Rh1CG063600

repressing transcription factor binding

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1C
OG0000518
Physical Location & Seq
Reverse (-)
12603139 .. 12603786
648 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1CG063600.1

Sequence Viewer

Length: 648 bp
ATGGAGGATATATTGCAAGATAATAGGTCCAAGATTTCGGGAATCAACACCCTTCTTGGGATCCCTATTCCAGTAGTGGGTGCCCAGAGAAATCTTACTTGGAGATTGTTGATACCTCACATGAGCGTTGAAAATTATTACGGCACCAAGCTCTATTCTGCTCACAATGTCATTCATGAGTGTTTCGAGCCCTGTAAGGACCCATACACCAATAGAGACATTGCTGAGGATATTGTTTTTGATCTTGAGTCTGAGACAGAGTTGAACTTGAGAGGGTTTTACACTGTGGTTTTGGAGAAGAATGATCATGATCATCATGAGGAAATGATCTGTGCGGCTACTGTGAGGATCGATAGGGAAGTGGCCGAAGTGCCGCTTGTGGCTACTAGGCCTCAGTTTCGGAGACTTGGCATGTGCCGAATTCTTATGAATGAGCTTGAAAAGTGGCTCATGGAATTTGGAATTGAGAAGCTGGTTTTGCCTTCTGCGCCAAGTGCACTTGGTACATGGACCAGCAATTCAATAGGGTTTTCAAAGATGACTGAGGATGAGAGATCAAAATTTGCTACTTGTCATGATTTCTTGGATTTTAAGGACACTATTATGTGCCATAAACAGCTCTTGAAGCAGCCAGTAGAGTCATCATGA
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

215

Amino Acids

24.74

Weight (kDa)

5.28

Isoelectric Point (pI)

47.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
IDM1_C PF23209 62 - 206 1e-40 Increased DNA methylation 1, C-terminal domain
Acetyltransf_1 PF00583 90 - 160 4.7e-06 Acetyltransferase (GNAT) family
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: 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)
AccB1I GGYRCC 2 cut(s) 80, 143
AciI CCGC 2 cut(s) 335, 374
AclWI GGATC 3 cut(s) 55, 68, 356
AcoI YGGCCR 1 cut(s) 363
AcsI RAATTY 3 cut(s) 420, 455, 560
AfaI GTAC 1 cut(s) 505
AfiI CCNNNNNNNGG 2 cut(s) 57, 77
AgsI TTSAA 6 cut(s) 131, 265, 440, 522, 534, 625
AjuI GAANNNNNNNTTGG 2 cut(s) 82, 114
AluBI AGCT 4 cut(s) 151, 436, 472, 619
AluI AGCT 4 cut(s) 151, 436, 472, 619
Alw21I GWGCWC 1 cut(s) 499
Alw26I GTCTC 3 cut(s) 210, 248, 397
Alw44I GTGCAC 1 cut(s) 495
AlwI GGATC 3 cut(s) 55, 68, 356
AoxI GGCC 2 cut(s) 363, 389
ApaLI GTGCAC 1 cut(s) 495
ApeKI GCWGC 1 cut(s) 628
ApoI RAATTY 3 cut(s) 420, 455, 560
AspLEI GCGC 1 cut(s) 490
AspS9I GGNCC 3 cut(s) 27, 199, 510
AvaII GGWCC 3 cut(s) 27, 199, 510
BaeGI GKGCMC 2 cut(s) 85, 499
BamHI GGATCC 1 cut(s) 60
BanI GGYRCC 2 cut(s) 80, 143
BanII GRGCYC 1 cut(s) 192
Bbv12I GWGCWC 1 cut(s) 499
BbvCI CCTCAGC 1 cut(s) 225
BbvI GCAGC 1 cut(s) 640
BceAI ACGGC 1 cut(s) 157
BclI TGATCA 2 cut(s) 304, 310
BcoDI GTCTC 3 cut(s) 210, 248, 397
BfaI CTAG 1 cut(s) 387
BisI GCNGC 3 cut(s) 336, 374, 629
BlsI GCNGC 3 cut(s) 337, 375, 630
Bme18I GGWCC 3 cut(s) 27, 199, 510
BmgT120I GGNCC 3 cut(s) 27, 199, 510
BmiI GGNNCC 4 cut(s) 62, 82, 145, 201
Bpu10I CCTNAGC 1 cut(s) 225
BpuEI CTTGAG 2 cut(s) 266, 289
Bsa29I ATCGAT 1 cut(s) 351
BsaBI GATNNNNATC 1 cut(s) 309
Bsc4I CCNNNNNNNGG 2 cut(s) 57, 77
Bse1I ACTGG 2 cut(s) 71, 632
Bse3DI GCAATG 1 cut(s) 219
Bse8I GATNNNNATC 1 cut(s) 309
BseCI ATCGAT 1 cut(s) 351
BseGI GGATG 1 cut(s) 553
BseJI GATNNNNATC 1 cut(s) 309
BseLI CCNNNNNNNGG 2 cut(s) 57, 77
BseMI GCAATG 1 cut(s) 219
BseMII CTCAG 4 cut(s) 216, 243, 407, 534
BseNI ACTGG 2 cut(s) 71, 632
BseSI GKGCMC 2 cut(s) 85, 499
BseXI GCAGC 1 cut(s) 640
BshFI GGCC 2 cut(s) 365, 391
BshNI GGYRCC 2 cut(s) 80, 143
BshVI ATCGAT 1 cut(s) 351
BsiHKAI GWGCWC 1 cut(s) 499
BslI CCNNNNNNNGG 2 cut(s) 57, 77
BsmAI GTCTC 3 cut(s) 210, 248, 397
BsnI GGCC 2 cut(s) 365, 391
Bsp1286I GDGCHC 3 cut(s) 85, 192, 499
Bsp143I GATC 7 cut(s) 60, 241, 304, 310, 327, 348, 554
BspACI CCGC 2 cut(s) 335, 374
BspANI GGCC 2 cut(s) 365, 391
BspCNI CTCAG 4 cut(s) 217, 244, 406, 535
BspDI ATCGAT 1 cut(s) 351
BspHI TCATGA 5 cut(s) 175, 307, 316, 574, 644
BspLI GGNNCC 4 cut(s) 62, 82, 145, 201
BspPI GGATC 3 cut(s) 55, 68, 356
BspT107I GGYRCC 2 cut(s) 80, 143
BsrDI GCAATG 1 cut(s) 219
BsrI ACTGG 2 cut(s) 71, 632
BssMI GATC 7 cut(s) 60, 241, 304, 310, 327, 348, 554
Bst4CI ACNGT 2 cut(s) 286, 343
BstDEI CTNAG 4 cut(s) 225, 252, 393, 543
BstF5I GGATG 1 cut(s) 553
BstHHI GCGC 1 cut(s) 490
BstKTI GATC 7 cut(s) 63, 244, 307, 313, 330, 351, 557
BstMAI GTCTC 3 cut(s) 210, 248, 397
BstMBI GATC 7 cut(s) 60, 241, 304, 310, 327, 348, 554
BstMWI GCNNNNNNNGC 4 cut(s) 478, 487, 494, 625
BstNSI RCATGY 1 cut(s) 415
BstSLI GKGCMC 2 cut(s) 85, 499
BstV1I GCAGC 1 cut(s) 640
BstX2I RGATCY 1 cut(s) 60
BstYI RGATCY 1 cut(s) 60
Bsu15I ATCGAT 1 cut(s) 351
BsuRI GGCC 2 cut(s) 365, 391
BsuTUI ATCGAT 1 cut(s) 351
BtsCI GGATG 1 cut(s) 553
BtsIMutI CAGTG 1 cut(s) 282
CciI TCATGA 5 cut(s) 175, 307, 316, 574, 644
CfoI GCGC 1 cut(s) 490
Cfr13I GGNCC 3 cut(s) 27, 199, 510
ClaI ATCGAT 1 cut(s) 351
Csp6I GTAC 1 cut(s) 504
CviAII CATG 9 cut(s) 121, 176, 308, 317, 412, 451, 507, 575, 645
CviQI GTAC 1 cut(s) 504
DdeI CTNAG 4 cut(s) 225, 252, 393, 543
DpnI GATC 7 cut(s) 62, 243, 306, 312, 329, 350, 556
DpnII GATC 7 cut(s) 60, 241, 304, 310, 327, 348, 554
EaeI YGGCCR 1 cut(s) 363
Eco147I AGGCCT 1 cut(s) 391
Eco24I GRGCYC 1 cut(s) 192
Eco47I GGWCC 3 cut(s) 27, 199, 510
EcoO109I RGGNCCY 1 cut(s) 199
EcoRI GAATTC 1 cut(s) 420
EcoT38I GRGCYC 1 cut(s) 192
FaeI CATG 9 cut(s) 124, 179, 311, 320, 415, 454, 510, 578, 648
FalI AAGNNNNNCTT 2 cut(s) 360, 392
FatI CATG 9 cut(s) 120, 175, 307, 316, 411, 450, 506, 574, 644
FbaI TGATCA 2 cut(s) 304, 310
Fnu4HI GCNGC 3 cut(s) 336, 374, 629
FokI GGATG 1 cut(s) 560
FriOI GRGCYC 1 cut(s) 192
Fsp4HI GCNGC 3 cut(s) 336, 374, 629
FspBI CTAG 1 cut(s) 387
GlaI GCGC 1 cut(s) 489
GluI GCNGC 3 cut(s) 336, 374, 629
HaeIII GGCC 2 cut(s) 365, 391
HhaI GCGC 1 cut(s) 490
Hin1II CATG 9 cut(s) 124, 179, 311, 320, 415, 454, 510, 578, 648
Hin6I GCGC 1 cut(s) 488
HinP1I GCGC 1 cut(s) 488
HinfI GANTC 3 cut(s) 42, 248, 638
Hpy166II GTNNAC 1 cut(s) 497
Hpy188I TCNGA 2 cut(s) 253, 402
Hpy188III TCNNGA 8 cut(s) 39, 176, 245, 308, 317, 575, 622, 645
Hpy8I GTNNAC 1 cut(s) 497
HpyAV CCTTC 2 cut(s) 62, 492
HpyCH4III ACNGT 2 cut(s) 286, 343
HpyCH4V TGCA 2 cut(s) 16, 497
HpyF10VI GCNNNNNNNGC 4 cut(s) 478, 487, 494, 625
HpyF3I CTNAG 4 cut(s) 225, 252, 393, 543
Hsp92II CATG 9 cut(s) 124, 179, 311, 320, 415, 454, 510, 578, 648
HspAI GCGC 1 cut(s) 488
Ksp22I TGATCA 2 cut(s) 304, 310
Kzo9I GATC 7 cut(s) 60, 241, 304, 310, 327, 348, 554
LpnPI CCDG 5 cut(s) 84, 98, 205, 458, 526
Lsp1109I GCAGC 1 cut(s) 640
MaeI CTAG 1 cut(s) 387
MalI GATC 7 cut(s) 62, 243, 306, 312, 329, 350, 556
MboI GATC 7 cut(s) 60, 241, 304, 310, 327, 348, 554
MboII GAAGA 1 cut(s) 310
MflI RGATCY 1 cut(s) 60
MhlI GDGCHC 3 cut(s) 85, 192, 499
MluCI AATT 6 cut(s) 133, 420, 455, 462, 517, 560
MlyI GAGTC 2 cut(s) 257, 647
MnlI CCTC 7 cut(s) 126, 220, 266, 313, 339, 402, 538
MseI TTAA 1 cut(s) 591
MslI CAYNNNNRTG 1 cut(s) 602
MwoI GCNNNNNNNGC 4 cut(s) 478, 487, 494, 625
NdeII GATC 7 cut(s) 60, 241, 304, 310, 327, 348, 554
NlaIII CATG 9 cut(s) 124, 179, 311, 320, 415, 454, 510, 578, 648
NlaIV GGNNCC 4 cut(s) 62, 82, 145, 201
NspI RCATGY 1 cut(s) 415
PagI TCATGA 5 cut(s) 175, 307, 316, 574, 644
PceI AGGCCT 1 cut(s) 391
PfeI GAWTC 1 cut(s) 42
PkrI GCNGC 3 cut(s) 337, 375, 630
PleI GAGTC 2 cut(s) 256, 646
PpsI GAGTC 2 cut(s) 256, 646
PpuMI RGGWCCY 1 cut(s) 199
Psp5II RGGWCCY 1 cut(s) 199
PspN4I GGNNCC 4 cut(s) 62, 82, 145, 201
PspPI GGNCC 3 cut(s) 27, 199, 510
PspPPI RGGWCCY 1 cut(s) 199
PsuI RGATCY 1 cut(s) 60
RsaI GTAC 1 cut(s) 505
RsaNI GTAC 1 cut(s) 504
RseI CAYNNNNRTG 1 cut(s) 602
SaqAI TTAA 1 cut(s) 591
SatI GCNGC 3 cut(s) 336, 374, 629
Sau3AI GATC 7 cut(s) 60, 241, 304, 310, 327, 348, 554
Sau96I GGNCC 3 cut(s) 27, 199, 510
SchI GAGTC 2 cut(s) 257, 647
SduI GDGCHC 3 cut(s) 85, 192, 499
SetI ASST 6 cut(s) 29, 118, 153, 438, 474, 621
SinI GGWCC 3 cut(s) 27, 199, 510
SmiMI CAYNNNNRTG 1 cut(s) 602
SmlI CTYRAG 2 cut(s) 245, 268
SmoI CTYRAG 2 cut(s) 245, 268
Sse9I AATT 6 cut(s) 133, 420, 455, 462, 517, 560
SseBI AGGCCT 1 cut(s) 391
SsiI CCGC 2 cut(s) 335, 374
SspMI CTAG 1 cut(s) 387
StuI AGGCCT 1 cut(s) 391
TaaI ACNGT 2 cut(s) 286, 343
TaqI TCGA 2 cut(s) 186, 351
TasI AATT 6 cut(s) 133, 420, 455, 462, 517, 560
TauI GCSGC 2 cut(s) 338, 376
TfiI GAWTC 1 cut(s) 42
Tru1I TTAA 1 cut(s) 591
Tru9I TTAA 1 cut(s) 591
TscAI CASTG 1 cut(s) 289
TseI GCWGC 1 cut(s) 628
TspDTI ATGAA 2 cut(s) 164, 443
TspRI CASTG 1 cut(s) 289
VneI GTGCAC 1 cut(s) 495
VpaK11BI GGWCC 3 cut(s) 27, 199, 510
XapI RAATTY 3 cut(s) 420, 455, 560
XceI RCATGY 1 cut(s) 415
XspI CTAG 1 cut(s) 387
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.