RchiOBHm_Chr2g0103971
MYB Family

DDE superfamily endonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
2
OG0000469
Physical Location & Seq
Forward (+)
15281051 .. 15282343
1293 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ47827

Sequence Viewer

Length: 762 bp
ATGAACAATTCCGAAGTAGATGAAGTGGAGGAGGAGATATTCTTACGAAGTGTACAATTTAATGCTTTGCTCATTCAACATTATTACATGAACTATGTTTATAAAACTCCTTGCATGGTATCTTCTCAAACAGGTAATAAGTGGATAATGGAAGTATTACAAGGGAATGACAGTCGGTGTTACAATGCATTTAGAATGCAAAAGGAAGTATTTTATCGTTTATGTAGTGATTTGGAAGTTCAATTTGGGGTGTTGGGTTCAAATAGAACAAGTCATATTGAAGTTATGGGAATGCTATTGTGGTGCCTAGGACAGGGATGTGGAATTAGGTTAGTAGCAGAACGATTTCAACATTCTAATGAAACCGTTTCTAGATATTTAGGACAAGCACTAGATCATGTGTGTAAACTAGGTAAACATATAATGAGGCCTTCGGAGAATGAATTTAATGGTGTTGCATCAGAGATCATGAGGGATAACAGATACATGCCTCATTTTAAGGATTGCGTCGGTGCTATCGACGGAGTGCATATTCCGGCTTCTATAGCTCCTGAAAAACAAATACCGTACATTGGTAGAAAAGGAATACCAACACAAAATGTTATGGTAACATGTAATTTCAATATGCAATTTATCTATGTATGTGCGGGATGGGAAGGGTCTGATCATGATACGAGAGTGTTTCTATCAGTACTTCGAGATCCCGAAATGAATTTTCCTAAACCTCCACCAGGAAAATATTATGTTGTAGATTCCGGATAG
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

253

Amino Acids

28.99

Weight (kDa)

6.07

Isoelectric Point (pI)

39.89

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF8040 PF26138 41 - 136 6.1e-30 Domain of unknown function (DUF8040)
DDE_Tnp_4 PF13359 173 - 253 3.4e-06 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AanI TTATAA 1 cut(s) 102
AccB1I GGYRCC 1 cut(s) 303
AccIII TCCGGA 1 cut(s) 755
AciI CCGC 1 cut(s) 647
AclWI GGATC 1 cut(s) 695
AcsI RAATTY 2 cut(s) 443, 712
AfaI GTAC 3 cut(s) 54, 569, 693
AfiI CCNNNNNNNGG 3 cut(s) 313, 572, 731
AflIII ACRYGT 1 cut(s) 611
AgsI TTSAA 6 cut(s) 77, 242, 261, 281, 350, 622
AjnI CCWGG 1 cut(s) 730
AjuI GAANNNNNNNTTGG 2 cut(s) 228, 260
AluBI AGCT 1 cut(s) 548
AluI AGCT 1 cut(s) 548
AlwI GGATC 1 cut(s) 695
Aor13HI TCCGGA 1 cut(s) 755
AoxI GGCC 1 cut(s) 428
ApoI RAATTY 2 cut(s) 443, 712
Asp700I GAANNNNTTC 1 cut(s) 345
AspA2I CCTAGG 1 cut(s) 307
AvrII CCTAGG 1 cut(s) 307
BaeI ACNNNNGTAYC 2 cut(s) 663, 696
BanI GGYRCC 1 cut(s) 303
BccI CCATC 1 cut(s) 645
BciT130I CCWGG 1 cut(s) 732
BclI TGATCA 1 cut(s) 664
BfaI CTAG 4 cut(s) 308, 372, 392, 410
BfmI CTRYAG 1 cut(s) 543
BlnI CCTAGG 1 cut(s) 307
BmcAI AGTACT 1 cut(s) 693
Bme1390I CCNGG 1 cut(s) 732
BmiI GGNNCC 1 cut(s) 305
BmrFI CCNGG 1 cut(s) 732
BmsI GCATC 1 cut(s) 467
BsaJI CCNNGG 1 cut(s) 307
BsaWI WCCGGW 1 cut(s) 755
Bsc4I CCNNNNNNNGG 3 cut(s) 313, 572, 731
BseAI TCCGGA 1 cut(s) 755
BseBI CCWGG 1 cut(s) 732
BseDI CCNNGG 1 cut(s) 307
BseGI GGATG 2 cut(s) 323, 656
BseLI CCNNNNNNNGG 3 cut(s) 313, 572, 731
BseRI GAGGAG 2 cut(s) 44, 47
BshFI GGCC 1 cut(s) 430
BshNI GGYRCC 1 cut(s) 303
BsiSI CCGG 2 cut(s) 536, 756
BslI CCNNNNNNNGG 3 cut(s) 313, 572, 731
BsmI GAATGC 2 cut(s) 201, 297
BsnI GGCC 1 cut(s) 430
Bsp13I TCCGGA 1 cut(s) 755
Bsp1407I TGTACA 1 cut(s) 52
Bsp143I GATC 4 cut(s) 394, 465, 664, 700
BspACI CCGC 1 cut(s) 647
BspANI GGCC 1 cut(s) 430
BspEI TCCGGA 1 cut(s) 755
BspHI TCATGA 2 cut(s) 468, 667
BspLI GGNNCC 1 cut(s) 305
BspPI GGATC 1 cut(s) 695
BspT107I GGYRCC 1 cut(s) 303
BsrGI TGTACA 1 cut(s) 52
BssECI CCNNGG 1 cut(s) 307
BssMI GATC 4 cut(s) 394, 465, 664, 700
BssT1I CCWWGG 1 cut(s) 307
Bst2UI CCWGG 1 cut(s) 732
Bst4CI ACNGT 3 cut(s) 173, 367, 567
BstAUI TGTACA 1 cut(s) 52
BstENI CCTNNNNNAGG 2 cut(s) 311, 729
BstF5I GGATG 2 cut(s) 323, 656
BstKTI GATC 4 cut(s) 397, 468, 667, 703
BstMBI GATC 4 cut(s) 394, 465, 664, 700
BstMWI GCNNNNNNNGC 1 cut(s) 545
BstNI CCWGG 1 cut(s) 732
BstNSI RCATGY 2 cut(s) 490, 615
BstSCI CCNGG 1 cut(s) 730
BstSFI CTRYAG 1 cut(s) 543
BstX2I RGATCY 1 cut(s) 700
BstYI RGATCY 1 cut(s) 700
BsuRI GGCC 1 cut(s) 430
BtsCI GGATG 2 cut(s) 323, 656
CciI TCATGA 2 cut(s) 468, 667
CseI GACGC 1 cut(s) 496
Csp6I GTAC 3 cut(s) 53, 568, 692
CviAII CATG 7 cut(s) 88, 115, 398, 469, 487, 612, 668
CviJI RGCY 3 cut(s) 430, 539, 548
CviKI_1 RGCY 3 cut(s) 430, 539, 548
CviQI GTAC 3 cut(s) 53, 568, 692
DpnI GATC 4 cut(s) 396, 467, 666, 702
DpnII GATC 4 cut(s) 394, 465, 664, 700
Eco130I CCWWGG 1 cut(s) 307
Eco147I AGGCCT 1 cut(s) 430
EcoNI CCTNNNNNAGG 2 cut(s) 311, 729
EcoRII CCWGG 1 cut(s) 730
EcoT14I CCWWGG 1 cut(s) 307
EcoT22I ATGCAT 1 cut(s) 190
ErhI CCWWGG 1 cut(s) 307
FaeI CATG 7 cut(s) 91, 118, 401, 472, 490, 615, 671
FatI CATG 7 cut(s) 87, 114, 397, 468, 486, 611, 667
FauI CCCGC 1 cut(s) 640
FbaI TGATCA 1 cut(s) 664
FokI GGATG 2 cut(s) 330, 663
FspBI CTAG 4 cut(s) 308, 372, 392, 410
HaeIII GGCC 1 cut(s) 430
HapII CCGG 2 cut(s) 536, 756
HgaI GACGC 1 cut(s) 496
Hin1II CATG 7 cut(s) 91, 118, 401, 472, 490, 615, 671
HinfI GANTC 1 cut(s) 752
HpaII CCGG 2 cut(s) 536, 756
Hpy166II GTNNAC 3 cut(s) 53, 407, 416
Hpy188I TCNGA 4 cut(s) 13, 436, 463, 664
Hpy188III TCNNGA 7 cut(s) 372, 469, 551, 668, 698, 704, 756
Hpy8I GTNNAC 3 cut(s) 53, 407, 416
Hpy99I CGWCG 2 cut(s) 512, 524
HpyAV CCTTC 2 cut(s) 441, 650
HpyCH4III ACNGT 3 cut(s) 173, 367, 567
HpyCH4V TGCA 6 cut(s) 114, 188, 199, 458, 529, 628
HpyF10VI GCNNNNNNNGC 1 cut(s) 545
Hsp92II CATG 7 cut(s) 91, 118, 401, 472, 490, 615, 671
Kpn2I TCCGGA 1 cut(s) 755
Ksp22I TGATCA 1 cut(s) 664
Kzo9I GATC 4 cut(s) 394, 465, 664, 700
LmnI GCTCC 1 cut(s) 553
LpnPI CCDG 6 cut(s) 117, 299, 549, 564, 717, 744
LweI GCATC 1 cut(s) 467
MaeI CTAG 4 cut(s) 308, 372, 392, 410
MaeIII GTNAC 2 cut(s) 179, 607
MalI GATC 4 cut(s) 396, 467, 666, 702
MboI GATC 4 cut(s) 394, 465, 664, 700
MboII GAAGA 1 cut(s) 114
MflI RGATCY 1 cut(s) 700
MluCI AATT 8 cut(s) 7, 56, 242, 324, 443, 616, 629, 712
MnlI CCTC 6 cut(s) 22, 25, 420, 465, 501, 735
Mph1103I ATGCAT 1 cut(s) 190
MroI TCCGGA 1 cut(s) 755
MroXI GAANNNNTTC 1 cut(s) 345
MseI TTAA 3 cut(s) 60, 447, 498
MslI CAYNNNNRTG 1 cut(s) 357
MspI CCGG 2 cut(s) 536, 756
MspR9I CCNGG 1 cut(s) 732
Mva1269I GAATGC 2 cut(s) 201, 297
MvaI CCWGG 1 cut(s) 732
MwoI GCNNNNNNNGC 1 cut(s) 545
NdeII GATC 4 cut(s) 394, 465, 664, 700
NlaIII CATG 7 cut(s) 91, 118, 401, 472, 490, 615, 671
NlaIV GGNNCC 1 cut(s) 305
NsiI ATGCAT 1 cut(s) 190
NspI RCATGY 2 cut(s) 490, 615
PagI TCATGA 2 cut(s) 468, 667
PceI AGGCCT 1 cut(s) 430
PciI ACATGT 1 cut(s) 611
PcsI WCGNNNNNNNCGW 1 cut(s) 516
PctI GAATGC 2 cut(s) 201, 297
PdmI GAANNNNTTC 1 cut(s) 345
PfeI GAWTC 1 cut(s) 752
PscI ACATGT 1 cut(s) 611
PsiI TTATAA 1 cut(s) 102
Psp6I CCWGG 1 cut(s) 730
PspGI CCWGG 1 cut(s) 730
PspN4I GGNNCC 1 cut(s) 305
PsuI RGATCY 1 cut(s) 700
RsaI GTAC 3 cut(s) 54, 569, 693
RsaNI GTAC 3 cut(s) 53, 568, 692
RseI CAYNNNNRTG 1 cut(s) 357
SaqAI TTAA 3 cut(s) 60, 447, 498
Sau3AI GATC 4 cut(s) 394, 465, 664, 700
ScaI AGTACT 1 cut(s) 693
ScrFI CCNGG 1 cut(s) 732
SetI ASST 5 cut(s) 136, 332, 415, 550, 727
SfaNI GCATC 1 cut(s) 467
SfcI CTRYAG 1 cut(s) 543
SmiMI CAYNNNNRTG 1 cut(s) 357
Sse9I AATT 8 cut(s) 7, 56, 242, 324, 443, 616, 629, 712
SseBI AGGCCT 1 cut(s) 430
SsiI CCGC 1 cut(s) 647
SspI AATATT 1 cut(s) 740
SspMI CTAG 4 cut(s) 308, 372, 392, 410
StuI AGGCCT 1 cut(s) 430
StyD4I CCNGG 1 cut(s) 730
StyI CCWWGG 1 cut(s) 307
TaaI ACNGT 3 cut(s) 173, 367, 567
TaqI TCGA 2 cut(s) 519, 697
TasI AATT 8 cut(s) 7, 56, 242, 324, 443, 616, 629, 712
TatI WGTACW 2 cut(s) 52, 691
TfiI GAWTC 1 cut(s) 752
Tru1I TTAA 3 cut(s) 60, 447, 498
Tru9I TTAA 3 cut(s) 60, 447, 498
TspDTI ATGAA 6 cut(s) 17, 36, 104, 375, 456, 725
TspGWI ACGGA 1 cut(s) 537
XagI CCTNNNNNAGG 2 cut(s) 311, 729
XapI RAATTY 2 cut(s) 443, 712
XbaI TCTAGA 1 cut(s) 371
XceI RCATGY 2 cut(s) 490, 615
XmaJI CCTAGG 1 cut(s) 307
XmnI GAANNNNTTC 1 cut(s) 345
XspI CTAG 4 cut(s) 308, 372, 392, 410
ZrmI AGTACT 1 cut(s) 693
Zsp2I ATGCAT 1 cut(s) 190
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.