Rh5BG465300
MYB Family

DDE superfamily endonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0000240
Physical Location & Seq
Reverse (-)
74202315 .. 74205635
3321 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG465300.1

Sequence Viewer

Length: 711 bp
ATGGGAAAGAAGAAATCCACCGGTACTGAAAATGTGGGATCTGGAAAACAAAAAGCCACATGGCCAGATGAGGTAGTAGCTATATTTTGTGATATAGCTGCTAAGGAAGTGGCCAAGGGAAACAGACCTGGTACACATTTTGATAAAAAGGGATGGTCAAATGTTATCATGGCCTTTAAGGAGTTAACCGGAAGGGATTACGATAAAAGCCAACTGAAAAATAAGTGGGATTCACTTAAAAATGATTGGAAATTGTGGAGTTCACTTTTGCATAAGGAAACTGGTATTGGATGGGATCCGGCTAGGAAAACTGTCGACGCACCTGCTGAATGGTGGGAATCCAAAATTCAGATCAATCCAGAGTATCGCAAGTTTCGGGACGTGGGAATTAGTCCTGAAATGATGGCTGTTTATGACAACATGTTCAGGGGTAGCACAGCCCTAGGTCACTTTGTCATGATTCCTTCAGTTACTATAGATATTGAAGAGGTTGTGGAGGATTCAGAGCATAATTTAATTTCTGGAGATGATGAAGAGGATTCTGACCAAGATAATGAACGTAGAGGCAAAAAGAGAAAAAATTTGGAGTGCCAAACAGAGGCTGATAAAGAAAAAAAGGAAAAGGAGTTATGGGAGGACCAAAGGGAAAGAAAGAAAAGGTGGGAGGTGCGGCCAAATTGTCTAAACAAATCGATCGTCTTGTTGATGTAG
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

236

Amino Acids

27.33

Weight (kDa)

6.18

Isoelectric Point (pI)

40.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Myb_DNA-bind_3 PF12776 21 - 113 1.3e-22 Myb/SANT-like DNA-binding 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000240)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G11300
fragaria_vesca FvH4_1g19130 FvH4_1g28413 FvH4_2g11122 FvH4_3g19652 FvH4_3g29921 FvH4_4g07761 FvH4_4g20923 FvH4_5g23913 FvH4_5g23913 FvH4_6g38850 FvH4_6g39920 FvH4_6g53022 FvH4_7g00070 FvH4_7g08972 FvH4_7g12221
malus_domestica MD06G1090800.v1.1 MD15G1314200.v1.1 MD16G1231800.v1.1
prunus_persica Prupe.1G173000_v2.0.a1 Prupe.4G113600_v2.0.a1 Prupe.5G020800_v2.0.a1 Prupe.5G020800_v2.0.a1 Prupe.5G020800_v2.0.a1 Prupe.5G207000_v2.0.a1 Prupe.6G155900_v2.0.a1 Prupe.8G016500_v2.0.a1
pyrus_communis pycom03g16230 pycom04g16130 pycom05g03970 pycom05g10500 pycom08g06480 pycom08g11770 pycom12g11350 pycom12g18510 pycom13g02550 pycom13g13780 pycom13g27450 pycom13g27460 pycom15g26130 pycom15g27470
rosa_chinensis RchiOBHm_Chr2g0103961 RchiOBHm_Chr2g0128681 RchiOBHm_Chr2g0153151 RchiOBHm_Chr3g0459461 RchiOBHm_Chr4g0406011 RchiOBHm_Chr4g0428601 RchiOBHm_Chr5g0029731 RchiOBHm_Chr5g0069971 RchiOBHm_Chr6g0253171 RchiOBHm_Chr6g0254701 RchiOBHm_Chr7g0199281
rosa_laevigata RLG00000002281 RLG00000007586 RLG00000008509 RLG00000008888 RLG00000009501 RLG00000012763
rosa_multiflora Rmu_sc0000008.1_g000009 Rmu_sc0000079.1_g000058 Rmu_sc0000117.1_g000008 Rmu_sc0000151.1_g000009 Rmu_sc0000166.1_g000053 Rmu_sc0000240.1_g000064 Rmu_sc0000435.1_g000013 Rmu_sc0000552.1_g000019 Rmu_sc0000776.1_g000078 Rmu_sc0001597.1_g000012 Rmu_sc0001759.1_g000017 Rmu_sc0002137.1_g000011 Rmu_sc0002933.1_g000006 Rmu_sc0002938.1_g000049 Rmu_sc0003257.1_g000014 Rmu_sc0003465.1_g000054 Rmu_sc0003505.1_g000025 Rmu_sc0003526.1_g000016 Rmu_sc0003829.1_g000021 Rmu_sc0003855.1_g000002 Rmu_sc0005514.1_g000003 Rmu_sc0005514.1_g000004 Rmu_sc0007820.1_g000001 Rmu_sc0008322.1_g000016 Rmu_sc0008636.1_g000003 Rmu_sc0008812.1_g000009 Rmu_sc0010960.1_g000003 Rmu_sc0011753.1_g000001 Rmu_sc0013017.1_g000001 Rmu_sc0013176.1_g000005 Rmu_sc0015928.1_g000001 Rmu_sc0020751.1_g000003 Rmu_sc0038865.1_g000001 Rmu_ssc0000089.1_g000008 Rmu_ssc0000164.1_g000007 Rmu_ssc0000388.1_g000013 Rmu_ssc0000400.1_g000076 Rmu_ssc0000486.1_g000012
rosa_roxburghii Rroxscaffold_1G00005880 Rroxscaffold_1G00051030 Rroxscaffold_2G00107440 Rroxscaffold_2G00115370 Rroxscaffold_2G00115870 Rroxscaffold_2G00146360 Rroxscaffold_3G00228870 Rroxscaffold_3G00230350 Rroxscaffold_3G00246190 Rroxscaffold_6G00423350 Rroxscaffold_7G00157820 Rroxscaffold_7G00184840 Rroxscaffold_7G00186490
rosa_rugosa Rorug02G0248700 Rorug02G0279900 Rorug02G0285600 Rorug02G0285700 Rorug03G0068700 Rorug03G0077100 Rorug03G0247700 Rorug03G0304800 Rorug04G0059600 Rorug05G0104000 Rorug05G0104000 Rorug05G0192000 Rorug05G0247800 Rorug05G0248000 Rorug06G0064100 Rorug06G0244800
rosa_samantha Rh4BG200400 Rh4CG094600 Rh4CG114400 Rh5BG465300 Rh6AG057500
rosa_wichuraiana Rw1G014470 Rw2G026930 Rw5G042730 Rw6G021090 Rw6G022960 Rw6G025470 Rw6G034450 Rw7G034300

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 331
Acc36I ACCTGC 1 cut(s) 331
AccI GTMKAC 1 cut(s) 315
AciI CCGC 1 cut(s) 670
AclWI GGATC 3 cut(s) 46, 290, 303
AcoI YGGCCR 3 cut(s) 62, 111, 671
AcsI RAATTY 2 cut(s) 345, 580
AcuI CTGAAG 1 cut(s) 450
AfaI GTAC 2 cut(s) 25, 133
AfiI CCNNNNNNNGG 1 cut(s) 598
AflIII ACRYGT 1 cut(s) 420
AgeI ACCGGT 1 cut(s) 20
AgsI TTSAA 1 cut(s) 485
AjiI CACGTC 1 cut(s) 382
AjnI CCWGG 1 cut(s) 127
AjuI GAANNNNNNNTTGG 2 cut(s) 270, 302
AluBI AGCT 2 cut(s) 80, 98
AluI AGCT 2 cut(s) 80, 98
AlwI GGATC 3 cut(s) 46, 290, 303
AlwNI CAGNNNCTG 1 cut(s) 602
AoxI GGCC 4 cut(s) 62, 111, 171, 671
ApeKI GCWGC 1 cut(s) 98
ApoI RAATTY 2 cut(s) 345, 580
ArsI GACNNNNNNTTYG 1 cut(s) 681
AsiGI ACCGGT 1 cut(s) 20
AspA2I CCTAGG 1 cut(s) 442
AspS9I GGNCC 1 cut(s) 637
AvaII GGWCC 1 cut(s) 637
AvrII CCTAGG 1 cut(s) 442
BalI TGGCCA 2 cut(s) 64, 113
BamHI GGATCC 1 cut(s) 295
BbvI GCAGC 1 cut(s) 85
BccI CCATC 3 cut(s) 147, 285, 397
BcgI CGANNNNNNTGC 2 cut(s) 305, 339
BciT130I CCWGG 1 cut(s) 129
BfaI CTAG 2 cut(s) 303, 443
BfmI CTRYAG 1 cut(s) 474
BfuAI ACCTGC 1 cut(s) 331
BisI GCNGC 2 cut(s) 99, 671
BlnI CCTAGG 1 cut(s) 442
BlsI GCNGC 2 cut(s) 100, 672
Bme1390I CCNGG 1 cut(s) 129
Bme18I GGWCC 1 cut(s) 637
BmgBI CACGTC 1 cut(s) 382
BmgT120I GGNCC 1 cut(s) 637
BmiI GGNNCC 1 cut(s) 297
BmrFI CCNGG 1 cut(s) 129
BpmI CTGGAG 1 cut(s) 543
Bpu10I CCTNAGC 1 cut(s) 102
Bsa29I ATCGAT 1 cut(s) 692
BsaJI CCNNGG 2 cut(s) 114, 442
BsaWI WCCGGW 2 cut(s) 20, 188
Bsc4I CCNNNNNNNGG 1 cut(s) 598
Bse118I RCCGGY 1 cut(s) 20
Bse1I ACTGG 1 cut(s) 286
BseBI CCWGG 1 cut(s) 129
BseCI ATCGAT 1 cut(s) 692
BseDI CCNNGG 2 cut(s) 114, 442
BseGI GGATG 2 cut(s) 158, 296
BseLI CCNNNNNNNGG 1 cut(s) 598
BseNI ACTGG 1 cut(s) 286
BseXI GCAGC 1 cut(s) 85
Bsh1285I CGRYCG 1 cut(s) 696
BshFI GGCC 4 cut(s) 64, 113, 173, 673
BshTI ACCGGT 1 cut(s) 20
BshVI ATCGAT 1 cut(s) 692
BsiEI CGRYCG 1 cut(s) 696
BsiSI CCGG 3 cut(s) 21, 189, 299
BslFI GGGAC 1 cut(s) 392
BslI CCNNNNNNNGG 1 cut(s) 598
BsmFI GGGAC 1 cut(s) 392
BsnI GGCC 4 cut(s) 64, 113, 173, 673
Bsp143I GATC 4 cut(s) 38, 295, 351, 693
BspACI CCGC 1 cut(s) 670
BspANI GGCC 4 cut(s) 64, 113, 173, 673
BspDI ATCGAT 1 cut(s) 692
BspHI TCATGA 1 cut(s) 456
BspLI GGNNCC 1 cut(s) 297
BspMI ACCTGC 1 cut(s) 331
BspPI GGATC 3 cut(s) 46, 290, 303
BsrFI RCCGGY 1 cut(s) 20
BsrI ACTGG 1 cut(s) 286
BssAI RCCGGY 1 cut(s) 20
BssECI CCNNGG 2 cut(s) 114, 442
BssMI GATC 4 cut(s) 38, 295, 351, 693
BssT1I CCWWGG 2 cut(s) 114, 442
Bst2UI CCWGG 1 cut(s) 129
Bst4CI ACNGT 1 cut(s) 313
Bst6I CTCTTC 2 cut(s) 480, 528
BstDEI CTNAG 1 cut(s) 102
BstF5I GGATG 2 cut(s) 158, 296
BstKTI GATC 4 cut(s) 41, 298, 354, 696
BstMBI GATC 4 cut(s) 38, 295, 351, 693
BstMCI CGRYCG 1 cut(s) 696
BstNI CCWGG 1 cut(s) 129
BstNSI RCATGY 1 cut(s) 424
BstSCI CCNGG 1 cut(s) 127
BstSFI CTRYAG 1 cut(s) 474
BstV1I GCAGC 1 cut(s) 85
BstX2I RGATCY 2 cut(s) 38, 295
BstYI RGATCY 2 cut(s) 38, 295
Bsu15I ATCGAT 1 cut(s) 692
BsuRI GGCC 4 cut(s) 64, 113, 173, 673
BsuTUI ATCGAT 1 cut(s) 692
BtrI CACGTC 1 cut(s) 382
BtsCI GGATG 2 cut(s) 158, 296
BveI ACCTGC 1 cut(s) 331
CaiI CAGNNNCTG 1 cut(s) 602
CciI TCATGA 1 cut(s) 456
Cfr10I RCCGGY 1 cut(s) 20
Cfr13I GGNCC 1 cut(s) 637
ClaI ATCGAT 1 cut(s) 692
CseI GACGC 1 cut(s) 326
CsiI ACCWGGT 1 cut(s) 127
Csp6I GTAC 2 cut(s) 24, 132
CspAI ACCGGT 1 cut(s) 20
CviAII CATG 4 cut(s) 60, 169, 421, 457
CviQI GTAC 2 cut(s) 24, 132
DdeI CTNAG 1 cut(s) 102
DpnI GATC 4 cut(s) 40, 297, 353, 695
DpnII GATC 4 cut(s) 38, 295, 351, 693
EaeI YGGCCR 3 cut(s) 62, 111, 671
Eam1104I CTCTTC 2 cut(s) 480, 528
EarI CTCTTC 2 cut(s) 480, 528
Eco130I CCWWGG 2 cut(s) 114, 442
Eco47I GGWCC 1 cut(s) 637
Eco57I CTGAAG 1 cut(s) 450
EcoRII CCWGG 1 cut(s) 127
EcoT14I CCWWGG 2 cut(s) 114, 442
ErhI CCWWGG 2 cut(s) 114, 442
FaeI CATG 4 cut(s) 63, 172, 424, 460
FaqI GGGAC 1 cut(s) 392
FatI CATG 4 cut(s) 59, 168, 420, 456
FblI GTMKAC 1 cut(s) 315
Fnu4HI GCNGC 2 cut(s) 99, 671
FokI GGATG 2 cut(s) 165, 303
Fsp4HI GCNGC 2 cut(s) 99, 671
FspBI CTAG 2 cut(s) 303, 443
GluI GCNGC 2 cut(s) 99, 671
GsuI CTGGAG 1 cut(s) 543
HaeIII GGCC 4 cut(s) 64, 113, 173, 673
HapII CCGG 3 cut(s) 21, 189, 299
HgaI GACGC 1 cut(s) 326
Hin1II CATG 4 cut(s) 63, 172, 424, 460
HincII GTYRAC 2 cut(s) 186, 316
HindII GTYRAC 2 cut(s) 186, 316
HinfI GANTC 5 cut(s) 230, 338, 460, 500, 539
HpaI GTTAAC 1 cut(s) 186
HpaII CCGG 3 cut(s) 21, 189, 299
Hpy166II GTNNAC 4 cut(s) 134, 186, 263, 316
Hpy188I TCNGA 3 cut(s) 351, 505, 544
Hpy188III TCNNGA 6 cut(s) 42, 359, 377, 395, 457, 522
Hpy8I GTNNAC 4 cut(s) 134, 186, 263, 316
Hpy99I CGWCG 1 cut(s) 320
HpyAV CCTTC 2 cut(s) 186, 474
HpyCH4III ACNGT 1 cut(s) 313
HpyCH4IV ACGT 2 cut(s) 381, 559
HpyCH4V TGCA 1 cut(s) 271
HpyF3I CTNAG 1 cut(s) 102
HpySE526I ACGT 2 cut(s) 381, 559
Hsp92II CATG 4 cut(s) 63, 172, 424, 460
KspAI GTTAAC 1 cut(s) 186
Kzo9I GATC 4 cut(s) 38, 295, 351, 693
Lsp1109I GCAGC 1 cut(s) 85
MabI ACCWGGT 1 cut(s) 127
MaeI CTAG 2 cut(s) 303, 443
MaeII ACGT 2 cut(s) 381, 559
MaeIII GTNAC 2 cut(s) 446, 469
MalI GATC 4 cut(s) 40, 297, 353, 695
MboI GATC 4 cut(s) 38, 295, 351, 693
MboII GAAGA 3 cut(s) 22, 497, 545
MflI RGATCY 2 cut(s) 38, 295
MlsI TGGCCA 2 cut(s) 64, 113
MluCI AATT 7 cut(s) 251, 345, 387, 511, 516, 580, 676
MluNI TGGCCA 2 cut(s) 64, 113
MnlI CCTC 8 cut(s) 64, 481, 490, 529, 557, 592, 628, 658
Mox20I TGGCCA 2 cut(s) 64, 113
MscI TGGCCA 2 cut(s) 64, 113
MseI TTAA 4 cut(s) 177, 185, 237, 515
Msp20I TGGCCA 2 cut(s) 64, 113
MspI CCGG 3 cut(s) 21, 189, 299
MspR9I CCNGG 1 cut(s) 129
MvaI CCWGG 1 cut(s) 129
NdeII GATC 4 cut(s) 38, 295, 351, 693
NlaIII CATG 4 cut(s) 63, 172, 424, 460
NlaIV GGNNCC 1 cut(s) 297
NmuCI GTSAC 1 cut(s) 446
NspI RCATGY 1 cut(s) 424
PagI TCATGA 1 cut(s) 456
PaqCI CACCTGC 1 cut(s) 331
PciI ACATGT 1 cut(s) 420
PfeI GAWTC 5 cut(s) 230, 338, 460, 500, 539
PinAI ACCGGT 1 cut(s) 20
PkrI GCNGC 2 cut(s) 100, 672
Ple19I CGATCG 1 cut(s) 696
PscI ACATGT 1 cut(s) 420
Psp6I CCWGG 1 cut(s) 127
PspGI CCWGG 1 cut(s) 127
PspN4I GGNNCC 1 cut(s) 297
PspPI GGNCC 1 cut(s) 637
PstNI CAGNNNCTG 1 cut(s) 602
PsuI RGATCY 2 cut(s) 38, 295
PvuI CGATCG 1 cut(s) 696
RsaI GTAC 2 cut(s) 25, 133
RsaNI GTAC 2 cut(s) 24, 132
SalI GTCGAC 1 cut(s) 314
SaqAI TTAA 4 cut(s) 177, 185, 237, 515
SatI GCNGC 2 cut(s) 99, 671
Sau3AI GATC 4 cut(s) 38, 295, 351, 693
Sau96I GGNCC 1 cut(s) 637
ScrFI CCNGG 1 cut(s) 129
SexAI ACCWGGT 1 cut(s) 127
SfcI CTRYAG 1 cut(s) 474
SinI GGWCC 1 cut(s) 637
Sse9I AATT 7 cut(s) 251, 345, 387, 511, 516, 580, 676
SsiI CCGC 1 cut(s) 670
SspMI CTAG 2 cut(s) 303, 443
StyD4I CCNGG 1 cut(s) 127
StyI CCWWGG 2 cut(s) 114, 442
TaaI ACNGT 1 cut(s) 313
TaiI ACGT 2 cut(s) 384, 562
TaqI TCGA 2 cut(s) 315, 692
TasI AATT 7 cut(s) 251, 345, 387, 511, 516, 580, 676
TauI GCSGC 1 cut(s) 673
TfiI GAWTC 5 cut(s) 230, 338, 460, 500, 539
Tru1I TTAA 4 cut(s) 177, 185, 237, 515
Tru9I TTAA 4 cut(s) 177, 185, 237, 515
TseFI GTSAC 1 cut(s) 446
TseI GCWGC 1 cut(s) 98
Tsp45I GTSAC 1 cut(s) 446
TspDTI ATGAA 2 cut(s) 546, 570
VpaK11BI GGWCC 1 cut(s) 637
XapI RAATTY 2 cut(s) 345, 580
XceI RCATGY 1 cut(s) 424
XmaJI CCTAGG 1 cut(s) 442
XmiI GTMKAC 1 cut(s) 315
XspI CTAG 2 cut(s) 303, 443
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.