MD15G1041000.v1.1

YbaB/EbfC DNA-binding family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr15
OG0003152
Physical Location & Seq
Reverse (-)
2877873 .. 2880765
2893 bp
Loading structure...
UTR
Exon/CDS
Intron
MD15G1041000.v1.1.491

Sequence Viewer

Length: 570 bp
ATGTCGTCGACCAGTGCTTTAAGCTCCCGGCTTTCCAACTTCCACCTCCTCACCGAATCCCAGGACCACCTCACTTTCCGTGAAGGAGTAAACTCACGTCCAGCCTGTCCTTCAATTGTTTCTTGGCCTGGTATTAAGACTGGGAGGACACCCCGTTCGTCCCGTGTGTATGGCTTATTTGGAGGAGGGAAAAAGGGTAACAATGAAAGGGGTGATGATGCAGCTTCAAAGGCAGGAGTTTTCAGTATGCAAAATCTGTATGAGACAGTTAAGCAAGCTCAAAATGTAGTACAAGTTGAAGCAGTGCGTGTGCAGAAAGAGCTTGCTGCGGCAGTGTTTGATGGTTACTGTGAAGGTGAGATTATAAAGGTAACGCTTTCTGGTAACCAGCAACCTGTACGCACTGAGATAACTGAGGCTGCTATGGAACTAGGAGCAGAAAAAGTCTCTGAATTGGTGACGGAAGCATACAAAGATGCGCATCAGAAGAGTGTCATGGCCATGAAGGATAGAATGAGCAACCTTGCCCAGAGTATAGGAATGCCAAAAGCTCTCGGTGAATTGAAATGA
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

190

Amino Acids

20.47

Weight (kDa)

8.52

Isoelectric Point (pI)

38.78

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
YbaB_DNA_bd PF02575 91 - 177 1.1e-13 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)
AanI TTATAA 1 cut(s) 365
Acc16I TGCGCA 1 cut(s) 480
AccI GTMKAC 1 cut(s) 8
AciI CCGC 1 cut(s) 329
AcoI YGGCCR 1 cut(s) 498
AfaI GTAC 2 cut(s) 291, 399
AgsI TTSAA 4 cut(s) 114, 228, 299, 565
AjiI CACGTC 1 cut(s) 98
AjnI CCWGG 2 cut(s) 60, 127
AloI GAACNNNNNNTCC 2 cut(s) 139, 171
AluBI AGCT 5 cut(s) 24, 224, 278, 322, 551
AluI AGCT 5 cut(s) 24, 224, 278, 322, 551
Alw26I GTCTC 2 cut(s) 257, 451
AoxI GGCC 2 cut(s) 125, 498
ApeKI GCWGC 3 cut(s) 221, 326, 419
ArsI GACNNNNNNTTYG 2 cut(s) 139, 171
AspLEI GCGC 1 cut(s) 481
AspS9I GGNCC 1 cut(s) 64
AsuC2I CCSGG 1 cut(s) 28
AsuHPI GGTGA 5 cut(s) 43, 224, 368, 469, 569
AvaII GGWCC 1 cut(s) 64
BalI TGGCCA 1 cut(s) 500
BbvI GCAGC 3 cut(s) 233, 313, 406
BccI CCATC 1 cut(s) 335
BciT130I CCWGG 2 cut(s) 62, 129
BcnI CCSGG 1 cut(s) 28
BcoDI GTCTC 2 cut(s) 257, 451
BfaI CTAG 1 cut(s) 431
BisI GCNGC 4 cut(s) 222, 327, 330, 420
BlsI GCNGC 4 cut(s) 223, 328, 331, 421
Bme1390I CCNGG 3 cut(s) 28, 62, 129
Bme18I GGWCC 1 cut(s) 64
BmgBI CACGTC 1 cut(s) 98
BmgT120I GGNCC 1 cut(s) 64
BmrFI CCNGG 3 cut(s) 28, 62, 129
BmrI ACTGGG 1 cut(s) 150
BmsI GCATC 3 cut(s) 208, 466, 490
BmuI ACTGGG 1 cut(s) 150
BpuMI CCSGG 1 cut(s) 28
BsaBI GATNNNNATC 1 cut(s) 480
BsaJI CCNNGG 1 cut(s) 60
Bse1I ACTGG 2 cut(s) 12, 145
Bse8I GATNNNNATC 1 cut(s) 480
BseBI CCWGG 2 cut(s) 62, 129
BseDI CCNNGG 1 cut(s) 60
BseJI GATNNNNATC 1 cut(s) 480
BseMII CTCAG 2 cut(s) 396, 405
BseNI ACTGG 2 cut(s) 12, 145
BseRI GAGGAG 2 cut(s) 38, 198
BseXI GCAGC 3 cut(s) 233, 313, 406
BsgI GTGCAG 1 cut(s) 332
BshFI GGCC 2 cut(s) 127, 500
BsiSI CCGG 1 cut(s) 28
BslFI GGGAC 1 cut(s) 145
BsmAI GTCTC 2 cut(s) 257, 451
BsmFI GGGAC 1 cut(s) 145
BsmI GAATGC 1 cut(s) 546
BsnI GGCC 2 cut(s) 127, 500
BspACI CCGC 1 cut(s) 329
BspANI GGCC 2 cut(s) 127, 500
BspCNI CTCAG 2 cut(s) 397, 406
BsrI ACTGG 2 cut(s) 12, 145
BssECI CCNNGG 1 cut(s) 60
Bst2UI CCWGG 2 cut(s) 62, 129
Bst4CI ACNGT 2 cut(s) 268, 350
Bst6I CTCTTC 1 cut(s) 482
BstC8I GCNNGC 2 cut(s) 276, 324
BstDEI CTNAG 2 cut(s) 405, 414
BstEII GGTNACC 1 cut(s) 383
BstHHI GCGC 1 cut(s) 481
BstMAI GTCTC 2 cut(s) 257, 451
BstMWI GCNNNNNNNGC 2 cut(s) 230, 319
BstNI CCWGG 2 cut(s) 62, 129
BstPI GGTNACC 1 cut(s) 383
BstSCI CCNGG 3 cut(s) 26, 60, 127
BstV1I GCAGC 3 cut(s) 233, 313, 406
BsuRI GGCC 2 cut(s) 127, 500
BtrI CACGTC 1 cut(s) 98
BtsI GCAGTG 2 cut(s) 309, 339
BtsIMutI CAGTG 4 cut(s) 19, 309, 339, 402
Cac8I GCNNGC 2 cut(s) 276, 324
CfoI GCGC 1 cut(s) 481
Cfr13I GGNCC 1 cut(s) 64
Csp6I GTAC 2 cut(s) 290, 398
CviAII CATG 2 cut(s) 496, 502
CviQI GTAC 2 cut(s) 290, 398
DdeI CTNAG 2 cut(s) 405, 414
EaeI YGGCCR 1 cut(s) 498
Eam1104I CTCTTC 1 cut(s) 482
EarI CTCTTC 1 cut(s) 482
Eco47I GGWCC 1 cut(s) 64
Eco91I GGTNACC 1 cut(s) 383
EcoO65I GGTNACC 1 cut(s) 383
EcoRII CCWGG 2 cut(s) 60, 127
FaeI CATG 2 cut(s) 499, 505
FaiI YATR 9 cut(s) 171, 248, 261, 365, 425, 469, 497, 503, 536
FaqI GGGAC 1 cut(s) 145
FatI CATG 2 cut(s) 495, 501
FblI GTMKAC 1 cut(s) 8
Fnu4HI GCNGC 4 cut(s) 222, 327, 330, 420
Fsp4HI GCNGC 4 cut(s) 222, 327, 330, 420
FspAI RTGCGCAY 1 cut(s) 480
FspBI CTAG 1 cut(s) 431
FspI TGCGCA 1 cut(s) 480
GlaI GCGC 1 cut(s) 480
GluI GCNGC 4 cut(s) 222, 327, 330, 420
HaeIII GGCC 2 cut(s) 127, 500
HapII CCGG 1 cut(s) 28
HhaI GCGC 1 cut(s) 481
Hin1II CATG 2 cut(s) 499, 505
Hin6I GCGC 1 cut(s) 479
HinP1I GCGC 1 cut(s) 479
HincII GTYRAC 1 cut(s) 9
HindII GTYRAC 1 cut(s) 9
HinfI GANTC 1 cut(s) 56
HpaII CCGG 1 cut(s) 28
HphI GGTGA 5 cut(s) 43, 224, 368, 469, 569
Hpy166II GTNNAC 2 cut(s) 9, 91
Hpy188I TCNGA 2 cut(s) 451, 486
Hpy8I GTNNAC 2 cut(s) 9, 91
Hpy99I CGWCG 1 cut(s) 10
HpyAV CCTTC 4 cut(s) 77, 120, 347, 499
HpyCH4III ACNGT 2 cut(s) 268, 350
HpyCH4IV ACGT 1 cut(s) 97
HpyCH4V TGCA 3 cut(s) 221, 250, 313
HpyF10VI GCNNNNNNNGC 2 cut(s) 230, 319
HpyF3I CTNAG 2 cut(s) 405, 414
HpySE526I ACGT 1 cut(s) 97
Hsp92II CATG 2 cut(s) 499, 505
HspAI GCGC 1 cut(s) 479
LmnI GCTCC 2 cut(s) 29, 434
Lsp1109I GCAGC 3 cut(s) 233, 313, 406
LweI GCATC 3 cut(s) 208, 466, 490
MaeI CTAG 1 cut(s) 431
MaeII ACGT 1 cut(s) 97
MaeIII GTNAC 5 cut(s) 197, 344, 370, 383, 457
MboII GAAGA 1 cut(s) 499
MfeI CAATTG 1 cut(s) 114
MlsI TGGCCA 1 cut(s) 500
MluCI AATT 3 cut(s) 114, 452, 560
MluNI TGGCCA 1 cut(s) 500
MmeI TCCRAC 1 cut(s) 60
MnlI CCTC 7 cut(s) 56, 59, 80, 138, 176, 179, 409
Mox20I TGGCCA 1 cut(s) 500
MscI TGGCCA 1 cut(s) 500
MseI TTAA 3 cut(s) 20, 135, 270
MslI CAYNNNNRTG 1 cut(s) 500
Msp20I TGGCCA 1 cut(s) 500
MspI CCGG 1 cut(s) 28
MspR9I CCNGG 3 cut(s) 28, 62, 129
MunI CAATTG 1 cut(s) 114
Mva1269I GAATGC 1 cut(s) 546
MvaI CCWGG 2 cut(s) 62, 129
MwoI GCNNNNNNNGC 2 cut(s) 230, 319
NciI CCSGG 1 cut(s) 28
NlaIII CATG 2 cut(s) 499, 505
NmuCI GTSAC 1 cut(s) 457
NsbI TGCGCA 1 cut(s) 480
PctI GAATGC 1 cut(s) 546
PfeI GAWTC 1 cut(s) 56
PkrI GCNGC 4 cut(s) 223, 328, 331, 421
PsiI TTATAA 1 cut(s) 365
Psp6I CCWGG 2 cut(s) 60, 127
PspEI GGTNACC 1 cut(s) 383
PspGI CCWGG 2 cut(s) 60, 127
PspPI GGNCC 1 cut(s) 64
RsaI GTAC 2 cut(s) 291, 399
RsaNI GTAC 2 cut(s) 290, 398
RseI CAYNNNNRTG 1 cut(s) 500
SalI GTCGAC 1 cut(s) 7
SaqAI TTAA 3 cut(s) 20, 135, 270
SatI GCNGC 4 cut(s) 222, 327, 330, 420
Sau96I GGNCC 1 cut(s) 64
ScrFI CCNGG 3 cut(s) 28, 62, 129
SfaNI GCATC 3 cut(s) 208, 466, 490
SinI GGWCC 1 cut(s) 64
SmiMI CAYNNNNRTG 1 cut(s) 500
Sse9I AATT 3 cut(s) 114, 452, 560
SsiI CCGC 1 cut(s) 329
SspMI CTAG 1 cut(s) 431
StyD4I CCNGG 3 cut(s) 26, 60, 127
TaaI ACNGT 2 cut(s) 268, 350
TaiI ACGT 1 cut(s) 100
TaqI TCGA 1 cut(s) 8
TasI AATT 3 cut(s) 114, 452, 560
TatI WGTACW 1 cut(s) 289
TauI GCSGC 1 cut(s) 332
TfiI GAWTC 1 cut(s) 56
Tru1I TTAA 3 cut(s) 20, 135, 270
Tru9I TTAA 3 cut(s) 20, 135, 270
TscAI CASTG 4 cut(s) 19, 309, 339, 409
TseFI GTSAC 1 cut(s) 457
TseI GCWGC 3 cut(s) 221, 326, 419
Tsp45I GTSAC 1 cut(s) 457
TspDTI ATGAA 2 cut(s) 219, 518
TspGWI ACGGA 2 cut(s) 68, 476
TspRI CASTG 4 cut(s) 19, 309, 339, 409
VpaK11BI GGWCC 1 cut(s) 64
XmiI GTMKAC 1 cut(s) 8
XspI CTAG 1 cut(s) 431
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.