MD13G1173400.v1.1

Belongs to the Casparian strip membrane proteins (CASP) family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr13
OG0017286
Physical Location & Seq
Forward (+)
14250217 .. 14251729
1513 bp
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UTR
Exon/CDS
Intron
MD13G1173400.v1.1.491

Sequence Viewer

Length: 591 bp
ATGGGATCAAGTAACAAGCCTGTGATTTACTTCGGCTTCAGTTTGCTTCTCAGGAGCTTATTGATTGCAGCATCTGTGATTGGTGTTGTGTTCATGTTAAGTAGCAAGCAATCTGAAGATTGGTACACTGACAGCAGCCAAACTTACTACGAAACCCTTTCCTTTAAATTTACTCAATCACCGGCCTTCATATACTATGTTGCAGCATTATCTCTTTCAGGGCTTTATGGTCTCATTACCATGTTCACATCCTTTTTAGTTATCTTAGCACCAGCTTCCTCAGCAGTCTTGGTCCTTTTTGCGATTTTTGATGTGTTGATATTGGGGATCATAGCGTCGGCCACAGGCACTACTGGAAGTGTTGCATATATCTTGCTAAGGGGCAATGAAGATTTTAGATGGTCGGATTCCTGCTATGCTTACAACAAATTCTGTCGACATCTCGGGGTCTCTTTCGGGGTTTCTTTAGTAGCCTCCATTTTGCTTGTCTTGCTTCTGTGGACCTCCGTCATCACTCTATCCAAAAGGATCTCCTCCAAACGGATCAGCCCACCACCACAGTTTCAATTAGTATCAGGGACACCTACTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0005488 GO:0005575 GO:0005623 GO:0005886 GO:0016020 GO:0044464 GO:0048037 GO:0051536 GO:0051540 GO:0071944
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DUF588

Protein Analysis

197

Amino Acids

21.4

Weight (kDa)

9.12

Isoelectric Point (pI)

54.21

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CASP_dom PF04535 13 - 161 9.2e-25 Casparian strip membrane protein domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0017286)

Species Orthologous Gene IDs
fragaria_vesca FvH4_4g17260
malus_domestica MD13G1173400.v1.1
prunus_persica Prupe.1G141600_v2.0.a1
rosa_chinensis RchiOBHm_Chr4g0421181
rosa_laevigata RLG00000007708
rosa_multiflora Rmu_sc0009290.1_g000009
rosa_roxburghii Rroxscaffold_5G00363480
rosa_rugosa Rorug04G0170000
rosa_samantha Rh4AG229800 Rh4BG232500 Rh4CG244100 Rh4DG228300
rosa_wichuraiana Rw4G020400

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 436
AclWI GGATC 4 cut(s) 13, 335, 536, 551
AcoI YGGCCR 1 cut(s) 339
AcsI RAATTY 2 cut(s) 167, 428
AcuI CTGAAG 2 cut(s) 22, 135
AfaI GTAC 1 cut(s) 125
AfiI CCNNNNNNNGG 1 cut(s) 540
AgsI TTSAA 1 cut(s) 566
AluBI AGCT 2 cut(s) 57, 275
AluI AGCT 2 cut(s) 57, 275
Alw26I GTCTC 2 cut(s) 236, 454
AlwI GGATC 4 cut(s) 13, 335, 536, 551
AlwNI CAGNNNCTG 1 cut(s) 74
Ama87I CYCGRG 1 cut(s) 443
AoxI GGCC 2 cut(s) 183, 339
ApeKI GCWGC 3 cut(s) 68, 135, 203
ApoI RAATTY 2 cut(s) 167, 428
AspS9I GGNCC 2 cut(s) 292, 501
AsuHPI GGTGA 1 cut(s) 171
AvaI CYCGRG 1 cut(s) 443
AvaII GGWCC 2 cut(s) 292, 501
BbvCI CCTCAGC 1 cut(s) 280
BbvI GCAGC 3 cut(s) 80, 147, 215
BccI CCATC 1 cut(s) 393
BcoDI GTCTC 2 cut(s) 236, 454
BisI GCNGC 3 cut(s) 69, 136, 204
BlsI GCNGC 3 cut(s) 70, 137, 205
Bme18I GGWCC 2 cut(s) 292, 501
BmeT110I CYCGRG 1 cut(s) 443
BmgT120I GGNCC 2 cut(s) 292, 501
BmsI GCATC 1 cut(s) 80
BoxI GACNNNNGTC 1 cut(s) 506
Bpu10I CCTNAGC 2 cut(s) 280, 377
BsaI GGTCTC 2 cut(s) 236, 454
Bsc4I CCNNNNNNNGG 1 cut(s) 540
Bse118I RCCGGY 1 cut(s) 181
Bse1I ACTGG 1 cut(s) 358
Bse3DI GCAATG 1 cut(s) 391
BseGI GGATG 1 cut(s) 248
BseLI CCNNNNNNNGG 1 cut(s) 540
BseMI GCAATG 1 cut(s) 391
BseMII CTCAG 2 cut(s) 64, 294
BseNI ACTGG 1 cut(s) 358
BseRI GAGGAG 1 cut(s) 523
BseXI GCAGC 3 cut(s) 80, 147, 215
BshFI GGCC 2 cut(s) 185, 341
BsiHKCI CYCGRG 1 cut(s) 443
BsiSI CCGG 1 cut(s) 182
BslI CCNNNNNNNGG 1 cut(s) 540
BsmAI GTCTC 2 cut(s) 236, 454
BsnI GGCC 2 cut(s) 185, 341
Bso31I GGTCTC 2 cut(s) 236, 454
BsoBI CYCGRG 1 cut(s) 443
Bsp143I GATC 4 cut(s) 5, 327, 528, 543
BspANI GGCC 2 cut(s) 185, 341
BspCNI CTCAG 2 cut(s) 63, 293
BspPI GGATC 4 cut(s) 13, 335, 536, 551
BspTNI GGTCTC 2 cut(s) 236, 454
BsrDI GCAATG 1 cut(s) 391
BsrFI RCCGGY 1 cut(s) 181
BsrI ACTGG 1 cut(s) 358
BssAI RCCGGY 1 cut(s) 181
BssMI GATC 4 cut(s) 5, 327, 528, 543
Bst4CI ACNGT 1 cut(s) 561
BstC8I GCNNGC 1 cut(s) 107
BstDEI CTNAG 4 cut(s) 50, 265, 280, 377
BstF5I GGATG 1 cut(s) 248
BstKTI GATC 4 cut(s) 8, 330, 531, 546
BstMAI GTCTC 2 cut(s) 236, 454
BstMBI GATC 4 cut(s) 5, 327, 528, 543
BstMWI GCNNNNNNNGC 2 cut(s) 281, 490
BstPAI GACNNNNGTC 1 cut(s) 506
BstV1I GCAGC 3 cut(s) 80, 147, 215
BstX2I RGATCY 1 cut(s) 528
BstYI RGATCY 1 cut(s) 528
BsuRI GGCC 2 cut(s) 185, 341
BtsCI GGATG 1 cut(s) 248
BtsIMutI CAGTG 1 cut(s) 126
Cac8I GCNNGC 1 cut(s) 107
CaiI CAGNNNCTG 1 cut(s) 74
Cfr10I RCCGGY 1 cut(s) 181
Cfr13I GGNCC 2 cut(s) 292, 501
CseI GACGC 1 cut(s) 324
Csp6I GTAC 1 cut(s) 124
CviAII CATG 2 cut(s) 94, 241
CviQI GTAC 1 cut(s) 124
DdeI CTNAG 4 cut(s) 50, 265, 280, 377
DpnI GATC 4 cut(s) 7, 329, 530, 545
DpnII GATC 4 cut(s) 5, 327, 528, 543
DraI TTTAAA 1 cut(s) 166
EaeI YGGCCR 1 cut(s) 339
Eco31I GGTCTC 2 cut(s) 236, 454
Eco47I GGWCC 2 cut(s) 292, 501
Eco57I CTGAAG 2 cut(s) 22, 135
Eco88I CYCGRG 1 cut(s) 443
FaeI CATG 2 cut(s) 97, 244
FatI CATG 2 cut(s) 93, 240
FblI GTMKAC 1 cut(s) 436
Fnu4HI GCNGC 3 cut(s) 69, 136, 204
FokI GGATG 1 cut(s) 235
Fsp4HI GCNGC 3 cut(s) 69, 136, 204
GluI GCNGC 3 cut(s) 69, 136, 204
HaeIII GGCC 2 cut(s) 185, 341
HapII CCGG 1 cut(s) 182
HgaI GACGC 1 cut(s) 324
Hin1II CATG 2 cut(s) 97, 244
HincII GTYRAC 1 cut(s) 437
HindII GTYRAC 1 cut(s) 437
HinfI GANTC 1 cut(s) 407
HpaII CCGG 1 cut(s) 182
HphI GGTGA 1 cut(s) 171
Hpy166II GTNNAC 4 cut(s) 126, 246, 437, 501
Hpy188I TCNGA 2 cut(s) 115, 406
Hpy188III TCNNGA 1 cut(s) 52
Hpy8I GTNNAC 4 cut(s) 126, 246, 437, 501
Hpy99I CGWCG 1 cut(s) 340
HpyAV CCTTC 1 cut(s) 196
HpyCH4III ACNGT 1 cut(s) 561
HpyCH4V TGCA 3 cut(s) 68, 203, 365
HpyF10VI GCNNNNNNNGC 2 cut(s) 281, 490
HpyF3I CTNAG 4 cut(s) 50, 265, 280, 377
Hsp92II CATG 2 cut(s) 97, 244
Kzo9I GATC 4 cut(s) 5, 327, 528, 543
LmnI GCTCC 1 cut(s) 54
LpnPI CCDG 9 cut(s) 33, 37, 195, 204, 285, 330, 339, 424, 561
Lsp1109I GCAGC 3 cut(s) 80, 147, 215
LweI GCATC 1 cut(s) 80
MaeIII GTNAC 1 cut(s) 11
MalI GATC 4 cut(s) 7, 329, 530, 545
MboI GATC 4 cut(s) 5, 327, 528, 543
MboII GAAGA 2 cut(s) 128, 401
MflI RGATCY 1 cut(s) 528
MluCI AATT 3 cut(s) 167, 428, 566
MmeI TCCRAC 1 cut(s) 384
MnlI CCTC 4 cut(s) 289, 484, 514, 544
MseI TTAA 3 cut(s) 98, 165, 589
MslI CAYNNNNRTG 1 cut(s) 239
MspI CCGG 1 cut(s) 182
MwoI GCNNNNNNNGC 2 cut(s) 281, 490
NdeII GATC 4 cut(s) 5, 327, 528, 543
NlaIII CATG 2 cut(s) 97, 244
PfeI GAWTC 1 cut(s) 407
PkrI GCNGC 3 cut(s) 70, 137, 205
PshAI GACNNNNGTC 1 cut(s) 506
PspPI GGNCC 2 cut(s) 292, 501
PstNI CAGNNNCTG 1 cut(s) 74
PsuI RGATCY 1 cut(s) 528
RsaI GTAC 1 cut(s) 125
RsaNI GTAC 1 cut(s) 124
RseI CAYNNNNRTG 1 cut(s) 239
SalI GTCGAC 1 cut(s) 435
SaqAI TTAA 3 cut(s) 98, 165, 589
SatI GCNGC 3 cut(s) 69, 136, 204
Sau3AI GATC 4 cut(s) 5, 327, 528, 543
Sau96I GGNCC 2 cut(s) 292, 501
SetI ASST 4 cut(s) 59, 277, 506, 586
SfaNI GCATC 1 cut(s) 80
SinI GGWCC 2 cut(s) 292, 501
SmiMI CAYNNNNRTG 1 cut(s) 239
Sse9I AATT 3 cut(s) 167, 428, 566
TaaI ACNGT 1 cut(s) 561
TaqI TCGA 1 cut(s) 436
TasI AATT 3 cut(s) 167, 428, 566
TfiI GAWTC 1 cut(s) 407
Tru1I TTAA 3 cut(s) 98, 165, 589
Tru9I TTAA 3 cut(s) 98, 165, 589
TscAI CASTG 1 cut(s) 133
TseI GCWGC 3 cut(s) 68, 135, 203
TspDTI ATGAA 3 cut(s) 82, 178, 402
TspGWI ACGGA 2 cut(s) 496, 556
TspRI CASTG 1 cut(s) 133
VpaK11BI GGWCC 2 cut(s) 292, 501
XapI RAATTY 2 cut(s) 167, 428
XmiI GTMKAC 1 cut(s) 436
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.