Rroxscaffold_7G00168750

YbaB/EbfC DNA-binding family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0003152
Physical Location & Seq
Reverse (-)
9559157 .. 9561883
2727 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00168750.1

Sequence Viewer

Length: 558 bp
ATGGCTTCGACCAGTGCTTTATCCTCCTCGCGCCTTTCCAGCTTTCACCGACTCACCGACTCCGCAGACCATCACTCTTTCCGTGAAGTGAGCTCATATCCAGGCAGTCCAATAGTATCCTGGCCTGGTATTAAGACTGCGAGGACGGCCCGATCATCCCGTGTTTATGGCTTATTTGGAGGGAAAAAGGATAACAATGAAAAGGGTGATGACAAGGCTGGAATATTCGGTAATATGCAAAATCTGTATGAAACAGTTAAGAAAGCCCAAAATGTAGTACAAGTTGAAGCAGTGCGTGTGCAGAAAGAGCTTGCTGCGGCCGAGTTTGATGGTTACTGTGAAGGTGAGATAATAAAGGTAACGCTTTCTGGTAACCAGCAGCCAGTACGCACAGAGATAACCGAGGCTGCTATGGAACTAGGAGCCGAAAAAGTCTCTCTGTTGGTTACTGAAGCATACAAAGACGCACACCAGAAGAGTGTCGTGGCCATGAAGGAGAGAATGAGTAACCTTGCTCAGAGTTTAGGAATGCCACCAGGCCTTGGCGAACTGAAGTGA
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
YbaB_DNA_bd

Protein Analysis

185

Amino Acids

20.08

Weight (kDa)

7.83

Isoelectric Point (pI)

30.0

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
YbaB_DNA_bd PF02575 87 - 174 6.6e-14 YbaB/EbfC DNA-binding family
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 542
AccII CGCG 1 cut(s) 31
AciI CCGC 2 cut(s) 63, 317
AcoI YGGCCR 2 cut(s) 318, 486
AcuI CTGAAG 1 cut(s) 471
AfaI GTAC 2 cut(s) 279, 387
AfiI CCNNNNNNNGG 1 cut(s) 542
AgsI TTSAA 1 cut(s) 287
AjnI CCWGG 4 cut(s) 100, 119, 124, 535
AluBI AGCT 3 cut(s) 42, 93, 310
AluI AGCT 3 cut(s) 42, 93, 310
Alw21I GWGCWC 1 cut(s) 95
Alw26I GTCTC 1 cut(s) 439
AoxI GGCC 5 cut(s) 122, 147, 318, 486, 538
ApeKI GCWGC 3 cut(s) 314, 379, 407
AspLEI GCGC 1 cut(s) 33
AspS9I GGNCC 1 cut(s) 148
AsuHPI GGTGA 4 cut(s) 38, 46, 218, 356
BalI TGGCCA 1 cut(s) 488
BanII GRGCYC 1 cut(s) 95
Bbv12I GWGCWC 1 cut(s) 95
BbvI GCAGC 3 cut(s) 301, 391, 394
BccI CCATC 2 cut(s) 78, 323
BceAI ACGGC 1 cut(s) 162
BciT130I CCWGG 4 cut(s) 102, 121, 126, 537
BciVI GTATCC 1 cut(s) 127
BcoDI GTCTC 1 cut(s) 439
BfaI CTAG 1 cut(s) 419
BfuI GTATCC 1 cut(s) 127
BisI GCNGC 4 cut(s) 315, 318, 380, 408
BlsI GCNGC 4 cut(s) 316, 319, 381, 409
Bme1390I CCNGG 4 cut(s) 102, 121, 126, 537
BmgT120I GGNCC 1 cut(s) 148
BmiI GGNNCC 1 cut(s) 424
BmrFI CCNGG 4 cut(s) 102, 121, 126, 537
BsaJI CCNNGG 2 cut(s) 402, 541
Bsc4I CCNNNNNNNGG 1 cut(s) 542
Bse1I ACTGG 2 cut(s) 12, 383
BseBI CCWGG 4 cut(s) 102, 121, 126, 537
BseDI CCNNGG 2 cut(s) 402, 541
BseGI GGATG 1 cut(s) 155
BseLI CCNNNNNNNGG 1 cut(s) 542
BseMII CTCAG 1 cut(s) 530
BseNI ACTGG 2 cut(s) 12, 383
BseRI GAGGAG 1 cut(s) 16
BseX3I CGGCCG 1 cut(s) 318
BseXI GCAGC 3 cut(s) 301, 391, 394
BsgI GTGCAG 1 cut(s) 320
Bsh1236I CGCG 1 cut(s) 31
Bsh1285I CGRYCG 1 cut(s) 321
BshFI GGCC 5 cut(s) 124, 149, 320, 488, 540
BsiEI CGRYCG 1 cut(s) 321
BsiHKAI GWGCWC 1 cut(s) 95
BslI CCNNNNNNNGG 1 cut(s) 542
BsmAI GTCTC 1 cut(s) 439
BsmI GAATGC 1 cut(s) 534
BsnI GGCC 5 cut(s) 124, 149, 320, 488, 540
Bsp1286I GDGCHC 1 cut(s) 95
Bsp143I GATC 1 cut(s) 152
BspACI CCGC 2 cut(s) 63, 317
BspANI GGCC 5 cut(s) 124, 149, 320, 488, 540
BspCNI CTCAG 1 cut(s) 529
BspFNI CGCG 1 cut(s) 31
BspLI GGNNCC 1 cut(s) 424
BsrI ACTGG 2 cut(s) 12, 383
BssECI CCNNGG 2 cut(s) 402, 541
BssMI GATC 1 cut(s) 152
BssT1I CCWWGG 1 cut(s) 541
Bst2UI CCWGG 4 cut(s) 102, 121, 126, 537
Bst4CI ACNGT 2 cut(s) 256, 338
Bst6I CTCTTC 1 cut(s) 470
BstC8I GCNNGC 1 cut(s) 312
BstDEI CTNAG 1 cut(s) 516
BstEII GGTNACC 1 cut(s) 371
BstF5I GGATG 1 cut(s) 155
BstFNI CGCG 1 cut(s) 31
BstHHI GCGC 1 cut(s) 33
BstKTI GATC 1 cut(s) 155
BstMAI GTCTC 1 cut(s) 439
BstMBI GATC 1 cut(s) 152
BstMCI CGRYCG 1 cut(s) 321
BstMWI GCNNNNNNNGC 3 cut(s) 39, 146, 307
BstNI CCWGG 4 cut(s) 102, 121, 126, 537
BstPI GGTNACC 1 cut(s) 371
BstSCI CCNGG 4 cut(s) 100, 119, 124, 535
BstUI CGCG 1 cut(s) 31
BstV1I GCAGC 3 cut(s) 301, 391, 394
BstZI CGGCCG 1 cut(s) 318
BsuI GTATCC 1 cut(s) 127
BsuRI GGCC 5 cut(s) 124, 149, 320, 488, 540
BtsCI GGATG 1 cut(s) 155
BtsI GCAGTG 1 cut(s) 297
BtsIMutI CAGTG 2 cut(s) 19, 297
Cac8I GCNNGC 1 cut(s) 312
CfoI GCGC 1 cut(s) 33
Cfr13I GGNCC 1 cut(s) 148
CseI GACGC 1 cut(s) 473
Csp6I GTAC 2 cut(s) 278, 386
CviAII CATG 1 cut(s) 490
CviQI GTAC 2 cut(s) 278, 386
DdeI CTNAG 1 cut(s) 516
DpnI GATC 1 cut(s) 154
DpnII GATC 1 cut(s) 152
EaeI YGGCCR 2 cut(s) 318, 486
EagI CGGCCG 1 cut(s) 318
Eam1104I CTCTTC 1 cut(s) 470
EarI CTCTTC 1 cut(s) 470
Ecl136II GAGCTC 1 cut(s) 93
EclXI CGGCCG 1 cut(s) 318
Eco130I CCWWGG 1 cut(s) 541
Eco147I AGGCCT 1 cut(s) 540
Eco24I GRGCYC 1 cut(s) 95
Eco52I CGGCCG 1 cut(s) 318
Eco53kI GAGCTC 1 cut(s) 93
Eco57I CTGAAG 1 cut(s) 471
Eco91I GGTNACC 1 cut(s) 371
EcoICRI GAGCTC 1 cut(s) 93
EcoO65I GGTNACC 1 cut(s) 371
EcoRII CCWGG 4 cut(s) 100, 119, 124, 535
EcoT14I CCWWGG 1 cut(s) 541
EcoT38I GRGCYC 1 cut(s) 95
ErhI CCWWGG 1 cut(s) 541
FaeI CATG 1 cut(s) 493
FaiI YATR 7 cut(s) 97, 168, 236, 249, 413, 457, 491
FatI CATG 1 cut(s) 489
Fnu4HI GCNGC 4 cut(s) 315, 318, 380, 408
FokI GGATG 1 cut(s) 142
FriOI GRGCYC 1 cut(s) 95
Fsp4HI GCNGC 4 cut(s) 315, 318, 380, 408
FspBI CTAG 1 cut(s) 419
GlaI GCGC 1 cut(s) 32
GluI GCNGC 4 cut(s) 315, 318, 380, 408
HaeIII GGCC 5 cut(s) 124, 149, 320, 488, 540
HgaI GACGC 1 cut(s) 473
HhaI GCGC 1 cut(s) 33
Hin1II CATG 1 cut(s) 493
Hin6I GCGC 1 cut(s) 31
HinP1I GCGC 1 cut(s) 31
HinfI GANTC 2 cut(s) 51, 59
HphI GGTGA 4 cut(s) 38, 46, 218, 356
Hpy188I TCNGA 1 cut(s) 519
HpyAV CCTTC 2 cut(s) 335, 487
HpyCH4III ACNGT 2 cut(s) 256, 338
HpyCH4V TGCA 2 cut(s) 238, 301
HpyF10VI GCNNNNNNNGC 3 cut(s) 39, 146, 307
HpyF3I CTNAG 1 cut(s) 516
Hsp92II CATG 1 cut(s) 493
HspAI GCGC 1 cut(s) 31
Kzo9I GATC 1 cut(s) 152
LmnI GCTCC 1 cut(s) 422
Lsp1109I GCAGC 3 cut(s) 301, 391, 394
MaeI CTAG 1 cut(s) 419
MaeIII GTNAC 5 cut(s) 332, 358, 371, 445, 506
MalI GATC 1 cut(s) 154
MboI GATC 1 cut(s) 152
MboII GAAGA 1 cut(s) 487
MhlI GDGCHC 1 cut(s) 95
MlsI TGGCCA 1 cut(s) 488
MluNI TGGCCA 1 cut(s) 488
MlyI GAGTC 2 cut(s) 45, 53
MnlI CCTC 5 cut(s) 34, 37, 135, 173, 397
Mox20I TGGCCA 1 cut(s) 488
MscI TGGCCA 1 cut(s) 488
MseI TTAA 2 cut(s) 132, 258
Msp20I TGGCCA 1 cut(s) 488
MspR9I CCNGG 4 cut(s) 102, 121, 126, 537
Mva1269I GAATGC 1 cut(s) 534
MvaI CCWGG 4 cut(s) 102, 121, 126, 537
MvnI CGCG 1 cut(s) 31
MwoI GCNNNNNNNGC 3 cut(s) 39, 146, 307
NdeII GATC 1 cut(s) 152
NlaIII CATG 1 cut(s) 493
NlaIV GGNNCC 1 cut(s) 424
NmeAIII GCCGAG 1 cut(s) 346
PceI AGGCCT 1 cut(s) 540
PctI GAATGC 1 cut(s) 534
PflMI CCANNNNNTGG 1 cut(s) 542
PkrI GCNGC 4 cut(s) 316, 319, 381, 409
PleI GAGTC 2 cut(s) 45, 53
PpsI GAGTC 2 cut(s) 45, 53
Psp124BI GAGCTC 1 cut(s) 95
Psp6I CCWGG 4 cut(s) 100, 119, 124, 535
PspEI GGTNACC 1 cut(s) 371
PspGI CCWGG 4 cut(s) 100, 119, 124, 535
PspN4I GGNNCC 1 cut(s) 424
PspPI GGNCC 1 cut(s) 148
RsaI GTAC 2 cut(s) 279, 387
RsaNI GTAC 2 cut(s) 278, 386
SacI GAGCTC 1 cut(s) 95
SaqAI TTAA 2 cut(s) 132, 258
SatI GCNGC 4 cut(s) 315, 318, 380, 408
Sau3AI GATC 1 cut(s) 152
Sau96I GGNCC 1 cut(s) 148
SchI GAGTC 2 cut(s) 45, 53
ScrFI CCNGG 4 cut(s) 102, 121, 126, 537
SduI GDGCHC 1 cut(s) 95
SetI ASST 6 cut(s) 44, 95, 312, 346, 360, 513
SseBI AGGCCT 1 cut(s) 540
SsiI CCGC 2 cut(s) 63, 317
SspI AATATT 1 cut(s) 225
SspMI CTAG 1 cut(s) 419
SstI GAGCTC 1 cut(s) 95
StuI AGGCCT 1 cut(s) 540
StyD4I CCNGG 4 cut(s) 100, 119, 124, 535
StyI CCWWGG 1 cut(s) 541
TaaI ACNGT 2 cut(s) 256, 338
TaqI TCGA 1 cut(s) 8
TatI WGTACW 1 cut(s) 277
TauI GCSGC 1 cut(s) 320
Tru1I TTAA 2 cut(s) 132, 258
Tru9I TTAA 2 cut(s) 132, 258
TscAI CASTG 2 cut(s) 19, 297
TseI GCWGC 3 cut(s) 314, 379, 407
TspDTI ATGAA 3 cut(s) 213, 264, 506
TspGWI ACGGA 1 cut(s) 71
TspRI CASTG 2 cut(s) 19, 297
Van91I CCANNNNNTGG 1 cut(s) 542
XcmI CCANNNNNNNNNTGG 1 cut(s) 117
XspI CTAG 1 cut(s) 419
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.