Rh5BG387900

bromo domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0000178
Physical Location & Seq
Reverse (-)
62064523 .. 62068999
4477 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG387900.1

Sequence Viewer

Length: 1125 bp
ATGGCTAATGGTAGACAAGGTCCAAGGTTTCTACATCAATTGCGGACAAAAGCACTGCCACAACACCAGATGCGATCATCTACTCAAAAGATTTCAAAGCTTGCCAAGTCTTTAAGTAAGCCTACAACACCAGCACAAGCACCGGCAACCCCATTGCACTCATCAGTAGAGCAGATTATCACTTCCATTCCTACTCATGTTCCAAAACATCATTGTCCACCTCAAGTTCAATCATCACCACTTACGCGAATGCTAAGATCAGCTTCTGTTAAGCAAGGGTCAACTTCTATTAACCAAGGATCAACTTCTATTCAACAAGAATCAACTTCAACTGCAGATGCCAGAGAGCCTACTCAAGTTGCTTGTTCCCCCACGGTAGAAGAGGTCACTAATACTAATAGCGGTGCAGTTCGCAAGAAAGTACGTGGTGAGACTCGATGTCTTGAGCTATCCAAGAGGAAGCGTGATGGTGTTCAACTTGATATTGATATTCCAAAGCATACTATGAGAGCTGTAGGAACAAATTGTCAATTCTACTTTACTGGTATGGGGTGCTTTGTTCGAAAAAATGTTCCATTGAAAATTAAGAAGTGGTCTGAGCTCTCAAGAGAAGATGTTGCTTTGCTAATTCGTCATGCCCGTGAAAAATTCAAGTTGGGCAATGAGTCTCATGTGGATGAGGCAATTGAGAAACATATGATGAGATATTTTACCACTTGGCGCTATAATTTGCGTAAGAAATTTCTGAAATATGACTCAATAGAGGAATCTGTAGAAAATCGACCTGAAGATGTGGAAGAGGAAGATTGGAACTATTTGATTGCAAATCTGTGGCAAGATGGAAAGTGGCTGGAAACAAGTGAAAAAAACAAGAAAAACATAGATAAGTTGGAGATAACACATTGTGCAGGAACAAAGGCATTTAGTCGCCTTAGAACTGAAAATGAAGTTGGTCATATTGACCTTTTCAAGCTCACACGATATAGCGAAAAGAAATCTGCATGGGTTGGTGATACTGCAAAGAATGCTTTTGAAGAGATGAAGAATCTACAAAACGACCCACAAATGAATGAAGAAATTGGTGAAATAATAATTGAAGATGAGATCTATGATAAAGTTCTTTAA
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

374

Amino Acids

42.81

Weight (kDa)

9.1

Isoelectric Point (pI)

45.65

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transposase_24 PF03004 267 - 355 1.3e-08 Plant transposase (Ptta/En/Spm family)
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)
AccI GTMKAC 1 cut(s) 13
AccII CGCG 1 cut(s) 247
AciI CCGC 2 cut(s) 43, 402
AclWI GGATC 1 cut(s) 307
AcsI RAATTY 2 cut(s) 647, 740
AcuI CTGAAG 1 cut(s) 807
AdeI CACNNNGTG 1 cut(s) 905
AfaI GTAC 1 cut(s) 423
AhdI GACNNNNNGTC 1 cut(s) 438
AjuI GAANNNNNNNTTGG 2 cut(s) 933, 965
AluBI AGCT 6 cut(s) 100, 263, 448, 512, 601, 973
AluI AGCT 6 cut(s) 100, 263, 448, 512, 601, 973
Alw21I GWGCWC 1 cut(s) 603
Alw26I GTCTC 2 cut(s) 425, 672
AlwI GGATC 1 cut(s) 307
AlwNI CAGNNNCTG 1 cut(s) 266
ApoI RAATTY 2 cut(s) 647, 740
AspLEI GCGC 1 cut(s) 723
AspS9I GGNCC 1 cut(s) 20
AsuHPI GGTGA 4 cut(s) 228, 440, 1022, 1094
AsuII TTCGAA 1 cut(s) 562
AvaII GGWCC 1 cut(s) 20
BanII GRGCYC 1 cut(s) 603
Bbv12I GWGCWC 1 cut(s) 603
BccI CCATC 2 cut(s) 461, 833
BcoDI GTCTC 2 cut(s) 425, 672
BfmI CTRYAG 3 cut(s) 333, 513, 771
BfoI RGCGCY 1 cut(s) 724
BglII AGATCT 1 cut(s) 1104
Bme18I GGWCC 1 cut(s) 20
BmeRI GACNNNNNGTC 1 cut(s) 438
BmgT120I GGNCC 1 cut(s) 20
BmsI GCATC 2 cut(s) 60, 328
Bpu14I TTCGAA 1 cut(s) 562
BpuEI CTTGAG 4 cut(s) 207, 339, 464, 589
BsaAI YACGTR 1 cut(s) 425
BsaJI CCNNGG 3 cut(s) 23, 295, 372
Bse118I RCCGGY 1 cut(s) 142
Bse1I ACTGG 1 cut(s) 547
Bse3DI GCAATG 2 cut(s) 152, 667
BseDI CCNNGG 3 cut(s) 23, 295, 372
BseGI GGATG 1 cut(s) 682
BseMI GCAATG 2 cut(s) 152, 667
BseMII CTCAG 1 cut(s) 588
BseNI ACTGG 1 cut(s) 547
BsgI GTGCAG 2 cut(s) 426, 927
Bsh1236I CGCG 1 cut(s) 247
BsiHKAI GWGCWC 1 cut(s) 603
BsiSI CCGG 1 cut(s) 143
BsmAI GTCTC 2 cut(s) 425, 672
BsmI GAATGC 2 cut(s) 255, 1030
Bsp119I TTCGAA 1 cut(s) 562
Bsp1286I GDGCHC 1 cut(s) 603
Bsp143I GATC 4 cut(s) 74, 257, 299, 1104
BspACI CCGC 2 cut(s) 43, 402
BspCNI CTCAG 1 cut(s) 589
BspFNI CGCG 1 cut(s) 247
BspMAI CTGCAG 1 cut(s) 337
BspPI GGATC 1 cut(s) 307
BspT104I TTCGAA 1 cut(s) 562
BsrDI GCAATG 2 cut(s) 152, 667
BsrFI RCCGGY 1 cut(s) 142
BsrI ACTGG 1 cut(s) 547
BssAI RCCGGY 1 cut(s) 142
BssECI CCNNGG 3 cut(s) 23, 295, 372
BssMI GATC 4 cut(s) 74, 257, 299, 1104
BssT1I CCWWGG 2 cut(s) 23, 295
Bst4CI ACNGT 1 cut(s) 376
Bst6I CTCTTC 3 cut(s) 375, 792, 1029
BstAPI GCANNNNNTGC 1 cut(s) 1025
BstBAI YACGTR 1 cut(s) 425
BstBI TTCGAA 1 cut(s) 562
BstC8I GCNNGC 1 cut(s) 102
BstDEI CTNAG 3 cut(s) 254, 597, 932
BstDSI CCRYGG 1 cut(s) 372
BstF5I GGATG 1 cut(s) 682
BstFNI CGCG 1 cut(s) 247
BstH2I RGCGCY 1 cut(s) 724
BstHHI GCGC 1 cut(s) 723
BstKTI GATC 4 cut(s) 77, 260, 302, 1107
BstMAI GTCTC 2 cut(s) 425, 672
BstMBI GATC 4 cut(s) 74, 257, 299, 1104
BstMWI GCNNNNNNNGC 1 cut(s) 1025
BstSFI CTRYAG 3 cut(s) 333, 513, 771
BstUI CGCG 1 cut(s) 247
BstX2I RGATCY 1 cut(s) 1104
BstYI RGATCY 1 cut(s) 1104
BtgI CCRYGG 1 cut(s) 372
BtsCI GGATG 1 cut(s) 682
BtsI GCAGTG 1 cut(s) 53
BtsIMutI CAGTG 1 cut(s) 53
Cac8I GCNNGC 1 cut(s) 102
CaiI CAGNNNCTG 1 cut(s) 266
CfoI GCGC 1 cut(s) 723
Cfr10I RCCGGY 1 cut(s) 142
Cfr13I GGNCC 1 cut(s) 20
Csp6I GTAC 1 cut(s) 422
CviAII CATG 4 cut(s) 197, 635, 671, 1002
CviQI GTAC 1 cut(s) 422
DdeI CTNAG 3 cut(s) 254, 597, 932
DpnI GATC 4 cut(s) 76, 259, 301, 1106
DpnII GATC 4 cut(s) 74, 257, 299, 1104
DraIII CACNNNGTG 1 cut(s) 905
DriI GACNNNNNGTC 1 cut(s) 438
Eam1104I CTCTTC 3 cut(s) 375, 792, 1029
Eam1105I GACNNNNNGTC 1 cut(s) 438
EarI CTCTTC 3 cut(s) 375, 792, 1029
Ecl136II GAGCTC 1 cut(s) 601
Eco130I CCWWGG 2 cut(s) 23, 295
Eco24I GRGCYC 1 cut(s) 603
Eco47I GGWCC 1 cut(s) 20
Eco53kI GAGCTC 1 cut(s) 601
Eco57I CTGAAG 1 cut(s) 807
EcoICRI GAGCTC 1 cut(s) 601
EcoT14I CCWWGG 2 cut(s) 23, 295
EcoT38I GRGCYC 1 cut(s) 603
ErhI CCWWGG 2 cut(s) 23, 295
FaeI CATG 4 cut(s) 200, 638, 674, 1005
FalI AAGNNNNNCTT 2 cut(s) 247, 279
FatI CATG 4 cut(s) 196, 634, 670, 1001
FauNDI CATATG 1 cut(s) 696
FblI GTMKAC 1 cut(s) 13
FokI GGATG 1 cut(s) 689
FriOI GRGCYC 1 cut(s) 603
GlaI GCGC 1 cut(s) 722
HaeII RGCGCY 1 cut(s) 724
HapII CCGG 1 cut(s) 143
HhaI GCGC 1 cut(s) 723
Hin1II CATG 4 cut(s) 200, 638, 674, 1005
Hin6I GCGC 1 cut(s) 721
HinP1I GCGC 1 cut(s) 721
HincII GTYRAC 1 cut(s) 282
HindII GTYRAC 1 cut(s) 282
HindIII AAGCTT 1 cut(s) 98
HinfI GANTC 6 cut(s) 320, 433, 665, 755, 767, 1045
HpaII CCGG 1 cut(s) 143
HphI GGTGA 4 cut(s) 228, 440, 1022, 1094
Hpy166II GTNNAC 3 cut(s) 14, 218, 282
Hpy188I TCNGA 2 cut(s) 598, 747
Hpy188III TCNNGA 2 cut(s) 443, 606
Hpy8I GTNNAC 3 cut(s) 14, 218, 282
HpyCH4III ACNGT 1 cut(s) 376
HpyCH4IV ACGT 1 cut(s) 424
HpyCH4V TGCA 7 cut(s) 157, 335, 407, 824, 908, 1001, 1019
HpyF10VI GCNNNNNNNGC 1 cut(s) 1025
HpyF3I CTNAG 3 cut(s) 254, 597, 932
HpySE526I ACGT 1 cut(s) 424
Hsp92II CATG 4 cut(s) 200, 638, 674, 1005
HspAI GCGC 1 cut(s) 721
Kzo9I GATC 4 cut(s) 74, 257, 299, 1104
LpnPI CCDG 8 cut(s) 80, 144, 156, 355, 528, 798, 836, 894
LweI GCATC 2 cut(s) 60, 328
MaeII ACGT 1 cut(s) 424
MaeIII GTNAC 1 cut(s) 385
MalI GATC 4 cut(s) 76, 259, 301, 1106
MboI GATC 4 cut(s) 74, 257, 299, 1104
MboII GAAGA 9 cut(s) 392, 623, 800, 809, 815, 1046, 1054, 1085, 1109
MfeI CAATTG 2 cut(s) 38, 684
MflI RGATCY 1 cut(s) 1104
MhlI GDGCHC 1 cut(s) 603
MlyI GAGTC 3 cut(s) 427, 674, 749
MmeI TCCRAC 1 cut(s) 870
MnlI CCTC 6 cut(s) 231, 376, 450, 673, 757, 793
MseI TTAA 5 cut(s) 113, 270, 291, 585, 1123
MslI CAYNNNNRTG 2 cut(s) 639, 675
MspI CCGG 1 cut(s) 143
MunI CAATTG 2 cut(s) 38, 684
Mva1269I GAATGC 2 cut(s) 255, 1030
MvnI CGCG 1 cut(s) 247
MwoI GCNNNNNNNGC 1 cut(s) 1025
NdeI CATATG 1 cut(s) 696
NdeII GATC 4 cut(s) 74, 257, 299, 1104
NlaIII CATG 4 cut(s) 200, 638, 674, 1005
NmuCI GTSAC 1 cut(s) 385
NspV TTCGAA 1 cut(s) 562
PcsI WCGNNNNNNNCGW 1 cut(s) 637
PctI GAATGC 2 cut(s) 255, 1030
PfeI GAWTC 3 cut(s) 320, 767, 1045
PflFI GACNNNGTC 1 cut(s) 18
PleI GAGTC 3 cut(s) 427, 673, 749
PpsI GAGTC 3 cut(s) 427, 673, 749
Ppu21I YACGTR 1 cut(s) 425
Psp124BI GAGCTC 1 cut(s) 603
PspPI GGNCC 1 cut(s) 20
PstI CTGCAG 1 cut(s) 337
PstNI CAGNNNCTG 1 cut(s) 266
PsuI RGATCY 1 cut(s) 1104
PsyI GACNNNGTC 1 cut(s) 18
RsaI GTAC 1 cut(s) 423
RsaNI GTAC 1 cut(s) 422
RseI CAYNNNNRTG 2 cut(s) 639, 675
SacI GAGCTC 1 cut(s) 603
SaqAI TTAA 5 cut(s) 113, 270, 291, 585, 1123
Sau3AI GATC 4 cut(s) 74, 257, 299, 1104
Sau96I GGNCC 1 cut(s) 20
SchI GAGTC 3 cut(s) 427, 674, 749
SduI GDGCHC 1 cut(s) 603
SfaNI GCATC 2 cut(s) 60, 328
SfcI CTRYAG 3 cut(s) 333, 513, 771
SfuI TTCGAA 1 cut(s) 562
SinI GGWCC 1 cut(s) 20
SmiMI CAYNNNNRTG 2 cut(s) 639, 675
SmlI CTYRAG 4 cut(s) 222, 354, 443, 604
SmoI CTYRAG 4 cut(s) 222, 354, 443, 604
SsiI CCGC 2 cut(s) 43, 402
SstI GAGCTC 1 cut(s) 603
StyI CCWWGG 2 cut(s) 23, 295
TaaI ACNGT 1 cut(s) 376
TaiI ACGT 1 cut(s) 427
TaqI TCGA 3 cut(s) 436, 562, 781
TfiI GAWTC 3 cut(s) 320, 767, 1045
Tru1I TTAA 5 cut(s) 113, 270, 291, 585, 1123
Tru9I TTAA 5 cut(s) 113, 270, 291, 585, 1123
TscAI CASTG 1 cut(s) 60
TseFI GTSAC 1 cut(s) 385
Tsp45I GTSAC 1 cut(s) 385
TspDTI ATGAA 4 cut(s) 960, 1055, 1082, 1086
TspRI CASTG 1 cut(s) 60
Tth111I GACNNNGTC 1 cut(s) 18
VpaK11BI GGWCC 1 cut(s) 20
XapI RAATTY 2 cut(s) 647, 740
XmiI GTMKAC 1 cut(s) 13
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.