AT5G54980

Belongs to the Casparian strip membrane proteins (CASP) family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0013358
Physical Location & Seq
Forward (+)
22315634 .. 22316935
1302 bp
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UTR
Exon/CDS
Intron
AT5G54980.1

Sequence Viewer

Length: 585 bp
ATGAGAGATAACAACAATAACAACACAAGAGAAGAAGAGAGAAGCAGTTCTTCAAAGCAGCAACAACCACAAGCTCCTATGTCTTTGAAGATCATAGATTCATGTCTCAGACTAAGTGTGGTTCCTCTCAGTGTTGCAACCATCTGGTTAACTGTCACTAACCACGAATCCAACCCGGACTACGGCAATTTAGAGTACAACTCCATCATGGGTCTCAAGTATATGGTTGGTGTGAGTGCCATATCTGCTATTTATGCTCTGCTCTCTACTGTTTCTTCATGGGTCACATGTTTAGTCTCCAAAGCTTGGCTCTTCTTTATTCCTGACCAGGTTTTAGCTTATGTGATGACAACATCAGTAGCAGGAGCAACAGAGATAGTGTATCTACTTAACAAAGGAGACAAAATAGTGACATGGAGTGAAATGTGTTCTTCTTATCCACATTATTGTTCAAAACTCACAATTGCTTTGGGACTTCATGTCTTTGTTCTTTTCTTTTTCTTATTTCTCTCTGTCATTTCTGCTTATAGAGCTTTTAGTCCCTTTGATCCTCCTTGTGATTCTCAAACCAATAATGATGCTTAA
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

194

Amino Acids

21.63

Weight (kDa)

5.52

Isoelectric Point (pI)

42.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CASP_dom PF04535 27 - 165 5.8e-33 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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Publication-ready
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Orthologous Genes (Group: OG0013358)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G54980
fragaria_vesca FvH4_3g22910
malus_domestica MD03G1199400.v1.1 MD11G1216200.v1.1 MD11G1216300.v1.1
prunus_persica Prupe.4G215200_v2.0.a1
pyrus_communis pycom03g15100
rosa_chinensis RchiOBHm_Chr5g0040241
rosa_laevigata RLG00000033966
rosa_multiflora Rmu_sc0002908.1_g000012 Rmu_sc0010162.1_g000006
rosa_roxburghii Rroxscaffold_1G00041070
rosa_rugosa Rorug05G0184200
rosa_samantha Rh5AG271100 Rh5BG274400 Rh5CG307300 Rh5DG282600
rosa_wichuraiana Rw5G025350

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 306
AclWI GGATC 1 cut(s) 542
AfaI GTAC 1 cut(s) 197
AfiI CCNNNNNNNGG 2 cut(s) 182, 306
AflIII ACRYGT 1 cut(s) 287
AgsI TTSAA 3 cut(s) 54, 88, 453
AhdI GACNNNNNGTC 1 cut(s) 479
AjnI CCWGG 1 cut(s) 327
AluBI AGCT 4 cut(s) 74, 305, 338, 533
AluI AGCT 4 cut(s) 74, 305, 338, 533
Alw26I GTCTC 4 cut(s) 110, 218, 301, 393
AlwI GGATC 1 cut(s) 542
ApeKI GCWGC 1 cut(s) 58
Asp700I GAANNNNTTC 1 cut(s) 46
AsuC2I CCSGG 1 cut(s) 176
BbvI GCAGC 1 cut(s) 70
BccI CCATC 2 cut(s) 149, 212
BceAI ACGGC 1 cut(s) 199
BciT130I CCWGG 1 cut(s) 329
BcnI CCSGG 1 cut(s) 176
BcoDI GTCTC 4 cut(s) 110, 218, 301, 393
BisI GCNGC 1 cut(s) 59
BlsI GCNGC 1 cut(s) 60
Bme1390I CCNGG 2 cut(s) 176, 329
BmeRI GACNNNNNGTC 1 cut(s) 479
BmiI GGNNCC 1 cut(s) 123
BmrFI CCNGG 2 cut(s) 176, 329
BmsI GCATC 1 cut(s) 568
BplI GAGNNNNNCTC 2 cut(s) 185, 217
BpuEI CTTGAG 1 cut(s) 200
BpuMI CCSGG 1 cut(s) 176
BsaI GGTCTC 1 cut(s) 218
Bsc4I CCNNNNNNNGG 2 cut(s) 182, 306
BseBI CCWGG 1 cut(s) 329
BseLI CCNNNNNNNGG 2 cut(s) 182, 306
BseMII CTCAG 2 cut(s) 121, 142
BseXI GCAGC 1 cut(s) 70
BsiSI CCGG 1 cut(s) 176
BslFI GGGAC 2 cut(s) 486, 525
BslI CCNNNNNNNGG 2 cut(s) 182, 306
BsmAI GTCTC 4 cut(s) 110, 218, 301, 393
BsmFI GGGAC 2 cut(s) 486, 525
Bso31I GGTCTC 1 cut(s) 218
Bsp143I GATC 2 cut(s) 90, 547
BspCNI CTCAG 2 cut(s) 120, 141
BspLI GGNNCC 1 cut(s) 123
BspPI GGATC 1 cut(s) 542
BspQI GCTCTTC 1 cut(s) 317
BspTNI GGTCTC 1 cut(s) 218
BssMI GATC 2 cut(s) 90, 547
Bst2UI CCWGG 1 cut(s) 329
Bst4CI ACNGT 2 cut(s) 154, 271
Bst6I CTCTTC 2 cut(s) 30, 317
BstDEI CTNAG 3 cut(s) 107, 113, 128
BstKTI GATC 2 cut(s) 93, 550
BstMAI GTCTC 4 cut(s) 110, 218, 301, 393
BstMBI GATC 2 cut(s) 90, 547
BstMWI GCNNNNNNNGC 3 cut(s) 245, 254, 530
BstNI CCWGG 1 cut(s) 329
BstNSI RCATGY 1 cut(s) 291
BstSCI CCNGG 2 cut(s) 174, 327
BstV1I GCAGC 1 cut(s) 70
BtsIMutI CAGTG 1 cut(s) 136
CsiI ACCWGGT 1 cut(s) 327
Csp6I GTAC 1 cut(s) 196
CviAII CATG 6 cut(s) 102, 208, 279, 288, 414, 479
CviJI RGCY 5 cut(s) 74, 305, 310, 338, 533
CviKI_1 RGCY 5 cut(s) 74, 305, 310, 338, 533
CviQI GTAC 1 cut(s) 196
DdeI CTNAG 3 cut(s) 107, 113, 128
DpnI GATC 2 cut(s) 92, 549
DpnII GATC 2 cut(s) 90, 547
DriI GACNNNNNGTC 1 cut(s) 479
Eam1104I CTCTTC 2 cut(s) 30, 317
Eam1105I GACNNNNNGTC 1 cut(s) 479
EarI CTCTTC 2 cut(s) 30, 317
Eco31I GGTCTC 1 cut(s) 218
EcoRII CCWGG 1 cut(s) 327
FaeI CATG 6 cut(s) 105, 211, 282, 291, 417, 482
FalI AAGNNNNNCTT 2 cut(s) 34, 66
FaqI GGGAC 2 cut(s) 486, 525
FatI CATG 6 cut(s) 101, 207, 278, 287, 413, 478
Fnu4HI GCNGC 1 cut(s) 59
Fsp4HI GCNGC 1 cut(s) 59
GluI GCNGC 1 cut(s) 59
HapII CCGG 1 cut(s) 176
Hin1II CATG 6 cut(s) 105, 211, 282, 291, 417, 482
HincII GTYRAC 1 cut(s) 150
HindII GTYRAC 1 cut(s) 150
HindIII AAGCTT 1 cut(s) 303
HinfI GANTC 3 cut(s) 98, 167, 560
HpaI GTTAAC 1 cut(s) 150
HpaII CCGG 1 cut(s) 176
Hpy166II GTNNAC 1 cut(s) 150
Hpy188I TCNGA 1 cut(s) 110
Hpy188III TCNNGA 1 cut(s) 323
Hpy8I GTNNAC 1 cut(s) 150
HpyCH4III ACNGT 2 cut(s) 154, 271
HpyCH4V TGCA 1 cut(s) 137
HpyF10VI GCNNNNNNNGC 3 cut(s) 245, 254, 530
HpyF3I CTNAG 3 cut(s) 107, 113, 128
Hsp92II CATG 6 cut(s) 105, 211, 282, 291, 417, 482
KspAI GTTAAC 1 cut(s) 150
Kzo9I GATC 2 cut(s) 90, 547
LguI GCTCTTC 1 cut(s) 317
LmnI GCTCC 2 cut(s) 79, 365
LpnPI CCDG 6 cut(s) 130, 189, 314, 336, 341, 348
Lsp1109I GCAGC 1 cut(s) 70
LweI GCATC 1 cut(s) 568
MabI ACCWGGT 1 cut(s) 327
MaeIII GTNAC 3 cut(s) 154, 283, 409
MalI GATC 2 cut(s) 92, 549
MboI GATC 2 cut(s) 90, 547
MboII GAAGA 7 cut(s) 42, 44, 47, 100, 267, 304, 423
MfeI CAATTG 1 cut(s) 462
MluCI AATT 2 cut(s) 187, 462
MmeI TCCRAC 1 cut(s) 195
MnlI CCTC 2 cut(s) 135, 561
MroXI GAANNNNTTC 1 cut(s) 46
MseI TTAA 3 cut(s) 149, 390, 583
MspI CCGG 1 cut(s) 176
MspR9I CCNGG 2 cut(s) 176, 329
MunI CAATTG 1 cut(s) 462
MvaI CCWGG 1 cut(s) 329
MwoI GCNNNNNNNGC 3 cut(s) 245, 254, 530
NciI CCSGG 1 cut(s) 176
NdeII GATC 2 cut(s) 90, 547
NlaIII CATG 6 cut(s) 105, 211, 282, 291, 417, 482
NlaIV GGNNCC 1 cut(s) 123
NmuCI GTSAC 3 cut(s) 154, 283, 409
NspI RCATGY 1 cut(s) 291
PciI ACATGT 1 cut(s) 287
PciSI GCTCTTC 1 cut(s) 317
PdmI GAANNNNTTC 1 cut(s) 46
PfeI GAWTC 3 cut(s) 98, 167, 560
PflMI CCANNNNNTGG 1 cut(s) 306
PkrI GCNGC 1 cut(s) 60
PscI ACATGT 1 cut(s) 287
Psp6I CCWGG 1 cut(s) 327
PspGI CCWGG 1 cut(s) 327
PspN4I GGNNCC 1 cut(s) 123
RsaI GTAC 1 cut(s) 197
RsaNI GTAC 1 cut(s) 196
SapI GCTCTTC 1 cut(s) 317
SaqAI TTAA 3 cut(s) 149, 390, 583
SatI GCNGC 1 cut(s) 59
Sau3AI GATC 2 cut(s) 90, 547
ScrFI CCNGG 2 cut(s) 176, 329
SetI ASST 5 cut(s) 76, 307, 333, 340, 535
SexAI ACCWGGT 1 cut(s) 327
SfaNI GCATC 1 cut(s) 568
SmlI CTYRAG 1 cut(s) 215
SmoI CTYRAG 1 cut(s) 215
Sse9I AATT 2 cut(s) 187, 462
StyD4I CCNGG 2 cut(s) 174, 327
TaaI ACNGT 2 cut(s) 154, 271
TasI AATT 2 cut(s) 187, 462
TatI WGTACW 1 cut(s) 195
TfiI GAWTC 3 cut(s) 98, 167, 560
Tru1I TTAA 3 cut(s) 149, 390, 583
Tru9I TTAA 3 cut(s) 149, 390, 583
TscAI CASTG 1 cut(s) 136
TseFI GTSAC 3 cut(s) 154, 283, 409
TseI GCWGC 1 cut(s) 58
Tsp45I GTSAC 3 cut(s) 154, 283, 409
TspDTI ATGAA 3 cut(s) 90, 267, 467
TspRI CASTG 1 cut(s) 136
Van91I CCANNNNNTGG 1 cut(s) 306
XceI RCATGY 1 cut(s) 291
XmnI GAANNNNTTC 1 cut(s) 46
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.