RchiOBHm_Chr4g0435871
MYB Family

DDE superfamily endonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
4
OG0000469
Physical Location & Seq
Forward (+)
59280585 .. 59281301
717 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ40426

Sequence Viewer

Length: 285 bp
ATGCATATTCACCATGATACAAGATGGGAAGGGTCTGCTCATGATACAAGAGTGTTTCTATTGGTACTTCGAGATCCCGAAATGAATTTTCCTAAACCTCCACCAGGAAAATATTATGTTGTAGATTCCGGATACCCTCAAATGAATGGTTTTTTGGGACCTTACAAAGGTCTGAGACAACATTTTCAACAATACCGTAGGCAAGAACCAAGAAATGAAAAAGAGGTATTTAACCAAGCACACTCTTCTCTTAGAAGCGTTATAGAACGCACATTTGGAGTTTGA
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
DDE_Tnp_4 Myb_DNA-bind_3

Protein Analysis

94

Amino Acids

11.15

Weight (kDa)

9.45

Isoelectric Point (pI)

60.67

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DDE_Tnp_4 PF13359 4 - 93 3e-09 DDE superfamily endonuclease
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: OG0000469)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G43722 AT3G30525 AT5G28730
fragaria_vesca FvH4_1g10461 FvH4_1g19401 FvH4_2g04530 FvH4_2g04530 FvH4_2g11121 FvH4_2g13361 FvH4_3g21471 FvH4_3g26161 FvH4_3g29911 FvH4_4g20922 FvH4_4g30624 FvH4_5g23912 FvH4_6g30381 FvH4_6g53026 FvH4_7g00061 FvH4_7g19211 FvH4_7g19211
malus_domestica MD06G1090500.v1.1 MD08G1193900.v1.1 MD11G1151600.v1.1 MD16G1281600.v1.1
prunus_persica Prupe.1G096200_v2.0.a1 Prupe.1G189200_v2.0.a1 Prupe.1G198400_v2.0.a1 Prupe.6G167200_v2.0.a1 Prupe.6G192900_v2.0.a1
pyrus_communis pycom02g00900 pycom06g03500 pycom07g13740 pycom11g10040 pycom17g21680 pycom520g00090
rosa_chinensis RchiOBHm_Chr1g0354781 RchiOBHm_Chr2g0085491 RchiOBHm_Chr2g0103971 RchiOBHm_Chr2g0145791 RchiOBHm_Chr4g0414051 RchiOBHm_Chr4g0419691 RchiOBHm_Chr4g0435871 RchiOBHm_Chr6g0292381 RchiOBHm_Chr7g0199291
rosa_laevigata RLG00000035604
rosa_multiflora Rmu_co8287949.1_g000001 Rmu_sc0000079.1_g000057 Rmu_sc0000240.1_g000063 Rmu_sc0000552.1_g000020 Rmu_sc0000950.1_g000002 Rmu_sc0001257.1_g000003 Rmu_sc0001597.1_g000014 Rmu_sc0001939.1_g000006 Rmu_sc0002160.1_g000015 Rmu_sc0003526.1_g000015 Rmu_sc0005712.1_g000025 Rmu_sc0006032.1_g000011 Rmu_sc0006935.1_g000005 Rmu_sc0008636.1_g000002 Rmu_sc0009205.1_g000006 Rmu_sc0009438.1_g000007 Rmu_ssc0000486.1_g000013
rosa_roxburghii Rroxscaffold_1G00003870 Rroxscaffold_1G00014970 Rroxscaffold_3G00218750 Rroxscaffold_5G00367160 Rroxscaffold_7G00186480
rosa_rugosa Rorug05G0192000
rosa_samantha Rh4BG219200
rosa_wichuraiana Rw1G010350 Rw1G014480 Rw1G023690 Rw1G033480 Rw2G050290 Rw3G027480 Rw4G033650 Rw5G005670 Rw5G021010 Rw5G021860 Rw5G041260 Rw5G041760 Rw6G008410 Rw6G021080 Rw6G022950 Rw6G025480 Rw6G028700 Rw7G002710 Rw7G004940 Rw7G031510 Rw7G041110

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccIII TCCGGA 1 cut(s) 128
AclWI GGATC 1 cut(s) 68
AcsI RAATTY 1 cut(s) 85
AfaI GTAC 1 cut(s) 66
AfiI CCNNNNNNNGG 2 cut(s) 104, 167
AgsI TTSAA 1 cut(s) 188
AjnI CCWGG 1 cut(s) 103
AjuI GAANNNNNNNTTGG 3 cut(s) 137, 169, 258
Alw26I GTCTC 1 cut(s) 169
AlwI GGATC 1 cut(s) 68
Aor13HI TCCGGA 1 cut(s) 128
ApoI RAATTY 1 cut(s) 85
AspS9I GGNCC 1 cut(s) 158
AvaII GGWCC 1 cut(s) 158
BaeI ACNNNNGTAYC 2 cut(s) 36, 69
BccI CCATC 1 cut(s) 18
BciT130I CCWGG 1 cut(s) 105
BciVI GTATCC 1 cut(s) 125
BcoDI GTCTC 1 cut(s) 169
BfuI GTATCC 1 cut(s) 125
Bme1390I CCNGG 1 cut(s) 105
Bme18I GGWCC 1 cut(s) 158
BmgT120I GGNCC 1 cut(s) 158
BmiI GGNNCC 1 cut(s) 159
BmrFI CCNGG 1 cut(s) 105
BsaWI WCCGGW 1 cut(s) 128
Bsc4I CCNNNNNNNGG 2 cut(s) 104, 167
BseAI TCCGGA 1 cut(s) 128
BseBI CCWGG 1 cut(s) 105
BseLI CCNNNNNNNGG 2 cut(s) 104, 167
BseMII CTCAG 1 cut(s) 164
BsiSI CCGG 1 cut(s) 129
BslFI GGGAC 1 cut(s) 171
BslI CCNNNNNNNGG 2 cut(s) 104, 167
BsmAI GTCTC 1 cut(s) 169
BsmFI GGGAC 1 cut(s) 171
Bsp13I TCCGGA 1 cut(s) 128
Bsp143I GATC 1 cut(s) 73
BspCNI CTCAG 1 cut(s) 165
BspEI TCCGGA 1 cut(s) 128
BspHI TCATGA 1 cut(s) 40
BspLI GGNNCC 1 cut(s) 159
BspPI GGATC 1 cut(s) 68
BssMI GATC 1 cut(s) 73
Bst2UI CCWGG 1 cut(s) 105
Bst4CI ACNGT 1 cut(s) 197
Bst6I CTCTTC 1 cut(s) 250
BstDEI CTNAG 2 cut(s) 173, 251
BstENI CCTNNNNNAGG 2 cut(s) 102, 165
BstKTI GATC 1 cut(s) 76
BstMAI GTCTC 1 cut(s) 169
BstMBI GATC 1 cut(s) 73
BstNI CCWGG 1 cut(s) 105
BstSCI CCNGG 1 cut(s) 103
BstX2I RGATCY 1 cut(s) 73
BstYI RGATCY 1 cut(s) 73
BsuI GTATCC 1 cut(s) 125
CciI TCATGA 1 cut(s) 40
Cfr13I GGNCC 1 cut(s) 158
Csp6I GTAC 1 cut(s) 65
CviAII CATG 2 cut(s) 14, 41
CviQI GTAC 1 cut(s) 65
DdeI CTNAG 2 cut(s) 173, 251
DpnI GATC 1 cut(s) 75
DpnII GATC 1 cut(s) 73
Eam1104I CTCTTC 1 cut(s) 250
EarI CTCTTC 1 cut(s) 250
Eco47I GGWCC 1 cut(s) 158
EcoNI CCTNNNNNAGG 2 cut(s) 102, 165
EcoO109I RGGNCCY 1 cut(s) 158
EcoRII CCWGG 1 cut(s) 103
EcoT22I ATGCAT 1 cut(s) 6
FaeI CATG 2 cut(s) 17, 44
FaiI YATR 5 cut(s) 6, 15, 42, 117, 263
FaqI GGGAC 1 cut(s) 171
FatI CATG 2 cut(s) 13, 40
HapII CCGG 1 cut(s) 129
Hin1II CATG 2 cut(s) 17, 44
HinfI GANTC 1 cut(s) 125
HpaII CCGG 1 cut(s) 129
Hpy188I TCNGA 1 cut(s) 174
Hpy188III TCNNGA 4 cut(s) 41, 71, 77, 129
HpyAV CCTTC 1 cut(s) 23
HpyCH4III ACNGT 1 cut(s) 197
HpyCH4V TGCA 1 cut(s) 4
HpyF3I CTNAG 2 cut(s) 173, 251
Hsp92II CATG 2 cut(s) 17, 44
Kpn2I TCCGGA 1 cut(s) 128
Kzo9I GATC 1 cut(s) 73
LpnPI CCDG 3 cut(s) 90, 117, 142
MalI GATC 1 cut(s) 75
MboI GATC 1 cut(s) 73
MboII GAAGA 1 cut(s) 237
MflI RGATCY 1 cut(s) 73
MluCI AATT 1 cut(s) 85
MnlI CCTC 3 cut(s) 108, 147, 217
Mph1103I ATGCAT 1 cut(s) 6
MroI TCCGGA 1 cut(s) 128
MseI TTAA 1 cut(s) 231
MspI CCGG 1 cut(s) 129
MspR9I CCNGG 1 cut(s) 105
MvaI CCWGG 1 cut(s) 105
NdeII GATC 1 cut(s) 73
NlaIII CATG 2 cut(s) 17, 44
NlaIV GGNNCC 1 cut(s) 159
NsiI ATGCAT 1 cut(s) 6
PagI TCATGA 1 cut(s) 40
PfeI GAWTC 1 cut(s) 125
PpuMI RGGWCCY 1 cut(s) 158
Psp5II RGGWCCY 1 cut(s) 158
Psp6I CCWGG 1 cut(s) 103
PspGI CCWGG 1 cut(s) 103
PspN4I GGNNCC 1 cut(s) 159
PspPI GGNCC 1 cut(s) 158
PspPPI RGGWCCY 1 cut(s) 158
PsuI RGATCY 1 cut(s) 73
RsaI GTAC 1 cut(s) 66
RsaNI GTAC 1 cut(s) 65
SaqAI TTAA 1 cut(s) 231
Sau3AI GATC 1 cut(s) 73
Sau96I GGNCC 1 cut(s) 158
ScrFI CCNGG 1 cut(s) 105
SetI ASST 4 cut(s) 100, 163, 172, 228
SinI GGWCC 1 cut(s) 158
Sse9I AATT 1 cut(s) 85
SspI AATATT 1 cut(s) 113
StyD4I CCNGG 1 cut(s) 103
TaaI ACNGT 1 cut(s) 197
TaqI TCGA 1 cut(s) 70
TasI AATT 1 cut(s) 85
TfiI GAWTC 1 cut(s) 125
Tru1I TTAA 1 cut(s) 231
Tru9I TTAA 1 cut(s) 231
TspDTI ATGAA 3 cut(s) 98, 158, 231
VpaK11BI GGWCC 1 cut(s) 158
XagI CCTNNNNNAGG 2 cut(s) 102, 165
XapI RAATTY 1 cut(s) 85
Zsp2I ATGCAT 1 cut(s) 6
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.