AT5G56230

May be involved in both secretory and endocytic intracellular trafficking in the endosomal prevacuolar compartments

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0016200
Physical Location & Seq
Reverse (-)
22758544 .. 22759556
1013 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G56230.1

Sequence Viewer

Length: 561 bp
ATGACTCCTTCTCCTCCTCCAATAACCTACATATCAATTCCGCTTCCTACCAACGACGTCGTCTCACGATCAATCCATAATCTCACTACCGCTATCTCTAGCCACCGTCCCTGGTCAGAACTCATCTTCTCCGGCGATTTCTCTCTCCCGGAGAGCTTTTCCTCTCTTCTCCTCCGATCAAAGACGAATTTCAACTACTTTTTCGTCAACTACACTATCATCGTCTCCACGTGTGCAGCGTTCGCTCTCATCACAGCTAGTCCCGTCGCTTTAATCGTCGTTGGCGCAATCATCGCCTTGTGGCTTATCTTTCACTTTTTCAGAGAAGATCCACTTATTCTCTGGAGCTTTCAAGTCGGTGATCGTACGGTGTTGTTGTTTCTAGTCTTAGCTTCCGTTTGGGCTATATGGTTCACTAACTCCGCCGTGAATTTAGCTGTTGGTGTTAGCGTTGGCTTGCTATTGTGCATTATTCACGCCGTCTTTAGAAACTCCGATGAGCTTTTCCTTGAGGAAGATGATGCTATTAACGGAGGCTTGATCGGGTCTAATCTCCGATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0006810 GO:0008150 GO:0012505 GO:0016192 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0051179 GO:0051234
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
PRA1

Protein Analysis

186

Amino Acids

20.53

Weight (kDa)

5.15

Isoelectric Point (pI)

36.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PRA1 PF03208 31 - 172 2.1e-37 PRA1 family protein
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: OG0016200)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G56230
fragaria_vesca FvH4_3g41570
malus_domestica MD03G1043200.v1.1 MD03G1043300.v1.1 MD11G1046400.v1.1
prunus_persica Prupe.6G035700_v2.0.a1
pyrus_communis pycom03g03350 pycom11g03780
rosa_chinensis RchiOBHm_Chr5g0074561
rosa_laevigata RLG00000036487
rosa_roxburghii Rroxscaffold_1G00007000
rosa_rugosa Rorug05G0432700
rosa_samantha Rh5BG510700 Rh5CG534500
rosa_wichuraiana Rw5G045410

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 60
AciI CCGC 3 cut(s) 41, 90, 423
AclWI GGATC 1 cut(s) 323
AcsI RAATTY 2 cut(s) 187, 430
AcvI CACGTG 1 cut(s) 231
AcyI GRCGYC 1 cut(s) 57
AfaI GTAC 1 cut(s) 367
AflIII ACRYGT 1 cut(s) 230
AgsI TTSAA 2 cut(s) 193, 353
AjnI CCWGG 1 cut(s) 110
AluBI AGCT 6 cut(s) 156, 257, 348, 392, 437, 502
AluI AGCT 6 cut(s) 156, 257, 348, 392, 437, 502
Alw26I GTCTC 2 cut(s) 67, 229
AlwI GGATC 1 cut(s) 323
ApeKI GCWGC 1 cut(s) 236
ApoI RAATTY 2 cut(s) 187, 430
AspLEI GCGC 1 cut(s) 287
AsuC2I CCSGG 1 cut(s) 149
AsuHPI GGTGA 1 cut(s) 371
BbrPI CACGTG 1 cut(s) 231
BbvI GCAGC 1 cut(s) 248
BceAI ACGGC 2 cut(s) 410, 464
BciT130I CCWGG 1 cut(s) 112
BcnI CCSGG 1 cut(s) 149
BcoDI GTCTC 2 cut(s) 67, 229
BfaI CTAG 3 cut(s) 99, 258, 383
BisI GCNGC 1 cut(s) 237
BlsI GCNGC 1 cut(s) 238
Bme1390I CCNGG 2 cut(s) 112, 149
BmrFI CCNGG 2 cut(s) 112, 149
BmsI GCATC 1 cut(s) 511
BpmI CTGGAG 1 cut(s) 364
BpuEI CTTGAG 1 cut(s) 530
BpuMI CCSGG 1 cut(s) 149
BsaAI YACGTR 1 cut(s) 231
BsaHI GRCGYC 1 cut(s) 57
BsaJI CCNNGG 1 cut(s) 110
BsaXI ACNNNNNCTCC 1 cut(s) 25
BseBI CCWGG 1 cut(s) 112
BseDI CCNNGG 1 cut(s) 110
BseRI GAGGAG 2 cut(s) 6, 161
BseXI GCAGC 1 cut(s) 248
BsgI GTGCAG 1 cut(s) 255
BsiSI CCGG 2 cut(s) 132, 149
BsiWI CGTACG 1 cut(s) 365
BslFI GGGAC 2 cut(s) 93, 246
BsmAI GTCTC 2 cut(s) 67, 229
BsmBI CGTCTC 2 cut(s) 67, 229
BsmFI GGGAC 2 cut(s) 93, 246
Bsp143I GATC 5 cut(s) 68, 176, 328, 361, 540
BspACI CCGC 3 cut(s) 41, 90, 423
BspPI GGATC 1 cut(s) 323
BssECI CCNNGG 1 cut(s) 110
BssMI GATC 5 cut(s) 68, 176, 328, 361, 540
BssNI GRCGYC 1 cut(s) 57
Bst2UI CCWGG 1 cut(s) 112
Bst4CI ACNGT 2 cut(s) 107, 370
Bst6I CTCTTC 1 cut(s) 171
BstACI GRCGYC 1 cut(s) 57
BstBAI YACGTR 1 cut(s) 231
BstC8I GCNNGC 1 cut(s) 458
BstDEI CTNAG 1 cut(s) 388
BstHHI GCGC 1 cut(s) 287
BstKTI GATC 5 cut(s) 71, 179, 331, 364, 543
BstMAI GTCTC 2 cut(s) 67, 229
BstMBI GATC 5 cut(s) 68, 176, 328, 361, 540
BstMWI GCNNNNNNNGC 2 cut(s) 242, 293
BstNI CCWGG 1 cut(s) 112
BstSCI CCNGG 2 cut(s) 110, 147
BstV1I GCAGC 1 cut(s) 248
BstX2I RGATCY 1 cut(s) 328
BstYI RGATCY 1 cut(s) 328
BtgZI GCGATG 1 cut(s) 277
Cac8I GCNNGC 1 cut(s) 458
CfoI GCGC 1 cut(s) 287
Csp6I GTAC 1 cut(s) 366
CviQI GTAC 1 cut(s) 366
DdeI CTNAG 1 cut(s) 388
DpnI GATC 5 cut(s) 70, 178, 330, 363, 542
DpnII GATC 5 cut(s) 68, 176, 328, 361, 540
Eam1104I CTCTTC 1 cut(s) 171
EarI CTCTTC 1 cut(s) 171
EciI GGCGGA 1 cut(s) 412
Eco72I CACGTG 1 cut(s) 231
EcoRII CCWGG 1 cut(s) 110
Esp3I CGTCTC 2 cut(s) 67, 229
FaiI YATR 4 cut(s) 32, 78, 407, 409
FalI AAGNNNNNCTT 2 cut(s) 318, 350
FaqI GGGAC 2 cut(s) 93, 246
Fnu4HI GCNGC 1 cut(s) 237
Fsp4HI GCNGC 1 cut(s) 237
FspBI CTAG 3 cut(s) 99, 258, 383
GlaI GCGC 1 cut(s) 286
GluI GCNGC 1 cut(s) 237
GsuI CTGGAG 1 cut(s) 364
HapII CCGG 2 cut(s) 132, 149
HhaI GCGC 1 cut(s) 287
Hin1I GRCGYC 1 cut(s) 57
Hin6I GCGC 1 cut(s) 285
HinP1I GCGC 1 cut(s) 285
HincII GTYRAC 1 cut(s) 208
HindII GTYRAC 1 cut(s) 208
HinfI GANTC 1 cut(s) 4
HpaII CCGG 2 cut(s) 132, 149
HphI GGTGA 1 cut(s) 371
Hpy166II GTNNAC 2 cut(s) 208, 414
Hpy188I TCNGA 5 cut(s) 118, 176, 323, 496, 557
Hpy188III TCNNGA 2 cut(s) 66, 343
Hpy8I GTNNAC 2 cut(s) 208, 414
Hpy99I CGWCG 4 cut(s) 59, 62, 269, 281
HpyAV CCTTC 1 cut(s) 18
HpyCH4III ACNGT 2 cut(s) 107, 370
HpyCH4IV ACGT 2 cut(s) 57, 230
HpyCH4V TGCA 2 cut(s) 236, 468
HpyF10VI GCNNNNNNNGC 2 cut(s) 242, 293
HpyF3I CTNAG 1 cut(s) 388
HpySE526I ACGT 2 cut(s) 57, 230
Hsp92I GRCGYC 1 cut(s) 57
HspAI GCGC 1 cut(s) 285
Kzo9I GATC 5 cut(s) 68, 176, 328, 361, 540
LmnI GCTCC 1 cut(s) 345
LpnPI CCDG 5 cut(s) 97, 124, 145, 162, 328
Lsp1109I GCAGC 1 cut(s) 248
LweI GCATC 1 cut(s) 511
MaeI CTAG 3 cut(s) 99, 258, 383
MaeII ACGT 2 cut(s) 57, 230
MalI GATC 5 cut(s) 70, 178, 330, 363, 542
MboI GATC 5 cut(s) 68, 176, 328, 361, 540
MboII GAAGA 4 cut(s) 118, 158, 338, 527
MflI RGATCY 1 cut(s) 328
MluCI AATT 3 cut(s) 36, 187, 430
MnlI CCTC 6 cut(s) 24, 27, 172, 182, 505, 527
MseI TTAA 2 cut(s) 272, 528
MspI CCGG 2 cut(s) 132, 149
MspR9I CCNGG 2 cut(s) 112, 149
MvaI CCWGG 1 cut(s) 112
MwoI GCNNNNNNNGC 2 cut(s) 242, 293
NciI CCSGG 1 cut(s) 149
NdeII GATC 5 cut(s) 68, 176, 328, 361, 540
PcsI WCGNNNNNNNCGW 2 cut(s) 236, 273
Pfl23II CGTACG 1 cut(s) 365
PflFI GACNNNGTC 1 cut(s) 59
PfoI TCCNGGA 1 cut(s) 147
PkrI GCNGC 1 cut(s) 238
PmaCI CACGTG 1 cut(s) 231
PmlI CACGTG 1 cut(s) 231
Ppu21I YACGTR 1 cut(s) 231
Psp6I CCWGG 1 cut(s) 110
PspCI CACGTG 1 cut(s) 231
PspGI CCWGG 1 cut(s) 110
PspLI CGTACG 1 cut(s) 365
PsuI RGATCY 1 cut(s) 328
PsyI GACNNNGTC 1 cut(s) 59
RsaI GTAC 1 cut(s) 367
RsaNI GTAC 1 cut(s) 366
SaqAI TTAA 2 cut(s) 272, 528
SatI GCNGC 1 cut(s) 237
Sau3AI GATC 5 cut(s) 68, 176, 328, 361, 540
ScrFI CCNGG 2 cut(s) 112, 149
SetI ASST 9 cut(s) 29, 60, 158, 233, 259, 350, 394, 439, 504
SfaNI GCATC 1 cut(s) 511
SmlI CTYRAG 1 cut(s) 509
SmoI CTYRAG 1 cut(s) 509
Sse9I AATT 3 cut(s) 36, 187, 430
SsiI CCGC 3 cut(s) 41, 90, 423
SspMI CTAG 3 cut(s) 99, 258, 383
StyD4I CCNGG 2 cut(s) 110, 147
TaaI ACNGT 2 cut(s) 107, 370
TaiI ACGT 2 cut(s) 60, 233
TasI AATT 3 cut(s) 36, 187, 430
Tru1I TTAA 2 cut(s) 272, 528
Tru9I TTAA 2 cut(s) 272, 528
TseI GCWGC 1 cut(s) 236
TspGWI ACGGA 2 cut(s) 385, 546
Tth111I GACNNNGTC 1 cut(s) 59
XapI RAATTY 2 cut(s) 187, 430
XcmI CCANNNNNNNNNTGG 1 cut(s) 339
XspI CTAG 3 cut(s) 99, 258, 383
ZraI GACGTC 1 cut(s) 58
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.