RLG00000011438

YbaB/EbfC DNA-binding family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr3
OG0003152
Physical Location & Seq
Reverse (-)
9460105 .. 9462461
2357 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000011438

Sequence Viewer

Length: 561 bp
ATGGCTTCGACCAGTGCTTTATCCTCCTCGCGCCTTTCCAGCTTTCACCGACTCACCGACTCCGCAGACCATCATCACTCTTTCCGTGAAGTGAGCTCTTATCCAGGCAGTCCAATAGTATCCTGGCCTGGTATCAAGACTGCGAGGACGGCCCGATCATCCCGTGTTTATGGCTTATTTGGAGGGAAAAAGGATAACAATGAAAAGGGTGATGATAAGGCTGGAATATTCGGTAATATGCAAAATCTGTATGAAACAGTTAAGAAAGCCCAAAATGTAGTACAAGTTGAAGCAGTGCGTGTGCAGAAAGAGCTTGCTGCGGCCGAGTTTGATGGTTACTGTGAAGGTGAGATAATAAAGGTAACGCTTTCTGGTAACCAGCAGCCAGTACGCACAGAGATAACCGAGGCCGCTATGGAACTAGGAGCCGAAAAAGTCTCTCTTTTGGTTACTGAAGCATACAAAGACGCTCACCAGAAGAGCGTCGTGGCCATGAAGGAGAGAATGAGTAACCTTGCTCAGAGTTTAGGAATGCCACCAGGCCTTGGCGAACTGAAGTGA
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

187

Amino Acids

20.22

Weight (kDa)

7.85

Isoelectric Point (pI)

29.89

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
YbaB_DNA_bd PF02575 88 - 175 6.7e-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) 545
AccII CGCG 1 cut(s) 31
AciI CCGC 3 cut(s) 63, 320, 411
AcoI YGGCCR 2 cut(s) 321, 489
AcuI CTGAAG 1 cut(s) 474
AfaI GTAC 2 cut(s) 282, 390
AfiI CCNNNNNNNGG 1 cut(s) 545
AgsI TTSAA 1 cut(s) 290
AjnI CCWGG 4 cut(s) 103, 122, 127, 538
AluBI AGCT 3 cut(s) 42, 96, 313
AluI AGCT 3 cut(s) 42, 96, 313
Alw21I GWGCWC 1 cut(s) 98
Alw26I GTCTC 1 cut(s) 442
AoxI GGCC 6 cut(s) 125, 150, 321, 408, 489, 541
ApeKI GCWGC 2 cut(s) 317, 382
AspLEI GCGC 1 cut(s) 33
AspS9I GGNCC 1 cut(s) 151
AsuHPI GGTGA 5 cut(s) 38, 46, 221, 359, 464
BalI TGGCCA 1 cut(s) 491
BanII GRGCYC 1 cut(s) 98
Bbv12I GWGCWC 1 cut(s) 98
BbvI GCAGC 2 cut(s) 304, 394
BccI CCATC 2 cut(s) 78, 326
BceAI ACGGC 1 cut(s) 165
BciT130I CCWGG 4 cut(s) 105, 124, 129, 540
BciVI GTATCC 1 cut(s) 130
BcoDI GTCTC 1 cut(s) 442
BfaI CTAG 1 cut(s) 422
BfuI GTATCC 1 cut(s) 130
BisI GCNGC 4 cut(s) 318, 321, 383, 411
BlsI GCNGC 4 cut(s) 319, 322, 384, 412
Bme1390I CCNGG 4 cut(s) 105, 124, 129, 540
BmgT120I GGNCC 1 cut(s) 151
BmiI GGNNCC 1 cut(s) 427
BmrFI CCNGG 4 cut(s) 105, 124, 129, 540
BsaJI CCNNGG 2 cut(s) 405, 544
Bsc4I CCNNNNNNNGG 1 cut(s) 545
Bse1I ACTGG 2 cut(s) 12, 386
BseBI CCWGG 4 cut(s) 105, 124, 129, 540
BseDI CCNNGG 2 cut(s) 405, 544
BseGI GGATG 1 cut(s) 158
BseLI CCNNNNNNNGG 1 cut(s) 545
BseMII CTCAG 1 cut(s) 533
BseNI ACTGG 2 cut(s) 12, 386
BseRI GAGGAG 1 cut(s) 16
BseX3I CGGCCG 1 cut(s) 321
BseXI GCAGC 2 cut(s) 304, 394
BsgI GTGCAG 1 cut(s) 323
Bsh1236I CGCG 1 cut(s) 31
Bsh1285I CGRYCG 1 cut(s) 324
BshFI GGCC 6 cut(s) 127, 152, 323, 410, 491, 543
BsiEI CGRYCG 1 cut(s) 324
BsiHKAI GWGCWC 1 cut(s) 98
BslI CCNNNNNNNGG 1 cut(s) 545
BsmAI GTCTC 1 cut(s) 442
BsmI GAATGC 1 cut(s) 537
BsnI GGCC 6 cut(s) 127, 152, 323, 410, 491, 543
Bsp1286I GDGCHC 1 cut(s) 98
Bsp143I GATC 1 cut(s) 155
BspACI CCGC 3 cut(s) 63, 320, 411
BspANI GGCC 6 cut(s) 127, 152, 323, 410, 491, 543
BspCNI CTCAG 1 cut(s) 532
BspFNI CGCG 1 cut(s) 31
BspLI GGNNCC 1 cut(s) 427
BspQI GCTCTTC 1 cut(s) 473
BsrI ACTGG 2 cut(s) 12, 386
BssECI CCNNGG 2 cut(s) 405, 544
BssMI GATC 1 cut(s) 155
BssT1I CCWWGG 1 cut(s) 544
Bst2UI CCWGG 4 cut(s) 105, 124, 129, 540
Bst4CI ACNGT 2 cut(s) 259, 341
Bst6I CTCTTC 1 cut(s) 473
BstC8I GCNNGC 1 cut(s) 315
BstDEI CTNAG 1 cut(s) 519
BstEII GGTNACC 1 cut(s) 374
BstF5I GGATG 1 cut(s) 158
BstFNI CGCG 1 cut(s) 31
BstHHI GCGC 1 cut(s) 33
BstKTI GATC 1 cut(s) 158
BstMAI GTCTC 1 cut(s) 442
BstMBI GATC 1 cut(s) 155
BstMCI CGRYCG 1 cut(s) 324
BstMWI GCNNNNNNNGC 3 cut(s) 39, 149, 310
BstNI CCWGG 4 cut(s) 105, 124, 129, 540
BstPI GGTNACC 1 cut(s) 374
BstSCI CCNGG 4 cut(s) 103, 122, 127, 538
BstUI CGCG 1 cut(s) 31
BstV1I GCAGC 2 cut(s) 304, 394
BstZI CGGCCG 1 cut(s) 321
BsuI GTATCC 1 cut(s) 130
BsuRI GGCC 6 cut(s) 127, 152, 323, 410, 491, 543
BtsCI GGATG 1 cut(s) 158
BtsI GCAGTG 1 cut(s) 300
BtsIMutI CAGTG 2 cut(s) 19, 300
Cac8I GCNNGC 1 cut(s) 315
CfoI GCGC 1 cut(s) 33
Cfr13I GGNCC 1 cut(s) 151
CseI GACGC 2 cut(s) 472, 476
Csp6I GTAC 2 cut(s) 281, 389
CviAII CATG 1 cut(s) 493
CviQI GTAC 2 cut(s) 281, 389
DdeI CTNAG 1 cut(s) 519
DpnI GATC 1 cut(s) 157
DpnII GATC 1 cut(s) 155
EaeI YGGCCR 2 cut(s) 321, 489
EagI CGGCCG 1 cut(s) 321
Eam1104I CTCTTC 1 cut(s) 473
EarI CTCTTC 1 cut(s) 473
Ecl136II GAGCTC 1 cut(s) 96
EclXI CGGCCG 1 cut(s) 321
Eco130I CCWWGG 1 cut(s) 544
Eco147I AGGCCT 1 cut(s) 543
Eco24I GRGCYC 1 cut(s) 98
Eco52I CGGCCG 1 cut(s) 321
Eco53kI GAGCTC 1 cut(s) 96
Eco57I CTGAAG 1 cut(s) 474
Eco91I GGTNACC 1 cut(s) 374
EcoICRI GAGCTC 1 cut(s) 96
EcoO65I GGTNACC 1 cut(s) 374
EcoRII CCWGG 4 cut(s) 103, 122, 127, 538
EcoT14I CCWWGG 1 cut(s) 544
EcoT38I GRGCYC 1 cut(s) 98
ErhI CCWWGG 1 cut(s) 544
FaeI CATG 1 cut(s) 496
FaiI YATR 6 cut(s) 171, 239, 252, 416, 460, 494
FalI AAGNNNNNCTT 2 cut(s) 426, 458
FatI CATG 1 cut(s) 492
Fnu4HI GCNGC 4 cut(s) 318, 321, 383, 411
FokI GGATG 1 cut(s) 145
FriOI GRGCYC 1 cut(s) 98
Fsp4HI GCNGC 4 cut(s) 318, 321, 383, 411
FspBI CTAG 1 cut(s) 422
GlaI GCGC 1 cut(s) 32
GluI GCNGC 4 cut(s) 318, 321, 383, 411
HaeIII GGCC 6 cut(s) 127, 152, 323, 410, 491, 543
HgaI GACGC 2 cut(s) 472, 476
HhaI GCGC 1 cut(s) 33
Hin1II CATG 1 cut(s) 496
Hin6I GCGC 1 cut(s) 31
HinP1I GCGC 1 cut(s) 31
HinfI GANTC 2 cut(s) 51, 59
HphI GGTGA 5 cut(s) 38, 46, 221, 359, 464
Hpy188I TCNGA 1 cut(s) 522
Hpy188III TCNNGA 1 cut(s) 136
Hpy99I CGWCG 1 cut(s) 488
HpyAV CCTTC 2 cut(s) 338, 490
HpyCH4III ACNGT 2 cut(s) 259, 341
HpyCH4V TGCA 2 cut(s) 241, 304
HpyF10VI GCNNNNNNNGC 3 cut(s) 39, 149, 310
HpyF3I CTNAG 1 cut(s) 519
Hsp92II CATG 1 cut(s) 496
HspAI GCGC 1 cut(s) 31
Kzo9I GATC 1 cut(s) 155
LguI GCTCTTC 1 cut(s) 473
LmnI GCTCC 1 cut(s) 425
Lsp1109I GCAGC 2 cut(s) 304, 394
MaeI CTAG 1 cut(s) 422
MaeIII GTNAC 5 cut(s) 335, 361, 374, 448, 509
MalI GATC 1 cut(s) 157
MboI GATC 1 cut(s) 155
MboII GAAGA 1 cut(s) 490
MhlI GDGCHC 1 cut(s) 98
MlsI TGGCCA 1 cut(s) 491
MluNI TGGCCA 1 cut(s) 491
MlyI GAGTC 2 cut(s) 45, 53
MnlI CCTC 5 cut(s) 34, 37, 138, 176, 400
Mox20I TGGCCA 1 cut(s) 491
MscI TGGCCA 1 cut(s) 491
MseI TTAA 1 cut(s) 261
Msp20I TGGCCA 1 cut(s) 491
MspR9I CCNGG 4 cut(s) 105, 124, 129, 540
Mva1269I GAATGC 1 cut(s) 537
MvaI CCWGG 4 cut(s) 105, 124, 129, 540
MvnI CGCG 1 cut(s) 31
MwoI GCNNNNNNNGC 3 cut(s) 39, 149, 310
NdeII GATC 1 cut(s) 155
NlaIII CATG 1 cut(s) 496
NlaIV GGNNCC 1 cut(s) 427
NmeAIII GCCGAG 1 cut(s) 349
PceI AGGCCT 1 cut(s) 543
PciSI GCTCTTC 1 cut(s) 473
PctI GAATGC 1 cut(s) 537
PflMI CCANNNNNTGG 1 cut(s) 545
PkrI GCNGC 4 cut(s) 319, 322, 384, 412
PleI GAGTC 2 cut(s) 45, 53
PpsI GAGTC 2 cut(s) 45, 53
Psp124BI GAGCTC 1 cut(s) 98
Psp6I CCWGG 4 cut(s) 103, 122, 127, 538
PspEI GGTNACC 1 cut(s) 374
PspGI CCWGG 4 cut(s) 103, 122, 127, 538
PspN4I GGNNCC 1 cut(s) 427
PspPI GGNCC 1 cut(s) 151
RsaI GTAC 2 cut(s) 282, 390
RsaNI GTAC 2 cut(s) 281, 389
SacI GAGCTC 1 cut(s) 98
SapI GCTCTTC 1 cut(s) 473
SaqAI TTAA 1 cut(s) 261
SatI GCNGC 4 cut(s) 318, 321, 383, 411
Sau3AI GATC 1 cut(s) 155
Sau96I GGNCC 1 cut(s) 151
SchI GAGTC 2 cut(s) 45, 53
ScrFI CCNGG 4 cut(s) 105, 124, 129, 540
SduI GDGCHC 1 cut(s) 98
SetI ASST 6 cut(s) 44, 98, 315, 349, 363, 516
SseBI AGGCCT 1 cut(s) 543
SsiI CCGC 3 cut(s) 63, 320, 411
SspI AATATT 1 cut(s) 228
SspMI CTAG 1 cut(s) 422
SstI GAGCTC 1 cut(s) 98
StuI AGGCCT 1 cut(s) 543
StyD4I CCNGG 4 cut(s) 103, 122, 127, 538
StyI CCWWGG 1 cut(s) 544
TaaI ACNGT 2 cut(s) 259, 341
TaqI TCGA 1 cut(s) 8
TatI WGTACW 1 cut(s) 280
TauI GCSGC 2 cut(s) 323, 413
Tru1I TTAA 1 cut(s) 261
Tru9I TTAA 1 cut(s) 261
TscAI CASTG 2 cut(s) 19, 300
TseI GCWGC 2 cut(s) 317, 382
TspDTI ATGAA 3 cut(s) 216, 267, 509
TspGWI ACGGA 1 cut(s) 74
TspRI CASTG 2 cut(s) 19, 300
Van91I CCANNNNNTGG 1 cut(s) 545
XcmI CCANNNNNNNNNTGG 1 cut(s) 120
XspI CTAG 1 cut(s) 422
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.