MD16G1070000.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
Chr16
OG0002644
Physical Location & Seq
Reverse (-)
4921351 .. 4922562
1212 bp
Loading structure...
UTR
Exon/CDS
Intron
MD16G1070000.v1.1.491

Sequence Viewer

Length: 567 bp
ATGAAGGCAGGAGGAGGACCAGTTGTTAAGTTTACTGAAGCCTCGAAACCGATCCCGAAAATCAAGGCGAGCAGAGTACTCGCTGTTCTAGACTTCACTCTTCGAGTCGTTGCAGTCCTCGGAACATTAGCTAGTGCCATAGCTATGGGAACTAGCAGGGAAACACTTCCCTTCGCCACGCGGTTTATTCGCTTCAGGGCTCGGTACAAGGATCTTCCCACGTTAACGTTCTTTGTGATGACCAATTCAATCGTATGTGCCTACCTTGTGCTTTCCCTTCCTGTATCTATTGTCCATATCATCTGGACTGCAGCAGTAAACAGTAGGATCATCTTGATCATCTCGGACACGGTGATGATGGGGCTTGTTACTGCCGGAGCTTCAGCAGCTACAGCCATAGTGTACCTGGCGCACTACGGGAACCCCAGCACCAACTGGTTCGCATTCTGTCAGCAGTTCAACAGCTTCTGTGGGCGCATTTCGGGGTCTCTCATTGGCTCCTTCATTGCCATAACTGTACTTCTACTGCTAATCATCATGTCATCGGTGGCAATTTCTCGACGCTGA
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

189

Amino Acids

20.25

Weight (kDa)

10.53

Isoelectric Point (pI)

26.02

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CASP_dom PF04535 25 - 172 5.1e-44 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 181
AciI CCGC 1 cut(s) 181
AclI AACGTT 1 cut(s) 227
AclWI GGATC 3 cut(s) 46, 219, 335
AcuI CTGAAG 3 cut(s) 57, 178, 366
AfaI GTAC 4 cut(s) 78, 206, 404, 519
AgsI TTSAA 2 cut(s) 249, 460
AjnI CCWGG 1 cut(s) 405
AluBI AGCT 5 cut(s) 131, 143, 380, 389, 465
AluI AGCT 5 cut(s) 131, 143, 380, 389, 465
Alw26I GTCTC 1 cut(s) 492
AlwI GGATC 3 cut(s) 46, 219, 335
AlwNI CAGNNNCTG 1 cut(s) 468
ApeKI GCWGC 2 cut(s) 311, 386
Asp700I GAANNNNTTC 1 cut(s) 165
AspLEI GCGC 2 cut(s) 412, 477
AspS9I GGNCC 1 cut(s) 17
AsuHPI GGTGA 1 cut(s) 364
AvaII GGWCC 1 cut(s) 17
BanII GRGCYC 1 cut(s) 202
BbvI GCAGC 2 cut(s) 323, 398
BccI CCATC 1 cut(s) 352
BcgI CGANNNNNNTGC 2 cut(s) 61, 95
BciT130I CCWGG 1 cut(s) 407
BclI TGATCA 1 cut(s) 336
BcoDI GTCTC 1 cut(s) 492
BfaI CTAG 3 cut(s) 89, 132, 153
BfmI CTRYAG 2 cut(s) 309, 390
BisI GCNGC 2 cut(s) 312, 387
BlsI GCNGC 2 cut(s) 313, 388
BmcAI AGTACT 1 cut(s) 78
Bme1390I CCNGG 1 cut(s) 407
Bme18I GGWCC 1 cut(s) 17
BmgT120I GGNCC 1 cut(s) 17
BmiI GGNNCC 2 cut(s) 422, 499
BmrFI CCNGG 1 cut(s) 407
BsaI GGTCTC 1 cut(s) 492
BsaJI CCNNGG 1 cut(s) 118
BsaXI ACNNNNNCTCC 2 cut(s) 6, 36
Bse1I ACTGG 2 cut(s) 20, 440
Bse3DI GCAATG 1 cut(s) 504
BseBI CCWGG 1 cut(s) 407
BseDI CCNNGG 1 cut(s) 118
BseMI GCAATG 1 cut(s) 504
BseNI ACTGG 2 cut(s) 20, 440
BseRI GAGGAG 1 cut(s) 27
BseXI GCAGC 2 cut(s) 323, 398
BseYI CCCAGC 1 cut(s) 425
Bsh1236I CGCG 1 cut(s) 181
BsiSI CCGG 1 cut(s) 375
BsmAI GTCTC 1 cut(s) 492
BsmI GAATGC 1 cut(s) 443
Bso31I GGTCTC 1 cut(s) 492
Bsp1286I GDGCHC 1 cut(s) 202
Bsp143I GATC 4 cut(s) 51, 211, 327, 336
BspACI CCGC 1 cut(s) 181
BspFNI CGCG 1 cut(s) 181
BspLI GGNNCC 2 cut(s) 422, 499
BspMAI CTGCAG 1 cut(s) 313
BspPI GGATC 3 cut(s) 46, 219, 335
BspTNI GGTCTC 1 cut(s) 492
BsrDI GCAATG 1 cut(s) 504
BsrI ACTGG 2 cut(s) 20, 440
BssECI CCNNGG 1 cut(s) 118
BssMI GATC 4 cut(s) 51, 211, 327, 336
Bst2UI CCWGG 1 cut(s) 407
Bst4CI ACNGT 3 cut(s) 323, 352, 517
Bst6I CTCTTC 1 cut(s) 105
BstC8I GCNNGC 1 cut(s) 70
BstFNI CGCG 1 cut(s) 181
BstHHI GCGC 2 cut(s) 412, 477
BstKTI GATC 4 cut(s) 54, 214, 330, 339
BstMAI GTCTC 1 cut(s) 492
BstMBI GATC 4 cut(s) 51, 211, 327, 336
BstMWI GCNNNNNNNGC 2 cut(s) 386, 392
BstNI CCWGG 1 cut(s) 407
BstSCI CCNGG 1 cut(s) 405
BstSFI CTRYAG 2 cut(s) 309, 390
BstUI CGCG 1 cut(s) 181
BstV1I GCAGC 2 cut(s) 323, 398
BstX2I RGATCY 1 cut(s) 211
BstXI CCANNNNNNTGG 1 cut(s) 145
BstYI RGATCY 1 cut(s) 211
Cac8I GCNNGC 1 cut(s) 70
CaiI CAGNNNCTG 1 cut(s) 468
CfoI GCGC 2 cut(s) 412, 477
Cfr13I GGNCC 1 cut(s) 17
Csp6I GTAC 4 cut(s) 77, 205, 403, 518
CviAII CATG 1 cut(s) 538
CviQI GTAC 4 cut(s) 77, 205, 403, 518
DpnI GATC 4 cut(s) 53, 213, 329, 338
DpnII GATC 4 cut(s) 51, 211, 327, 336
Eam1104I CTCTTC 1 cut(s) 105
EarI CTCTTC 1 cut(s) 105
Eco24I GRGCYC 1 cut(s) 202
Eco31I GGTCTC 1 cut(s) 492
Eco47I GGWCC 1 cut(s) 17
Eco57I CTGAAG 3 cut(s) 57, 178, 366
EcoRII CCWGG 1 cut(s) 405
EcoT38I GRGCYC 1 cut(s) 202
FaeI CATG 1 cut(s) 541
FaiI YATR 7 cut(s) 140, 146, 256, 297, 398, 512, 539
FatI CATG 1 cut(s) 537
FbaI TGATCA 1 cut(s) 336
Fnu4HI GCNGC 2 cut(s) 312, 387
FriOI GRGCYC 1 cut(s) 202
Fsp4HI GCNGC 2 cut(s) 312, 387
FspBI CTAG 3 cut(s) 89, 132, 153
GlaI GCGC 2 cut(s) 411, 476
GluI GCNGC 2 cut(s) 312, 387
GsaI CCCAGC 1 cut(s) 429
HapII CCGG 1 cut(s) 375
HhaI GCGC 2 cut(s) 412, 477
Hin1II CATG 1 cut(s) 541
Hin6I GCGC 2 cut(s) 410, 475
HinP1I GCGC 2 cut(s) 410, 475
HincII GTYRAC 1 cut(s) 225
HindII GTYRAC 1 cut(s) 225
HinfI GANTC 1 cut(s) 105
HpaI GTTAAC 1 cut(s) 225
HpaII CCGG 1 cut(s) 375
HphI GGTGA 1 cut(s) 364
Hpy166II GTNNAC 4 cut(s) 33, 225, 319, 403
Hpy188I TCNGA 2 cut(s) 122, 346
Hpy188III TCNNGA 5 cut(s) 55, 89, 304, 334, 558
Hpy8I GTNNAC 4 cut(s) 33, 225, 319, 403
Hpy99I CGWCG 1 cut(s) 564
HpyAV CCTTC 3 cut(s) 181, 287, 511
HpyCH4III ACNGT 3 cut(s) 323, 352, 517
HpyCH4IV ACGT 2 cut(s) 221, 227
HpyCH4V TGCA 2 cut(s) 113, 311
HpyF10VI GCNNNNNNNGC 2 cut(s) 386, 392
HpySE526I ACGT 2 cut(s) 221, 227
Hsp92II CATG 1 cut(s) 541
HspAI GCGC 2 cut(s) 410, 475
Ksp22I TGATCA 1 cut(s) 336
KspAI GTTAAC 1 cut(s) 225
Kzo9I GATC 4 cut(s) 51, 211, 327, 336
LmnI GCTCC 2 cut(s) 377, 503
Lsp1109I GCAGC 2 cut(s) 323, 398
MaeI CTAG 3 cut(s) 89, 132, 153
MaeII ACGT 2 cut(s) 221, 227
MaeIII GTNAC 1 cut(s) 367
MalI GATC 4 cut(s) 53, 213, 329, 338
MboI GATC 4 cut(s) 51, 211, 327, 336
MboII GAAGA 2 cut(s) 92, 206
MflI RGATCY 1 cut(s) 211
MhlI GDGCHC 1 cut(s) 202
MluCI AATT 2 cut(s) 244, 552
MlyI GAGTC 1 cut(s) 114
MnlI CCTC 4 cut(s) 5, 8, 52, 128
MroXI GAANNNNTTC 1 cut(s) 165
MseI TTAA 2 cut(s) 27, 224
MslI CAYNNNNRTG 2 cut(s) 143, 353
MspI CCGG 1 cut(s) 375
MspR9I CCNGG 1 cut(s) 407
Mva1269I GAATGC 1 cut(s) 443
MvaI CCWGG 1 cut(s) 407
MvnI CGCG 1 cut(s) 181
MwoI GCNNNNNNNGC 2 cut(s) 386, 392
NdeII GATC 4 cut(s) 51, 211, 327, 336
NlaIII CATG 1 cut(s) 541
NlaIV GGNNCC 2 cut(s) 422, 499
PctI GAATGC 1 cut(s) 443
PdmI GAANNNNTTC 1 cut(s) 165
PkrI GCNGC 2 cut(s) 313, 388
PleI GAGTC 1 cut(s) 113
PpsI GAGTC 1 cut(s) 113
Psp1406I AACGTT 1 cut(s) 227
Psp6I CCWGG 1 cut(s) 405
PspFI CCCAGC 1 cut(s) 425
PspGI CCWGG 1 cut(s) 405
PspN4I GGNNCC 2 cut(s) 422, 499
PspPI GGNCC 1 cut(s) 17
PsrI GAACNNNNNNTAC 2 cut(s) 69, 101
PstI CTGCAG 1 cut(s) 313
PstNI CAGNNNCTG 1 cut(s) 468
PsuI RGATCY 1 cut(s) 211
RsaI GTAC 4 cut(s) 78, 206, 404, 519
RsaNI GTAC 4 cut(s) 77, 205, 403, 518
RseI CAYNNNNRTG 2 cut(s) 143, 353
SaqAI TTAA 2 cut(s) 27, 224
SatI GCNGC 2 cut(s) 312, 387
Sau3AI GATC 4 cut(s) 51, 211, 327, 336
Sau96I GGNCC 1 cut(s) 17
ScaI AGTACT 1 cut(s) 78
SchI GAGTC 1 cut(s) 114
ScrFI CCNGG 1 cut(s) 407
SduI GDGCHC 1 cut(s) 202
SetI ASST 9 cut(s) 133, 145, 224, 230, 267, 382, 391, 408, 467
SfcI CTRYAG 2 cut(s) 309, 390
SinI GGWCC 1 cut(s) 17
SmiMI CAYNNNNRTG 2 cut(s) 143, 353
Sse9I AATT 2 cut(s) 244, 552
SsiI CCGC 1 cut(s) 181
SspMI CTAG 3 cut(s) 89, 132, 153
StyD4I CCNGG 1 cut(s) 405
TaaI ACNGT 3 cut(s) 323, 352, 517
TaiI ACGT 2 cut(s) 224, 230
TaqI TCGA 3 cut(s) 44, 103, 559
TasI AATT 2 cut(s) 244, 552
TatI WGTACW 2 cut(s) 76, 517
Tru1I TTAA 2 cut(s) 27, 224
Tru9I TTAA 2 cut(s) 27, 224
TseI GCWGC 2 cut(s) 311, 386
TspDTI ATGAA 2 cut(s) 17, 493
VpaK11BI GGWCC 1 cut(s) 17
XbaI TCTAGA 1 cut(s) 88
XcmI CCANNNNNNNNNTGG 1 cut(s) 403
XmnI GAANNNNTTC 1 cut(s) 165
XspI CTAG 3 cut(s) 89, 132, 153
ZrmI AGTACT 1 cut(s) 78
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.