.1_g000001 Rmu_sc0017962.1_g000003 Rmu_sc0022129.1_g000004 Rmu_sc0025694.1_g000003 Rmu_sc0025694.1_g000004
rosa_roxburghii Rroxscaffold_1G00031640 Rroxscaffold_1G00047620 Rroxscaffold_1G00047630 Rroxscaffold_1G00050560 Rroxscaffold_1G00050570 Rroxscaffold_1G00054800 Rroxscaffold_1G00055890 Rroxscaffold_2G00108230 Rroxscaffold_3G00240860 Rroxscaffold_4G00299670 Rroxscaffold_4G00299680 Rroxscaffold_4G00299690 Rroxscaffold_4G00306320 Rroxscaffold_4G00306340 Rroxscaffold_5G00341060 Rroxscaffold_5G00342000 Rroxscaffold_5G00355660 Rroxscaffold_5G00357170 Rroxscaffold_6G00399490 Rroxscaffold_6G00408400 Rroxscaffold_7G00189260 Rroxscaffold_7G00199620 Rroxscaffold_7G00215470
rosa_rugosa Rorug02G0117600 Rorug02G0117700 Rorug04G0116400 Rorug06G0103200
rosa_samantha Rh1AG062800 Rh1AG073700 Rh1CG091700 Rh1DG077600 Rh1DG077700 Rh1DG077800 Rh1DG117400 Rh1DG146300 Rh2BG193300 Rh2BG193400 Rh2BG265300 Rh2BG413400 Rh3CG365500 Rh4AG315400 Rh4BG323100 Rh4BG323200 Rh4CG071400 Rh4CG142500 Rh4CG203300 Rh4CG338300 Rh4DG079300 Rh4DG079400 Rh4DG217000 Rh4DG217100 Rh4DG217200 Rh4DG217300 Rh5AG128300 Rh5AG239900 Rh5AG465900 Rh5BG348600 Rh5BG387900 Rh5BG388000 Rh5CG181800 Rh5CG181900 Rh5CG271000 Rh5CG271100 Rh5DG127100 Rh5DG138400 Rh5DG168200 Rh5DG168300 Rh5DG361500 Rh5DG460400 Rh6AG045400 Rh6AG058600 Rh6BG275000 Rh6CG089700 Rh6DG182300 Rh6DG182400 Rh6DG207300 Rh6DG207400 Rh7BG374000 Rh7BG390600 Rh7BG390700 Rh7BG390800
rosa_wichuraiana Rw0G018690 Rw1G007320 Rw4G008510 Rw5G011510 Rw5G021830 Rw6G024150

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 651
Acc36I ACCTGC 1 cut(s) 651
AccB1I GGYRCC 1 cut(s) 158
AccBSI CCGCTC 1 cut(s) 210
AccII CGCG 1 cut(s) 375
AccIII TCCGGA 1 cut(s) 308
AciI CCGC 3 cut(s) 95, 210, 373
AclI AACGTT 1 cut(s) 117
AclWI GGATC 1 cut(s) 502
AcuI CTGAAG 1 cut(s) 566
AfiI CCNNNNNNNGG 1 cut(s) 315
AflIII ACRYGT 1 cut(s) 633
AgeI ACCGGT 1 cut(s) 467
AgsI TTSAA 5 cut(s) 266, 275, 431, 443, 503
AjnI CCWGG 1 cut(s) 487
AjuI GAANNNNNNNTTGG 2 cut(s) 297, 329
AluBI AGCT 5 cut(s) 173, 185, 251, 438, 595
AluI AGCT 5 cut(s) 173, 185, 251, 438, 595
Alw26I GTCTC 3 cut(s) 356, 568, 596
AlwI GGATC 1 cut(s) 502
AlwNI CAGNNNCTG 1 cut(s) 251
Aor13HI TCCGGA 1 cut(s) 308
AoxI GGCC 1 cut(s) 474
ApeKI GCWGC 1 cut(s) 227
ArsI GACNNNNNNTTYG 2 cut(s) 169, 201
AsiGI ACCGGT 1 cut(s) 467
Asp700I GAANNNNTTC 2 cut(s) 119, 447
AspLEI GCGC 1 cut(s) 16
AspS9I GGNCC 2 cut(s) 386, 474
AsuHPI GGTGA 2 cut(s) 127, 632
AvaII GGWCC 1 cut(s) 386
AxyI CCTNAGG 1 cut(s) 668
BaeGI GKGCMC 1 cut(s) 161
BanI GGYRCC 1 cut(s) 158
BbsI GAAGAC 1 cut(s) 314
BbvI GCAGC 1 cut(s) 214
BccI CCATC 3 cut(s) 28, 412, 636
BcgI CGANNNNNNTGC 2 cut(s) 5, 39
BciT130I CCWGG 1 cut(s) 489
BcoDI GTCTC 3 cut(s) 356, 568, 596
BfaI CTAG 1 cut(s) 528
BfuAI ACCTGC 1 cut(s) 651
BisI GCNGC 1 cut(s) 228
BlsI GCNGC 1 cut(s) 229
Bme1390I CCNGG 1 cut(s) 489
Bme18I GGWCC 1 cut(s) 386
BmgT120I GGNCC 2 cut(s) 386, 474
BmiI GGNNCC 3 cut(s) 160, 475, 665
BmrFI CCNGG 1 cut(s) 489
BmsI GCATC 1 cut(s) 535
BpiI GAAGAC 1 cut(s) 314
BpmI CTGGAG 3 cut(s) 201, 510, 573
BsaBI GATNNNNATC 1 cut(s) 521
BsaWI WCCGGW 2 cut(s) 308, 467
BsaXI ACNNNNNCTCC 6 cut(s) 483, 513, 546, 576, 591, 621
Bsc4I CCNNNNNNNGG 1 cut(s) 315
Bse118I RCCGGY 1 cut(s) 467
Bse1I ACTGG 1 cut(s) 184
Bse21I CCTNAGG 1 cut(s) 668
Bse3DI GCAATG 1 cut(s) 342
Bse8I GATNNNNATC 1 cut(s) 521
BseAI TCCGGA 1 cut(s) 308
BseBI CCWGG 1 cut(s) 489
BseGI GGATG 2 cut(s) 278, 550
BseJI GATNNNNATC 1 cut(s) 521
BseLI CCNNNNNNNGG 1 cut(s) 315
BseMI GCAATG 1 cut(s) 342
BseMII CTCAG 2 cut(s) 258, 659
BseNI ACTGG 1 cut(s) 184
BseSI GKGCMC 1 cut(s) 161
BseXI GCAGC 1 cut(s) 214
BsgI GTGCAG 1 cut(s) 423
Bsh1236I CGCG 1 cut(s) 375
BshFI GGCC 1 cut(s) 476
BshNI GGYRCC 1 cut(s) 158
BshTI ACCGGT 1 cut(s) 467
BsiSI CCGG 2 cut(s) 309, 468
BslI CCNNNNNNNGG 1 cut(s) 315
BsmAI GTCTC 3 cut(s) 356, 568, 596
BsnI GGCC 1 cut(s) 476
Bsp1286I GDGCHC 1 cut(s) 161
Bsp13I TCCGGA 1 cut(s) 308
Bsp143I GATC 3 cut(s) 129, 507, 700
BspACI CCGC 3 cut(s) 95, 210, 373
BspANI GGCC 1 cut(s) 476
BspCNI CTCAG 2 cut(s) 257, 660
BspEI TCCGGA 1 cut(s) 308
BspFNI CGCG 1 cut(s) 375
BspLI GGNNCC 3 cut(s) 160, 475, 665
BspMI ACCTGC 1 cut(s) 651
BspPI GGATC 1 cut(s) 502
BspT107I GGYRCC 1 cut(s) 158
BsrBI CCGCTC 1 cut(s) 210
BsrDI GCAATG 1 cut(s) 342
BsrFI RCCGGY 1 cut(s) 467
BsrI ACTGG 1 cut(s) 184
BssAI RCCGGY 1 cut(s) 467
BssMI GATC 3 cut(s) 129, 507, 700
Bst2UI CCWGG 1 cut(s) 489
Bst4CI ACNGT 1 cut(s) 607
Bst6I CTCTTC 1 cut(s) 438
BstC8I GCNNGC 1 cut(s) 377
BstDEI CTNAG 3 cut(s) 244, 356, 668
BstF5I GGATG 2 cut(s) 278, 550
BstFNI CGCG 1 cut(s) 375
BstHHI GCGC 1 cut(s) 16
BstKTI GATC 3 cut(s) 132, 510, 703
BstMAI GTCTC 3 cut(s) 356, 568, 596
BstMBI GATC 3 cut(s) 129, 507, 700
BstMWI GCNNNNNNNGC 4 cut(s) 101, 236, 670, 690
BstNI CCWGG 1 cut(s) 489
BstNSI RCATGY 1 cut(s) 637
BstSCI CCNGG 1 cut(s) 487
BstSLI GKGCMC 1 cut(s) 161
BstUI CGCG 1 cut(s) 375
BstV1I GCAGC 1 cut(s) 214
BstV2I GAAGAC 1 cut(s) 314
BstX2I RGATCY 2 cut(s) 507, 700
BstYI RGATCY 2 cut(s) 507, 700
Bsu36I CCTNAGG 1 cut(s) 668
BsuRI GGCC 1 cut(s) 476
BtsCI GGATG 2 cut(s) 278, 550
BtsI GCAGTG 1 cut(s) 411
BtsIMutI CAGTG 2 cut(s) 411, 579
BveI ACCTGC 1 cut(s) 651
Cac8I GCNNGC 1 cut(s) 377
CaiI CAGNNNCTG 1 cut(s) 251
CfoI GCGC 1 cut(s) 16
Cfr10I RCCGGY 1 cut(s) 467
Cfr13I GGNCC 2 cut(s) 386, 474
CspAI ACCGGT 1 cut(s) 467
CviAII CATG 5 cut(s) 394, 567, 634, 648, 674
CviJI RGCY 9 cut(s) 173, 185, 251, 392, 438, 476, 595, 664, 678
CviKI_1 RGCY 9 cut(s) 173, 185, 251, 392, 438, 476, 595, 664, 678
DdeI CTNAG 3 cut(s) 244, 356, 668
DpnI GATC 3 cut(s) 131, 509, 702
DpnII GATC 3 cut(s) 129, 507, 700
Eam1104I CTCTTC 1 cut(s) 438
EarI CTCTTC 1 cut(s) 438
Eco47I GGWCC 1 cut(s) 386
Eco57I CTGAAG 1 cut(s) 566
Eco81I CCTNAGG 1 cut(s) 668
EcoRII CCWGG 1 cut(s) 487
FaeI CATG 5 cut(s) 397, 570, 637, 651, 677
FaiI YATR 9 cut(s) 11, 292, 395, 568, 635, 649, 653, 675, 691
FatI CATG 5 cut(s) 393, 566, 633, 647, 673
Fnu4HI GCNGC 1 cut(s) 228
FokI GGATG 2 cut(s) 265, 557
Fsp4HI GCNGC 1 cut(s) 228
FspBI CTAG 1 cut(s) 528
GlaI GCGC 1 cut(s) 15
GluI GCNGC 1 cut(s) 228
GsuI CTGGAG 3 cut(s) 201, 510, 573
HaeIII GGCC 1 cut(s) 476
HapII CCGG 2 cut(s) 309, 468
HhaI GCGC 1 cut(s) 16
Hin1II CATG 5 cut(s) 397, 570, 637, 651, 677
Hin6I GCGC 1 cut(s) 14
HinP1I GCGC 1 cut(s) 14
HindIII AAGCTT 1 cut(s) 436
HinfI GANTC 6 cut(s) 275, 305, 349, 431, 448, 494
HpaII CCGG 2 cut(s) 309, 468
HphI GGTGA 2 cut(s) 127, 632
Hpy166II GTNNAC 1 cut(s) 617
Hpy188I TCNGA 3 cut(s) 301, 417, 611
Hpy188III TCNNGA 6 cut(s) 67, 246, 309, 552, 584, 667
Hpy8I GTNNAC 1 cut(s) 617
HpyAV CCTTC 3 cut(s) 148, 590, 690
HpyCH4III ACNGT 1 cut(s) 607
HpyCH4IV ACGT 1 cut(s) 117
HpyCH4V TGCA 4 cut(s) 87, 404, 409, 693
HpyF10VI GCNNNNNNNGC 4 cut(s) 101, 236, 670, 690
HpyF3I CTNAG 3 cut(s) 244, 356, 668
HpySE526I ACGT 1 cut(s) 117
Hsp92II CATG 5 cut(s) 397, 570, 637, 651, 677
HspAI GCGC 1 cut(s) 14
Kpn2I TCCGGA 1 cut(s) 308
Kzo9I GATC 3 cut(s) 129, 507, 700
LmnI GCTCC 5 cut(s) 170, 182, 236, 248, 669
Lsp1109I GCAGC 1 cut(s) 214
LweI GCATC 1 cut(s) 535
MaeI CTAG 1 cut(s) 528
MaeII ACGT 1 cut(s) 117
MalI GATC 3 cut(s) 131, 509, 702
MbiI CCGCTC 1 cut(s) 210
MboI GATC 3 cut(s) 129, 507, 700
MboII GAAGA 5 cut(s) 55, 124, 133, 314, 455
MflI RGATCY 2 cut(s) 507, 700
MhlI GDGCHC 1 cut(s) 161
MluCI AATT 2 cut(s) 312, 381
MlyI GAGTC 1 cut(s) 358
MmeI TCCRAC 1 cut(s) 214
MnlI CCTC 3 cut(s) 46, 63, 663
MroI TCCGGA 1 cut(s) 308
MroXI GAANNNNTTC 2 cut(s) 119, 447
MseI TTAA 1 cut(s) 75
MslI CAYNNNNRTG 1 cut(s) 266
MspI CCGG 2 cut(s) 309, 468
MspR9I CCNGG 1 cut(s) 489
MvaI CCWGG 1 cut(s) 489
MvnI CGCG 1 cut(s) 375
MwoI GCNNNNNNNGC 4 cut(s) 101, 236, 670, 690
NdeII GATC 3 cut(s) 129, 507, 700
NlaIII CATG 5 cut(s) 397, 570, 637, 651, 677
NlaIV GGNNCC 3 cut(s) 160, 475, 665
NspI RCATGY 1 cut(s) 637
PaqCI CACCTGC 1 cut(s) 651
PciI ACATGT 1 cut(s) 633
PdmI GAANNNNTTC 2 cut(s) 119, 447
PfeI GAWTC 5 cut(s) 275, 305, 431, 448, 494
PinAI ACCGGT 1 cut(s) 467
PkrI GCNGC 1 cut(s) 229
PleI GAGTC 1 cut(s) 357
PpsI GAGTC 1 cut(s) 357
PscI ACATGT 1 cut(s) 633
Psp1406I AACGTT 1 cut(s) 117
Psp6I CCWGG 1 cut(s) 487
PspGI CCWGG 1 cut(s) 487
PspN4I GGNNCC 3 cut(s) 160, 475, 665
PspPI GGNCC 2 cut(s) 386, 474
PstNI CAGNNNCTG 1 cut(s) 251
PsuI RGATCY 2 cut(s) 507, 700
RseI CAYNNNNRTG 1 cut(s) 266
SaqAI TTAA 1 cut(s) 75
SatI GCNGC 1 cut(s) 228
Sau3AI GATC 3 cut(s) 129, 507, 700
Sau96I GGNCC 2 cut(s) 386, 474
SchI GAGTC 1 cut(s) 358
ScrFI CCNGG 1 cut(s) 489
SduI GDGCHC 1 cut(s) 161
SetI ASST 9 cut(s) 120, 140, 164, 175, 187, 253, 440, 597, 645
SfaNI GCATC 1 cut(s) 535
SgrAI CRCCGGYG 1 cut(s) 467
SinI GGWCC 1 cut(s) 386
SmiMI CAYNNNNRTG 1 cut(s) 266
Sse9I AATT 2 cut(s) 312, 381
SsiI CCGC 3 cut(s) 95, 210, 373
SspMI CTAG 1 cut(s) 528
StyD4I CCNGG 1 cut(s) 487
TaaI ACNGT 1 cut(s) 607
TaiI ACGT 1 cut(s) 120
TaqI TCGA 1 cut(s) 66
TasI AATT 2 cut(s) 312, 381
TfiI GAWTC 5 cut(s) 275, 305, 431, 448, 494
Tru1I TTAA 1 cut(s) 75
Tru9I TTAA 1 cut(s) 75
TscAI CASTG 2 cut(s) 411, 579
TseI GCWGC 1 cut(s) 227
TspDTI ATGAA 1 cut(s) 318
TspRI CASTG 2 cut(s) 411, 579
VpaK11BI GGWCC 1 cut(s) 386
XceI RCATGY 1 cut(s) 637
XmnI GAANNNNTTC 2 cut(s) 119, 447
XspI CTAG 1 cut(s) 528
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.