Rroxscaffold_2G00125860

repressing transcription factor binding

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000518
Physical Location & Seq
Forward (+)
60930583 .. 60932831
2249 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00125860.1

Sequence Viewer

Length: 360 bp
ATGGCAACCGGGTTTGAGCACCGGAGACAAGGGATGTGCAAGATTTTGATGAATGAGATTGAGAACTGGCTTAGGGACTCTGGGATTGAGAGGCTTGTTTTGCCTTCGGTGCAAAGCGCTCTGAAGACATGGACTAGTAGTTCGATTGGGTTTTTGACTATGACTGAGGATGAGAAAGCAGATCTCTTCCCATCACTTATGATTGCATGGACTACCAGGACAGTGTTATGTGTTAGAAACAACTCTGGAAGAATAATGAGAACGGTGATAATGAATATAATTTTGTACAAGATGAGGTACCAACCCATCGCTCGACGAGGATCCTTACACTTGGCCATGTTAGCTGGATACCGTGAGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000118 GO:0000228 GO:0000785 GO:0000790 GO:0001085 GO:0001103 GO:0003674 GO:0003676 GO:0003677 GO:0003678 GO:0003824 GO:0004003 GO:0004386 GO:0004407 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005694 GO:0005737 GO:0005813 GO:0005815 GO:0005856 GO:0006325 GO:0006355 GO:0006357 GO:0006464 GO:0006476 GO:0006807 GO:0006996 GO:0008026 GO:0008094 GO:0008134 GO:0008150 GO:0008152 GO:0008270 GO:0009889 GO:0009987 GO:0010468 GO:0010556 GO:0015630 GO:0016043 GO:0016462 GO:0016569 GO:0016570 GO:0016575 GO:0016581 GO:0016787 GO:0016810 GO:0016811 GO:0016817 GO:0016818 GO:0016887 GO:0017053 GO:0017111 GO:0019213 GO:0019219 GO:0019222 GO:0019538 GO:0019899 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0032392 GO:0032508 GO:0032991 GO:0033558 GO:0035601 GO:0036211 GO:0042623 GO:0042826 GO:0043167 GO:0043169 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044430 GO:0044446 GO:0044451 GO:0044454 GO:0044464 GO:0046872 GO:0046914 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0051276 GO:0060255 GO:0065007 GO:0070013 GO:0070035 GO:0070491 GO:0070603 GO:0071103 GO:0071704 GO:0071840 GO:0080090 GO:0090545 GO:0090568 GO:0097159 GO:0098732 GO:0140096 GO:0140097 GO:1901363 GO:1901564 GO:1902494 GO:1903506 GO:1904949 GO:2000112 GO:2001141
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Acetyltransf_1 Acetyltransf_10 Agenet Jas PHD

Protein Analysis

119

Amino Acids

13.74

Weight (kDa)

9.91

Isoelectric Point (pI)

49.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
IDM1_C PF23209 1 - 77 3.7e-16 Increased DNA methylation 1, C-terminal domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0000518)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g21681 FvH4_3g29252 FvH4_3g38950 FvH4_3g44310 FvH4_5g29400
malus_domestica MD03G1066300.v1.1
rosa_chinensis RchiOBHm_Chr2g0087341 RchiOBHm_Chr7g0225691 RchiOBHm_Chr7g0225721 RchiOBHm_Chr7g0225751 RchiOBHm_Chr7g0225781 RchiOBHm_Chr7g0225811 RchiOBHm_Chr7g0225821 RchiOBHm_Chr7g0225841 RchiOBHm_Chr7g0225941
rosa_laevigata RLG00000001777 RLG00000001779 RLG00000001787 RLG00000001796 RLG00000015858 RLG00000018399 RLG00000030202
rosa_multiflora Rmu_co7995100.1_g000001 Rmu_sc0003367.1_g000025 Rmu_sc0004082.1_g000018 Rmu_sc0006064.1_g000002 Rmu_sc0011806.1_g000001 Rmu_sc0014642.1_g000005 Rmu_sc0014767.1_g000003 Rmu_sc0015723.1_g000001 Rmu_sc0030795.1_g000001 Rmu_sc0033647.1_g000001
rosa_roxburghii Rroxscaffold_1G00028220 Rroxscaffold_2G00089180 Rroxscaffold_2G00125860 Rroxscaffold_3G00233350 Rroxscaffold_3G00239570 Rroxscaffold_4G00325690 Rroxscaffold_5G00348560 Rroxscaffold_7G00198070
rosa_rugosa Rorug01G0045600 Rorug01G0474300.1 Rorug07G0220000 Rorug07G0220100 Rorug07G0220200 Rorug07G0220300 Rorug07G0232800 Rorug07G0233000 Rorug07G0233100 Rorug07G0233100 Rorug07G0233200 Rorug07G0233300.1
rosa_samantha Rh1AG061100 Rh1BG052200 Rh1CG063300 Rh1CG063600 Rh1DG067700 Rh2AG027900 Rh2BG027400 Rh2CG028200 Rh2DG028000 Rh7AG369700 Rh7AG370100 Rh7AG371200 Rh7AG387800 Rh7BG366500 Rh7BG366800 Rh7BG367000 Rh7BG367600 Rh7CG388600 Rh7CG389000 Rh7CG389800 Rh7CG407400 Rh7DG377400 Rh7DG377500 Rh7DG377900 Rh7DG378600 Rh7DG378700 Rh7DG378800
rosa_wichuraiana Rw0G020970 Rw0G020980 Rw1G005200 Rw2G002210 Rw7G031830 Rw7G031860 Rw7G031900

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 297
AccB1I GGYRCC 1 cut(s) 297
AclWI GGATC 2 cut(s) 315, 328
AcoI YGGCCR 1 cut(s) 333
AcuI CTGAAG 1 cut(s) 143
AfaI GTAC 2 cut(s) 287, 299
AfeI AGCGCT 1 cut(s) 118
AhlI ACTAGT 1 cut(s) 134
AjnI CCWGG 1 cut(s) 215
AloI GAACNNNNNNTCC 2 cut(s) 124, 156
AluBI AGCT 1 cut(s) 344
AluI AGCT 1 cut(s) 344
Alw21I GWGCWC 1 cut(s) 21
Alw26I GTCTC 1 cut(s) 19
AlwI GGATC 2 cut(s) 315, 328
Aor51HI AGCGCT 1 cut(s) 118
AoxI GGCC 1 cut(s) 333
ArsI GACNNNNNNTTYG 2 cut(s) 124, 156
Asp718I GGTACC 1 cut(s) 297
AspLEI GCGC 1 cut(s) 119
AsuC2I CCSGG 1 cut(s) 10
AsuHPI GGTGA 1 cut(s) 277
BalI TGGCCA 1 cut(s) 335
BamHI GGATCC 1 cut(s) 320
BanI GGYRCC 1 cut(s) 297
BbsI GAAGAC 1 cut(s) 131
Bbv12I GWGCWC 1 cut(s) 21
BccI CCATC 2 cut(s) 199, 314
BciT130I CCWGG 1 cut(s) 217
BciVI GTATCC 1 cut(s) 341
BcnI CCSGG 1 cut(s) 10
BcoDI GTCTC 1 cut(s) 19
BcuI ACTAGT 1 cut(s) 134
BfaI CTAG 1 cut(s) 135
BfoI RGCGCY 1 cut(s) 120
BfuI GTATCC 1 cut(s) 341
BglII AGATCT 1 cut(s) 181
Bme1390I CCNGG 2 cut(s) 10, 217
BmiI GGNNCC 2 cut(s) 299, 322
BmrFI CCNGG 2 cut(s) 10, 217
BpiI GAAGAC 1 cut(s) 131
Bpu10I CCTNAGC 1 cut(s) 71
BpuMI CCSGG 1 cut(s) 10
BsaWI WCCGGW 1 cut(s) 21
Bse1I ACTGG 1 cut(s) 71
BseBI CCWGG 1 cut(s) 217
BseGI GGATG 2 cut(s) 39, 175
BseMII CTCAG 1 cut(s) 156
BseNI ACTGG 1 cut(s) 71
BshFI GGCC 1 cut(s) 335
BshNI GGYRCC 1 cut(s) 297
BsiHKAI GWGCWC 1 cut(s) 21
BsiSI CCGG 2 cut(s) 9, 22
BslFI GGGAC 1 cut(s) 89
BsmAI GTCTC 1 cut(s) 19
BsmFI GGGAC 1 cut(s) 89
BsnI GGCC 1 cut(s) 335
Bsp1286I GDGCHC 1 cut(s) 21
Bsp1407I TGTACA 1 cut(s) 285
Bsp143I GATC 2 cut(s) 181, 320
BspANI GGCC 1 cut(s) 335
BspCNI CTCAG 1 cut(s) 157
BspLI GGNNCC 2 cut(s) 299, 322
BspPI GGATC 2 cut(s) 315, 328
BspT107I GGYRCC 1 cut(s) 297
BsrGI TGTACA 1 cut(s) 285
BsrI ACTGG 1 cut(s) 71
BssMI GATC 2 cut(s) 181, 320
Bst2UI CCWGG 1 cut(s) 217
Bst4CI ACNGT 3 cut(s) 223, 265, 353
Bst6I CTCTTC 1 cut(s) 191
BstAUI TGTACA 1 cut(s) 285
BstDEI CTNAG 2 cut(s) 71, 165
BstF5I GGATG 2 cut(s) 39, 175
BstH2I RGCGCY 1 cut(s) 120
BstHHI GCGC 1 cut(s) 119
BstKTI GATC 2 cut(s) 184, 323
BstMAI GTCTC 1 cut(s) 19
BstMBI GATC 2 cut(s) 181, 320
BstMWI GCNNNNNNNGC 3 cut(s) 100, 109, 341
BstNI CCWGG 1 cut(s) 217
BstSCI CCNGG 2 cut(s) 8, 215
BstV2I GAAGAC 1 cut(s) 131
BstX2I RGATCY 2 cut(s) 181, 320
BstYI RGATCY 2 cut(s) 181, 320
BsuI GTATCC 1 cut(s) 341
BsuRI GGCC 1 cut(s) 335
BtgZI GCGATG 1 cut(s) 292
BtsCI GGATG 2 cut(s) 39, 175
BtsIMutI CAGTG 1 cut(s) 228
CfoI GCGC 1 cut(s) 119
Csp6I GTAC 2 cut(s) 286, 298
CviAII CATG 3 cut(s) 129, 207, 337
CviJI RGCY 4 cut(s) 70, 94, 335, 344
CviKI_1 RGCY 4 cut(s) 70, 94, 335, 344
CviQI GTAC 2 cut(s) 286, 298
DdeI CTNAG 2 cut(s) 71, 165
DpnI GATC 2 cut(s) 183, 322
DpnII GATC 2 cut(s) 181, 320
EaeI YGGCCR 1 cut(s) 333
Eam1104I CTCTTC 1 cut(s) 191
EarI CTCTTC 1 cut(s) 191
Eco47III AGCGCT 1 cut(s) 118
Eco57I CTGAAG 1 cut(s) 143
EcoRII CCWGG 1 cut(s) 215
FaeI CATG 3 cut(s) 132, 210, 340
FaiI YATR 7 cut(s) 130, 161, 200, 208, 229, 278, 338
FaqI GGGAC 1 cut(s) 89
FatI CATG 3 cut(s) 128, 206, 336
FokI GGATG 2 cut(s) 46, 182
FspBI CTAG 1 cut(s) 135
GlaI GCGC 1 cut(s) 118
HaeII RGCGCY 1 cut(s) 120
HaeIII GGCC 1 cut(s) 335
HapII CCGG 2 cut(s) 9, 22
HhaI GCGC 1 cut(s) 119
Hin1II CATG 3 cut(s) 132, 210, 340
Hin6I GCGC 1 cut(s) 117
HinP1I GCGC 1 cut(s) 117
HinfI GANTC 1 cut(s) 77
HpaII CCGG 2 cut(s) 9, 22
HphI GGTGA 1 cut(s) 277
Hpy188I TCNGA 1 cut(s) 123
Hpy188III TCNNGA 1 cut(s) 246
Hpy99I CGWCG 1 cut(s) 318
HpyAV CCTTC 1 cut(s) 114
HpyCH4III ACNGT 3 cut(s) 223, 265, 353
HpyCH4V TGCA 3 cut(s) 39, 112, 206
HpyF10VI GCNNNNNNNGC 3 cut(s) 100, 109, 341
HpyF3I CTNAG 2 cut(s) 71, 165
Hsp92II CATG 3 cut(s) 132, 210, 340
HspAI GCGC 1 cut(s) 117
KpnI GGTACC 1 cut(s) 301
Kzo9I GATC 2 cut(s) 181, 320
LpnPI CCDG 8 cut(s) 22, 35, 52, 66, 202, 229, 231, 330
MaeI CTAG 1 cut(s) 135
MalI GATC 2 cut(s) 183, 322
MboI GATC 2 cut(s) 181, 320
MboII GAAGA 3 cut(s) 136, 178, 261
MflI RGATCY 2 cut(s) 181, 320
MhlI GDGCHC 1 cut(s) 21
MlsI TGGCCA 1 cut(s) 335
MluCI AATT 1 cut(s) 279
MluNI TGGCCA 1 cut(s) 335
MlyI GAGTC 1 cut(s) 71
MnlI CCTC 4 cut(s) 84, 160, 288, 311
Mox20I TGGCCA 1 cut(s) 335
MscI TGGCCA 1 cut(s) 335
Msp20I TGGCCA 1 cut(s) 335
MspI CCGG 2 cut(s) 9, 22
MspR9I CCNGG 2 cut(s) 10, 217
MvaI CCWGG 1 cut(s) 217
MwoI GCNNNNNNNGC 3 cut(s) 100, 109, 341
NciI CCSGG 1 cut(s) 10
NdeII GATC 2 cut(s) 181, 320
NlaIII CATG 3 cut(s) 132, 210, 340
NlaIV GGNNCC 2 cut(s) 299, 322
PleI GAGTC 1 cut(s) 71
PpsI GAGTC 1 cut(s) 71
Psp6I CCWGG 1 cut(s) 215
PspGI CCWGG 1 cut(s) 215
PspN4I GGNNCC 2 cut(s) 299, 322
PsuI RGATCY 2 cut(s) 181, 320
RsaI GTAC 2 cut(s) 287, 299
RsaNI GTAC 2 cut(s) 286, 298
Sau3AI GATC 2 cut(s) 181, 320
SchI GAGTC 1 cut(s) 71
ScrFI CCNGG 2 cut(s) 10, 217
SduI GDGCHC 1 cut(s) 21
SetI ASST 2 cut(s) 299, 346
SpeI ACTAGT 1 cut(s) 134
Sse9I AATT 1 cut(s) 279
SspMI CTAG 1 cut(s) 135
StyD4I CCNGG 2 cut(s) 8, 215
TaaI ACNGT 3 cut(s) 223, 265, 353
TaqI TCGA 2 cut(s) 143, 313
TasI AATT 1 cut(s) 279
TatI WGTACW 1 cut(s) 285
TscAI CASTG 1 cut(s) 228
TspDTI ATGAA 2 cut(s) 65, 287
TspRI CASTG 1 cut(s) 228
XspI CTAG 1 cut(s) 135
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.