RLG00000018399

repressing transcription factor binding

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr4
OG0000518
Physical Location & Seq
Reverse (-)
29265756 .. 29266409
654 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000018399

Sequence Viewer

Length: 315 bp
ATGGCAACCGGGTTTGAGCACCGGAGACAAGGGATGTGCAAGATTTTGATGAATGAGATTGAGAACTGGCTTAGGGACTCTGGGATTGAGAGGCTTGTTTTGCCTTTGGTGCAAGGTGCTCTGAAGACATGGACTAGTAGTTCGATTGGGTTTTTGACTATGACTGAGGATGAGAAAGCAGATCTCTTCCCATCACTTATGATTGCATGGATTACCAGGACAGTGTTATGTGTTAGAAACAACTCTGGAAGAATAATGAGAACGGTGATAATGGAGATTGCCTTGCGGCCCACGTTGGCGATCCGTGACGTGTGA
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

105

Amino Acids

11.88

Weight (kDa)

8.84

Isoelectric Point (pI)

43.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
IDM1_C PF23209 1 - 78 1.6e-15 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)
AciI CCGC 1 cut(s) 286
AclWI GGATC 1 cut(s) 295
AcuI CTGAAG 1 cut(s) 143
AflIII ACRYGT 1 cut(s) 309
AhlI ACTAGT 1 cut(s) 134
AjiI CACGTC 1 cut(s) 310
AjnI CCWGG 1 cut(s) 215
AloI GAACNNNNNNTCC 2 cut(s) 124, 156
Alw21I GWGCWC 2 cut(s) 21, 121
Alw26I GTCTC 1 cut(s) 19
AlwI GGATC 1 cut(s) 295
AoxI GGCC 1 cut(s) 287
ArsI GACNNNNNNTTYG 2 cut(s) 124, 156
AspS9I GGNCC 1 cut(s) 288
AsuC2I CCSGG 1 cut(s) 10
AsuHPI GGTGA 1 cut(s) 277
BbsI GAAGAC 1 cut(s) 131
Bbv12I GWGCWC 2 cut(s) 21, 121
BccI CCATC 1 cut(s) 199
BciT130I CCWGG 1 cut(s) 217
BcnI CCSGG 1 cut(s) 10
BcoDI GTCTC 1 cut(s) 19
BcuI ACTAGT 1 cut(s) 134
BfaI CTAG 1 cut(s) 135
BglII AGATCT 1 cut(s) 181
BisI GCNGC 1 cut(s) 287
BlsI GCNGC 1 cut(s) 288
Bme1390I CCNGG 2 cut(s) 10, 217
BmgBI CACGTC 1 cut(s) 310
BmgT120I GGNCC 1 cut(s) 288
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) 289
BsiHKAI GWGCWC 2 cut(s) 21, 121
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) 289
Bsp1286I GDGCHC 2 cut(s) 21, 121
Bsp143I GATC 2 cut(s) 181, 300
BspACI CCGC 1 cut(s) 286
BspANI GGCC 1 cut(s) 289
BspCNI CTCAG 1 cut(s) 157
BspPI GGATC 1 cut(s) 295
BsrI ACTGG 1 cut(s) 71
BssMI GATC 2 cut(s) 181, 300
Bst2UI CCWGG 1 cut(s) 217
Bst4CI ACNGT 2 cut(s) 223, 265
Bst6I CTCTTC 1 cut(s) 191
BstDEI CTNAG 2 cut(s) 71, 165
BstF5I GGATG 2 cut(s) 39, 175
BstKTI GATC 2 cut(s) 184, 303
BstMAI GTCTC 1 cut(s) 19
BstMBI GATC 2 cut(s) 181, 300
BstMWI GCNNNNNNNGC 2 cut(s) 100, 109
BstNI CCWGG 1 cut(s) 217
BstSCI CCNGG 2 cut(s) 8, 215
BstV2I GAAGAC 1 cut(s) 131
BstX2I RGATCY 1 cut(s) 181
BstYI RGATCY 1 cut(s) 181
BsuRI GGCC 1 cut(s) 289
BtrI CACGTC 1 cut(s) 310
BtsCI GGATG 2 cut(s) 39, 175
BtsIMutI CAGTG 1 cut(s) 228
Cfr13I GGNCC 1 cut(s) 288
CviAII CATG 2 cut(s) 129, 207
CviJI RGCY 3 cut(s) 70, 94, 289
CviKI_1 RGCY 3 cut(s) 70, 94, 289
DdeI CTNAG 2 cut(s) 71, 165
DpnI GATC 2 cut(s) 183, 302
DpnII GATC 2 cut(s) 181, 300
Eam1104I CTCTTC 1 cut(s) 191
EarI CTCTTC 1 cut(s) 191
Eco57I CTGAAG 1 cut(s) 143
EcoRII CCWGG 1 cut(s) 215
FaeI CATG 2 cut(s) 132, 210
FaiI YATR 5 cut(s) 130, 161, 200, 208, 229
FaqI GGGAC 1 cut(s) 89
FatI CATG 2 cut(s) 128, 206
Fnu4HI GCNGC 1 cut(s) 287
FokI GGATG 2 cut(s) 46, 182
Fsp4HI GCNGC 1 cut(s) 287
FspBI CTAG 1 cut(s) 135
GluI GCNGC 1 cut(s) 287
HaeIII GGCC 1 cut(s) 289
HapII CCGG 2 cut(s) 9, 22
Hin1II CATG 2 cut(s) 132, 210
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
HpyCH4III ACNGT 2 cut(s) 223, 265
HpyCH4IV ACGT 2 cut(s) 293, 309
HpyCH4V TGCA 3 cut(s) 39, 112, 206
HpyF10VI GCNNNNNNNGC 2 cut(s) 100, 109
HpyF3I CTNAG 2 cut(s) 71, 165
HpySE526I ACGT 2 cut(s) 293, 309
Hsp92II CATG 2 cut(s) 132, 210
Kzo9I GATC 2 cut(s) 181, 300
LpnPI CCDG 7 cut(s) 22, 35, 52, 66, 202, 229, 231
MaeI CTAG 1 cut(s) 135
MaeII ACGT 2 cut(s) 293, 309
MaeIII GTNAC 1 cut(s) 305
MalI GATC 2 cut(s) 183, 302
MboI GATC 2 cut(s) 181, 300
MboII GAAGA 3 cut(s) 136, 178, 261
MflI RGATCY 1 cut(s) 181
MhlI GDGCHC 2 cut(s) 21, 121
MlyI GAGTC 1 cut(s) 71
MnlI CCTC 2 cut(s) 84, 160
MspI CCGG 2 cut(s) 9, 22
MspR9I CCNGG 2 cut(s) 10, 217
MvaI CCWGG 1 cut(s) 217
MwoI GCNNNNNNNGC 2 cut(s) 100, 109
NciI CCSGG 1 cut(s) 10
NdeII GATC 2 cut(s) 181, 300
NlaIII CATG 2 cut(s) 132, 210
NmuCI GTSAC 1 cut(s) 305
PkrI GCNGC 1 cut(s) 288
PleI GAGTC 1 cut(s) 71
PpsI GAGTC 1 cut(s) 71
Psp6I CCWGG 1 cut(s) 215
PspGI CCWGG 1 cut(s) 215
PspPI GGNCC 1 cut(s) 288
PsuI RGATCY 1 cut(s) 181
SatI GCNGC 1 cut(s) 287
Sau3AI GATC 2 cut(s) 181, 300
Sau96I GGNCC 1 cut(s) 288
SchI GAGTC 1 cut(s) 71
ScrFI CCNGG 2 cut(s) 10, 217
SduI GDGCHC 2 cut(s) 21, 121
SetI ASST 3 cut(s) 118, 296, 312
SpeI ACTAGT 1 cut(s) 134
SsiI CCGC 1 cut(s) 286
SspMI CTAG 1 cut(s) 135
StyD4I CCNGG 2 cut(s) 8, 215
TaaI ACNGT 2 cut(s) 223, 265
TaiI ACGT 2 cut(s) 296, 312
TaqI TCGA 1 cut(s) 143
TauI GCSGC 1 cut(s) 289
TscAI CASTG 1 cut(s) 228
TseFI GTSAC 1 cut(s) 305
Tsp45I GTSAC 1 cut(s) 305
TspDTI ATGAA 1 cut(s) 65
TspGWI ACGGA 1 cut(s) 293
TspRI CASTG 1 cut(s) 228
XspI CTAG 1 cut(s) 135
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.