Rw6G034950

YbaB/EbfC DNA-binding family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr6
OG0003152
Physical Location & Seq
Forward (+)
59503072 .. 59505879
2808 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw6G034950.1

Sequence Viewer

Length: 558 bp
ATGGCTTCGACCAGTGCTTTATCCTCCTCGCGCCTTTCCAGCTTTCACCGACTCACCGACTCCGCAGACCATCACTCTTTCCGTGAAGTGAGCTCGTATCCAGGCAGTCCAATAGTGTCCTGGCCTGGTATTAAGACTGCGAGGACGGCCCGATCATCCCGTGTTTATGGCTTATTTGGAGGGAAAAAGGATAACAATGAAAAGGGTGATGATAAGGCTGGAATATTCGGTAATATGCAAAATCTGTATGAAACAGTTAAGAAAGCCCAAAATGTAGTACAAGTTGAAGCAGTGCGTGTGCAGAAAGAGCTTGCTGCGGCCGAGTTTGATGGTTACTGTGAAGGTGAGATAATAAAGGTAACGCTTTCTGGTAACCAGCAGCCAGTACGCACAGAGATAACCGAGGCCGCTATGGAACTAGGAGCCGAAAAAGTCTCTCTTTTGGTTACTGAAGCATACAAAGACGCACACCAGAAGAGTGTCGTGGCCATGAAGGAGAGAATGAGTAACCTTGCTCAGAGTTTAGGAATGCCACCAGGCCTTGGCGAACTGAAGTGA
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
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Publication-ready
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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 3 cut(s) 63, 317, 408
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 6 cut(s) 122, 147, 318, 405, 486, 538
ApeKI GCWGC 2 cut(s) 314, 379
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 2 cut(s) 301, 391
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) 108
BcoDI GTCTC 1 cut(s) 439
BfaI CTAG 1 cut(s) 419
BfuI GTATCC 1 cut(s) 108
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 2 cut(s) 301, 391
BsgI GTGCAG 1 cut(s) 320
Bsh1236I CGCG 1 cut(s) 31
Bsh1285I CGRYCG 1 cut(s) 321
BshFI GGCC 6 cut(s) 124, 149, 320, 407, 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 6 cut(s) 124, 149, 320, 407, 488, 540
Bsp1286I GDGCHC 1 cut(s) 95
Bsp143I GATC 1 cut(s) 152
BspACI CCGC 3 cut(s) 63, 317, 408
BspANI GGCC 6 cut(s) 124, 149, 320, 407, 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 2 cut(s) 301, 391
BstZI CGGCCG 1 cut(s) 318
BsuI GTATCC 1 cut(s) 108
BsuRI GGCC 6 cut(s) 124, 149, 320, 407, 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 6 cut(s) 168, 236, 249, 413, 457, 491
FalI AAGNNNNNCTT 2 cut(s) 423, 455
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 6 cut(s) 124, 149, 320, 407, 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 2 cut(s) 301, 391
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 3 cut(s) 63, 317, 408
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 2 cut(s) 320, 410
Tru1I TTAA 2 cut(s) 132, 258
Tru9I TTAA 2 cut(s) 132, 258
TscAI CASTG 2 cut(s) 19, 297
TseI GCWGC 2 cut(s) 314, 379
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.