Rroxscaffold_1G00055890

bromo domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000178
Physical Location & Seq
Reverse (-)
77569062 .. 77571115
2054 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00055890.1

Sequence Viewer

Length: 627 bp
ATGCGAATGCTAAGATCAGGTTCAATCATCACCACTCATGTTCGAAAAAATGTTCCATTGCAAATTAAGAAGTGGTCTGAGCTCTCAAGAGATGATGTTGCATTGCTAATTCGTCATGCCCGTGAAAAATTCAAGTTGAGCAATGAGTCTCATGTGGATGAGGCAATTGAGAAACATATGATGAGATATTTTACCACTTGGCGCTATAATTTGCGTAAGAAATTTCTGAAATATGACTCAATAGAGGAAGCTATAGAAAATCGACCTGAAGATGTGGAAGAGGAAGATTGGAACTATTTGATTGCAAATCTGTGGCAAGATGGAAAGTGGCTGGAAACAAGTGAAAAAAAAAGGAAAAATAGAGATAAGTTGGAGATAACACATTGTGCAGGGACAAAGGCATTTAGTCGCCTTAGAACTGAAAATCGAAATTCTGAGAATGGAGAGGAAGTTGGTCGTATTGACCTTTTCAAGCTCACACGATATAGCGAAAAGAAATCTGCATGGGTTGGTGATACTGCAAAGAATGCTTTTGAAGAGATGCAGAATCTACAAAACGACCCACAAATGAATGAAGAAACTGGTGAAATAATGACTGAACATGAGATCTATGATAAAGTTCTTTAA
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

208

Amino Acids

24.9

Weight (kDa)

6.35

Isoelectric Point (pI)

46.25

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transposase_24 PF03004 94 - 205 4.4e-13 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)
AcsI RAATTY 3 cut(s) 128, 221, 430
AcuI CTGAAG 1 cut(s) 288
AdeI CACNNNGTG 1 cut(s) 386
AgsI TTSAA 4 cut(s) 24, 133, 472, 536
AluBI AGCT 3 cut(s) 82, 251, 475
AluI AGCT 3 cut(s) 82, 251, 475
Alw21I GWGCWC 1 cut(s) 84
Alw26I GTCTC 1 cut(s) 153
ApoI RAATTY 3 cut(s) 128, 221, 430
AspLEI GCGC 1 cut(s) 204
AsuHPI GGTGA 3 cut(s) 22, 524, 596
AsuII TTCGAA 1 cut(s) 43
BanII GRGCYC 1 cut(s) 84
Bbv12I GWGCWC 1 cut(s) 84
BccI CCATC 1 cut(s) 314
BcoDI GTCTC 1 cut(s) 153
BfmI CTRYAG 1 cut(s) 252
BfoI RGCGCY 1 cut(s) 205
BglII AGATCT 1 cut(s) 606
BmsI GCATC 1 cut(s) 531
Bpu14I TTCGAA 1 cut(s) 43
BpuEI CTTGAG 1 cut(s) 70
BsaXI ACNNNNNCTCC 2 cut(s) 435, 465
Bse1I ACTGG 1 cut(s) 586
Bse3DI GCAATG 3 cut(s) 56, 101, 148
BseGI GGATG 1 cut(s) 163
BseMI GCAATG 3 cut(s) 56, 101, 148
BseMII CTCAG 2 cut(s) 69, 426
BseNI ACTGG 1 cut(s) 586
BsgI GTGCAG 1 cut(s) 408
BsiHKAI GWGCWC 1 cut(s) 84
BslFI GGGAC 1 cut(s) 406
BsmAI GTCTC 1 cut(s) 153
BsmFI GGGAC 1 cut(s) 406
BsmI GAATGC 2 cut(s) 12, 532
Bsp119I TTCGAA 1 cut(s) 43
Bsp1286I GDGCHC 1 cut(s) 84
Bsp143I GATC 2 cut(s) 14, 606
BspCNI CTCAG 2 cut(s) 70, 427
BspT104I TTCGAA 1 cut(s) 43
BsrDI GCAATG 3 cut(s) 56, 101, 148
BsrI ACTGG 1 cut(s) 586
BssMI GATC 2 cut(s) 14, 606
Bst6I CTCTTC 2 cut(s) 273, 531
BstAPI GCANNNNNTGC 1 cut(s) 527
BstBI TTCGAA 1 cut(s) 43
BstDEI CTNAG 4 cut(s) 11, 78, 413, 435
BstF5I GGATG 1 cut(s) 163
BstH2I RGCGCY 1 cut(s) 205
BstHHI GCGC 1 cut(s) 204
BstKTI GATC 2 cut(s) 17, 609
BstMAI GTCTC 1 cut(s) 153
BstMBI GATC 2 cut(s) 14, 606
BstMWI GCNNNNNNNGC 1 cut(s) 527
BstSFI CTRYAG 1 cut(s) 252
BstX2I RGATCY 1 cut(s) 606
BstYI RGATCY 1 cut(s) 606
BtsCI GGATG 1 cut(s) 163
CfoI GCGC 1 cut(s) 204
CviAII CATG 5 cut(s) 38, 116, 152, 504, 602
CviJI RGCY 4 cut(s) 82, 251, 331, 475
CviKI_1 RGCY 4 cut(s) 82, 251, 331, 475
DdeI CTNAG 4 cut(s) 11, 78, 413, 435
DpnI GATC 2 cut(s) 16, 608
DpnII GATC 2 cut(s) 14, 606
DraIII CACNNNGTG 1 cut(s) 386
Eam1104I CTCTTC 2 cut(s) 273, 531
EarI CTCTTC 2 cut(s) 273, 531
Ecl136II GAGCTC 1 cut(s) 82
Eco24I GRGCYC 1 cut(s) 84
Eco53kI GAGCTC 1 cut(s) 82
Eco57I CTGAAG 1 cut(s) 288
EcoICRI GAGCTC 1 cut(s) 82
EcoT38I GRGCYC 1 cut(s) 84
FaeI CATG 5 cut(s) 41, 119, 155, 507, 605
FaqI GGGAC 1 cut(s) 406
FatI CATG 5 cut(s) 37, 115, 151, 503, 601
FauNDI CATATG 1 cut(s) 177
FokI GGATG 1 cut(s) 170
FriOI GRGCYC 1 cut(s) 84
GlaI GCGC 1 cut(s) 203
HaeII RGCGCY 1 cut(s) 205
HhaI GCGC 1 cut(s) 204
Hin1II CATG 5 cut(s) 41, 119, 155, 507, 605
Hin6I GCGC 1 cut(s) 202
HinP1I GCGC 1 cut(s) 202
HinfI GANTC 3 cut(s) 146, 236, 547
HphI GGTGA 3 cut(s) 22, 524, 596
Hpy188I TCNGA 3 cut(s) 79, 228, 436
Hpy188III TCNNGA 1 cut(s) 87
HpyCH4V TGCA 7 cut(s) 61, 101, 305, 389, 503, 521, 544
HpyF10VI GCNNNNNNNGC 1 cut(s) 527
HpyF3I CTNAG 4 cut(s) 11, 78, 413, 435
Hsp92II CATG 5 cut(s) 41, 119, 155, 507, 605
HspAI GCGC 1 cut(s) 202
Kzo9I GATC 2 cut(s) 14, 606
LpnPI CCDG 5 cut(s) 3, 279, 317, 375, 567
LweI GCATC 1 cut(s) 531
MalI GATC 2 cut(s) 16, 608
MboI GATC 2 cut(s) 14, 606
MboII GAAGA 5 cut(s) 281, 290, 296, 548, 587
MfeI CAATTG 1 cut(s) 165
MflI RGATCY 1 cut(s) 606
MhlI GDGCHC 1 cut(s) 84
MluCI AATT 7 cut(s) 63, 108, 128, 165, 208, 221, 430
MlyI GAGTC 2 cut(s) 155, 230
MmeI TCCRAC 1 cut(s) 351
MnlI CCTC 4 cut(s) 154, 238, 274, 439
MseI TTAA 2 cut(s) 66, 625
MslI CAYNNNNRTG 2 cut(s) 120, 156
MunI CAATTG 1 cut(s) 165
Mva1269I GAATGC 2 cut(s) 12, 532
MwoI GCNNNNNNNGC 1 cut(s) 527
NdeI CATATG 1 cut(s) 177
NdeII GATC 2 cut(s) 14, 606
NlaIII CATG 5 cut(s) 41, 119, 155, 507, 605
NspV TTCGAA 1 cut(s) 43
PcsI WCGNNNNNNNCGW 1 cut(s) 118
PctI GAATGC 2 cut(s) 12, 532
PfeI GAWTC 1 cut(s) 547
PleI GAGTC 2 cut(s) 154, 230
PpsI GAGTC 2 cut(s) 154, 230
Psp124BI GAGCTC 1 cut(s) 84
PsuI RGATCY 1 cut(s) 606
RseI CAYNNNNRTG 2 cut(s) 120, 156
SacI GAGCTC 1 cut(s) 84
SaqAI TTAA 2 cut(s) 66, 625
Sau3AI GATC 2 cut(s) 14, 606
SchI GAGTC 2 cut(s) 155, 230
SduI GDGCHC 1 cut(s) 84
SetI ASST 6 cut(s) 22, 84, 253, 268, 468, 477
SfaNI GCATC 1 cut(s) 531
SfcI CTRYAG 1 cut(s) 252
SfuI TTCGAA 1 cut(s) 43
SmiMI CAYNNNNRTG 2 cut(s) 120, 156
SmlI CTYRAG 1 cut(s) 85
SmoI CTYRAG 1 cut(s) 85
Sse9I AATT 7 cut(s) 63, 108, 128, 165, 208, 221, 430
SstI GAGCTC 1 cut(s) 84
TaqI TCGA 3 cut(s) 43, 262, 427
TasI AATT 7 cut(s) 63, 108, 128, 165, 208, 221, 430
TfiI GAWTC 1 cut(s) 547
Tru1I TTAA 2 cut(s) 66, 625
Tru9I TTAA 2 cut(s) 66, 625
TspDTI ATGAA 2 cut(s) 584, 588
XapI RAATTY 3 cut(s) 128, 221, 430
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.