MD13G1069700.v1.1

Regulates membrane-cell wall junctions and localized cell wall deposition. Required for establishment of the Casparian strip membrane domain (CSD) and the subsequent formation of Casparian strips, a cell wall modification of the root endodermis that determines an apoplastic barrier between the intraorganismal apoplasm and the extraorganismal apoplasm and prevents lateral diffusion

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr13
OG0002644
Physical Location & Seq
Reverse (-)
4882169 .. 4882866
698 bp
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UTR
Exon/CDS
Intron
MD13G1069700.v1.1.491

Sequence Viewer

Length: 372 bp
ATGAAGGCGGGAGGAGGACCAGTTGTTGAGGCTACGAAAGCATCGAAACCGATCCCAAAAATCAAGCTGAGGAAATTGCTCTCCGTCCTAGACTTTACTCTTCGAGTCGTTGGAACATTAGCCAGTGCCATAGCTATGGGAACTAGCAGGGAAACACTTCCCTTCGCTGCGCGGTCAGTTCGCTTCAGGGCTCGGTACAAGGATCTTCCCAGGTTAACGTTCTTTGTGATTACCAATTCTATCGTATGCGTCTACCTTGTGCTTTCCCTTCCTGTATCTATTGTCCATATCATCTGGACTGCAGCAGTAAACAGTAGGATCATCTTGATCATATCCGACACGGTAAAAGACGTGGAAATCATTGCTAACTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0005488 GO:0048037 GO:0051536 GO:0051540
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DUF588

Protein Analysis

124

Amino Acids

13.43

Weight (kDa)

10.53

Isoelectric Point (pI)

24.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CASP_dom PF04535 27 - 115 1.9e-17 Casparian strip membrane protein domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 252
AccII CGCG 1 cut(s) 172
AciI CCGC 2 cut(s) 8, 172
AclI AACGTT 1 cut(s) 218
AclWI GGATC 3 cut(s) 46, 210, 326
AcuI CTGAAG 1 cut(s) 169
AfaI GTAC 1 cut(s) 197
AjiI CACGTC 1 cut(s) 352
AjnI CCWGG 1 cut(s) 209
AluBI AGCT 2 cut(s) 67, 134
AluI AGCT 2 cut(s) 67, 134
AlwI GGATC 3 cut(s) 46, 210, 326
ApeKI GCWGC 2 cut(s) 167, 302
Asp700I GAANNNNTTC 1 cut(s) 156
AspLEI GCGC 1 cut(s) 172
AspS9I GGNCC 1 cut(s) 17
AvaII GGWCC 1 cut(s) 17
BanII GRGCYC 1 cut(s) 193
BbvCI CCTCAGC 1 cut(s) 68
BbvI GCAGC 2 cut(s) 154, 314
BciT130I CCWGG 1 cut(s) 211
BclI TGATCA 1 cut(s) 327
BfaI CTAG 2 cut(s) 89, 144
BfmI CTRYAG 1 cut(s) 300
BisI GCNGC 2 cut(s) 168, 303
BlsI GCNGC 2 cut(s) 169, 304
Bme1390I CCNGG 1 cut(s) 211
Bme18I GGWCC 1 cut(s) 17
BmgBI CACGTC 1 cut(s) 352
BmgT120I GGNCC 1 cut(s) 17
BmrFI CCNGG 1 cut(s) 211
BmsI GCATC 1 cut(s) 50
Bpu10I CCTNAGC 1 cut(s) 68
BsaJI CCNNGG 1 cut(s) 209
BsaXI ACNNNNNCTCC 2 cut(s) 6, 36
Bse1I ACTGG 2 cut(s) 20, 123
Bse3DI GCAATG 1 cut(s) 360
BseBI CCWGG 1 cut(s) 211
BseDI CCNNGG 1 cut(s) 209
BseMI GCAATG 1 cut(s) 360
BseMII CTCAG 1 cut(s) 59
BseNI ACTGG 2 cut(s) 20, 123
BseRI GAGGAG 1 cut(s) 27
BseXI GCAGC 2 cut(s) 154, 314
Bsh1236I CGCG 1 cut(s) 172
Bsp1286I GDGCHC 1 cut(s) 193
Bsp143I GATC 4 cut(s) 51, 202, 318, 327
BspACI CCGC 2 cut(s) 8, 172
BspCNI CTCAG 1 cut(s) 60
BspFNI CGCG 1 cut(s) 172
BspMAI CTGCAG 1 cut(s) 304
BspPI GGATC 3 cut(s) 46, 210, 326
BsrDI GCAATG 1 cut(s) 360
BsrI ACTGG 2 cut(s) 20, 123
BssECI CCNNGG 1 cut(s) 209
BssMI GATC 4 cut(s) 51, 202, 318, 327
Bst2UI CCWGG 1 cut(s) 211
Bst4CI ACNGT 2 cut(s) 314, 343
Bst6I CTCTTC 1 cut(s) 105
BstDEI CTNAG 1 cut(s) 68
BstFNI CGCG 1 cut(s) 172
BstHHI GCGC 1 cut(s) 172
BstKTI GATC 4 cut(s) 54, 205, 321, 330
BstMBI GATC 4 cut(s) 51, 202, 318, 327
BstMWI GCNNNNNNNGC 1 cut(s) 38
BstNI CCWGG 1 cut(s) 211
BstSCI CCNGG 1 cut(s) 209
BstSFI CTRYAG 1 cut(s) 300
BstUI CGCG 1 cut(s) 172
BstV1I GCAGC 2 cut(s) 154, 314
BstX2I RGATCY 1 cut(s) 202
BstXI CCANNNNNNTGG 1 cut(s) 136
BstYI RGATCY 1 cut(s) 202
BtrI CACGTC 1 cut(s) 352
BtsIMutI CAGTG 1 cut(s) 130
CfoI GCGC 1 cut(s) 172
Cfr13I GGNCC 1 cut(s) 17
CseI GACGC 1 cut(s) 238
Csp6I GTAC 1 cut(s) 196
CviJI RGCY 5 cut(s) 32, 67, 122, 134, 191
CviKI_1 RGCY 5 cut(s) 32, 67, 122, 134, 191
CviQI GTAC 1 cut(s) 196
DdeI CTNAG 1 cut(s) 68
DpnI GATC 4 cut(s) 53, 204, 320, 329
DpnII GATC 4 cut(s) 51, 202, 318, 327
Eam1104I CTCTTC 1 cut(s) 105
EarI CTCTTC 1 cut(s) 105
Eco24I GRGCYC 1 cut(s) 193
Eco47I GGWCC 1 cut(s) 17
Eco57I CTGAAG 1 cut(s) 169
EcoRII CCWGG 1 cut(s) 209
EcoT38I GRGCYC 1 cut(s) 193
FaiI YATR 5 cut(s) 131, 137, 247, 288, 332
FbaI TGATCA 1 cut(s) 327
FblI GTMKAC 1 cut(s) 252
Fnu4HI GCNGC 2 cut(s) 168, 303
FriOI GRGCYC 1 cut(s) 193
Fsp4HI GCNGC 2 cut(s) 168, 303
FspBI CTAG 2 cut(s) 89, 144
GlaI GCGC 1 cut(s) 171
GluI GCNGC 2 cut(s) 168, 303
HgaI GACGC 1 cut(s) 238
HhaI GCGC 1 cut(s) 172
Hin6I GCGC 1 cut(s) 170
HinP1I GCGC 1 cut(s) 170
HincII GTYRAC 1 cut(s) 216
HindII GTYRAC 1 cut(s) 216
HinfI GANTC 1 cut(s) 105
HpaI GTTAAC 1 cut(s) 216
Hpy166II GTNNAC 3 cut(s) 216, 253, 310
Hpy188I TCNGA 1 cut(s) 337
Hpy188III TCNNGA 2 cut(s) 295, 325
Hpy8I GTNNAC 3 cut(s) 216, 253, 310
HpyAV CCTTC 2 cut(s) 172, 278
HpyCH4III ACNGT 2 cut(s) 314, 343
HpyCH4IV ACGT 2 cut(s) 218, 351
HpyCH4V TGCA 1 cut(s) 302
HpyF10VI GCNNNNNNNGC 1 cut(s) 38
HpyF3I CTNAG 1 cut(s) 68
HpySE526I ACGT 2 cut(s) 218, 351
HspAI GCGC 1 cut(s) 170
Ksp22I TGATCA 1 cut(s) 327
KspAI GTTAAC 1 cut(s) 216
Kzo9I GATC 4 cut(s) 51, 202, 318, 327
LpnPI CCDG 8 cut(s) 33, 133, 136, 172, 196, 223, 280, 285
Lsp1109I GCAGC 2 cut(s) 154, 314
LweI GCATC 1 cut(s) 50
MaeI CTAG 2 cut(s) 89, 144
MaeII ACGT 2 cut(s) 218, 351
MalI GATC 4 cut(s) 53, 204, 320, 329
MboI GATC 4 cut(s) 51, 202, 318, 327
MboII GAAGA 2 cut(s) 92, 197
MflI RGATCY 1 cut(s) 202
MhlI GDGCHC 1 cut(s) 193
MluCI AATT 2 cut(s) 74, 235
MlyI GAGTC 1 cut(s) 114
MmeI TCCRAC 2 cut(s) 91, 360
MnlI CCTC 4 cut(s) 5, 8, 22, 63
MroXI GAANNNNTTC 1 cut(s) 156
MseI TTAA 1 cut(s) 215
MslI CAYNNNNRTG 1 cut(s) 134
MspR9I CCNGG 1 cut(s) 211
MvaI CCWGG 1 cut(s) 211
MvnI CGCG 1 cut(s) 172
MwoI GCNNNNNNNGC 1 cut(s) 38
NdeII GATC 4 cut(s) 51, 202, 318, 327
PcsI WCGNNNNNNNCGW 1 cut(s) 41
PdmI GAANNNNTTC 1 cut(s) 156
PkrI GCNGC 2 cut(s) 169, 304
PleI GAGTC 1 cut(s) 113
PpsI GAGTC 1 cut(s) 113
Psp1406I AACGTT 1 cut(s) 218
Psp6I CCWGG 1 cut(s) 209
PspGI CCWGG 1 cut(s) 209
PspPI GGNCC 1 cut(s) 17
PstI CTGCAG 1 cut(s) 304
PsuI RGATCY 1 cut(s) 202
RsaI GTAC 1 cut(s) 197
RsaNI GTAC 1 cut(s) 196
RseI CAYNNNNRTG 1 cut(s) 134
SaqAI TTAA 1 cut(s) 215
SatI GCNGC 2 cut(s) 168, 303
Sau3AI GATC 4 cut(s) 51, 202, 318, 327
Sau96I GGNCC 1 cut(s) 17
SchI GAGTC 1 cut(s) 114
ScrFI CCNGG 1 cut(s) 211
SduI GDGCHC 1 cut(s) 193
SetI ASST 6 cut(s) 69, 136, 215, 221, 258, 354
SfaNI GCATC 1 cut(s) 50
SfcI CTRYAG 1 cut(s) 300
SinI GGWCC 1 cut(s) 17
SmiMI CAYNNNNRTG 1 cut(s) 134
Sse9I AATT 2 cut(s) 74, 235
SsiI CCGC 2 cut(s) 8, 172
SspMI CTAG 2 cut(s) 89, 144
StyD4I CCNGG 1 cut(s) 209
TaaI ACNGT 2 cut(s) 314, 343
TaiI ACGT 2 cut(s) 221, 354
TaqI TCGA 2 cut(s) 44, 103
TasI AATT 2 cut(s) 74, 235
Tru1I TTAA 1 cut(s) 215
Tru9I TTAA 1 cut(s) 215
TscAI CASTG 1 cut(s) 130
TseI GCWGC 2 cut(s) 167, 302
TspDTI ATGAA 1 cut(s) 17
TspGWI ACGGA 1 cut(s) 73
TspRI CASTG 1 cut(s) 130
VpaK11BI GGWCC 1 cut(s) 17
XmiI GTMKAC 1 cut(s) 252
XmnI GAANNNNTTC 1 cut(s) 156
XspI CTAG 2 cut(s) 89, 144
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.