Rh5AG005500

Domain of unknown function (DUF4228)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0017615
Physical Location & Seq
Forward (+)
386240 .. 387024
785 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG005500.1

Sequence Viewer

Length: 465 bp
ATGGGAAACTGTGTACGTGTTCCGTTCCATCCGCCCCAAGAGAAGATCAAAGTAGTAGTCTTTAATGGAGGAGTAGAAGAATTCAGTGCGCCGACAACAGCCGAAGAAATCACATCTGGCCCTTACACGGGTTACAAGCTGGTGCACAAGGCCAACCCATATACACCATTACGACCCGGTACCAAGCTAGAACCTGGAGAGGTTTACCATCTTGTGCCAAACCTTGTATGGCTCAATAAGGCTTCGGTTCCTTCAAAAATGGCCCACCAAGAACAACAAAGCGGCAAAAGACAGAAGGTGAGGATTGTGGTGACCAGAGAGCAATTGGGGCTGTTGTTGAATGGCGCAAAGAAGATCCGGTCTTTAAACATTGGGAGTCGTGGGTCACAAGAGCCTCGCAAATGGAGGCCTTCTTTGGCTATGATTCCAGAGATTTCAAGCAGAGGAAAACACACATCAATCTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DUF4228

Protein Analysis

154

Amino Acids

17.11

Weight (kDa)

10.15

Isoelectric Point (pI)

51.41

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PADRE PF14009 1 - 144 2.3e-16 PADRE 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: OG0017615)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g00481
prunus_persica Prupe.4G005300_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0000641
rosa_laevigata RLG00000008373 RLG00000030884
rosa_multiflora Rmu_sc0011992.1_g000013
rosa_roxburghii Rroxscaffold_1G00075560
rosa_samantha Rh5AG005500 Rh5BG007100 Rh5CG005800 Rh5DG005700
rosa_wichuraiana Rw5G000540

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 179
AccB1I GGYRCC 1 cut(s) 179
AciI CCGC 2 cut(s) 32, 282
AclWI GGATC 1 cut(s) 349
AcsI RAATTY 1 cut(s) 80
AfaI GTAC 2 cut(s) 15, 181
AfiI CCNNNNNNNGG 2 cut(s) 127, 128
AflIII ACRYGT 1 cut(s) 16
AgsI TTSAA 3 cut(s) 255, 340, 438
AjnI CCWGG 1 cut(s) 193
AluBI AGCT 2 cut(s) 139, 187
AluI AGCT 2 cut(s) 139, 187
Alw21I GWGCWC 1 cut(s) 147
Alw44I GTGCAC 1 cut(s) 143
AlwI GGATC 1 cut(s) 349
AoxI GGCC 4 cut(s) 118, 150, 261, 407
ApaLI GTGCAC 1 cut(s) 143
ApoI RAATTY 1 cut(s) 80
ArsI GACNNNNNNTTYG 2 cut(s) 42, 74
Asp718I GGTACC 1 cut(s) 179
AspLEI GCGC 2 cut(s) 91, 347
AspS9I GGNCC 2 cut(s) 119, 262
AsuC2I CCSGG 1 cut(s) 177
AsuHPI GGTGA 2 cut(s) 310, 322
BaeGI GKGCMC 1 cut(s) 147
BanI GGYRCC 1 cut(s) 179
Bbv12I GWGCWC 1 cut(s) 147
BccI CCATC 2 cut(s) 36, 216
BciT130I CCWGG 1 cut(s) 195
BcnI CCSGG 1 cut(s) 177
BfaI CTAG 1 cut(s) 188
BisI GCNGC 1 cut(s) 283
BlsI GCNGC 1 cut(s) 284
Bme1390I CCNGG 2 cut(s) 177, 195
BmgT120I GGNCC 2 cut(s) 119, 262
BmiI GGNNCC 2 cut(s) 181, 249
BmrFI CCNGG 2 cut(s) 177, 195
BpmI CTGGAG 1 cut(s) 216
BpuMI CCSGG 1 cut(s) 177
BsaAI YACGTR 1 cut(s) 17
BsaWI WCCGGW 1 cut(s) 357
Bsc4I CCNNNNNNNGG 2 cut(s) 127, 128
BseBI CCWGG 1 cut(s) 195
BseGI GGATG 1 cut(s) 28
BseLI CCNNNNNNNGG 2 cut(s) 127, 128
BseRI GAGGAG 1 cut(s) 84
BseSI GKGCMC 1 cut(s) 147
BshFI GGCC 4 cut(s) 120, 152, 263, 409
BshNI GGYRCC 1 cut(s) 179
BsiHKAI GWGCWC 1 cut(s) 147
BsiSI CCGG 2 cut(s) 177, 358
BslI CCNNNNNNNGG 2 cut(s) 127, 128
BsnI GGCC 4 cut(s) 120, 152, 263, 409
Bsp1286I GDGCHC 1 cut(s) 147
Bsp143I GATC 2 cut(s) 45, 354
BspACI CCGC 2 cut(s) 32, 282
BspANI GGCC 4 cut(s) 120, 152, 263, 409
BspLI GGNNCC 2 cut(s) 181, 249
BspPI GGATC 1 cut(s) 349
BspT107I GGYRCC 1 cut(s) 179
BssMI GATC 2 cut(s) 45, 354
Bst2UI CCWGG 1 cut(s) 195
Bst4CI ACNGT 1 cut(s) 11
BstBAI YACGTR 1 cut(s) 17
BstEII GGTNACC 1 cut(s) 310
BstF5I GGATG 1 cut(s) 28
BstHHI GCGC 2 cut(s) 91, 347
BstKTI GATC 2 cut(s) 48, 357
BstMBI GATC 2 cut(s) 45, 354
BstMWI GCNNNNNNNGC 1 cut(s) 328
BstNI CCWGG 1 cut(s) 195
BstPI GGTNACC 1 cut(s) 310
BstSCI CCNGG 2 cut(s) 175, 193
BstSLI GKGCMC 1 cut(s) 147
BstX2I RGATCY 1 cut(s) 354
BstYI RGATCY 1 cut(s) 354
BsuRI GGCC 4 cut(s) 120, 152, 263, 409
BtsCI GGATG 1 cut(s) 28
BtsIMutI CAGTG 1 cut(s) 91
CfoI GCGC 2 cut(s) 91, 347
Cfr13I GGNCC 2 cut(s) 119, 262
Csp6I GTAC 2 cut(s) 14, 180
CviQI GTAC 2 cut(s) 14, 180
DpnI GATC 2 cut(s) 47, 356
DpnII GATC 2 cut(s) 45, 354
DraI TTTAAA 1 cut(s) 366
EciI GGCGGA 1 cut(s) 21
Eco147I AGGCCT 1 cut(s) 409
Eco91I GGTNACC 1 cut(s) 310
EcoO65I GGTNACC 1 cut(s) 310
EcoRI GAATTC 1 cut(s) 80
EcoRII CCWGG 1 cut(s) 193
FaiI YATR 4 cut(s) 160, 162, 229, 422
Fnu4HI GCNGC 1 cut(s) 283
FokI GGATG 1 cut(s) 15
Fsp4HI GCNGC 1 cut(s) 283
FspBI CTAG 1 cut(s) 188
GlaI GCGC 2 cut(s) 90, 346
GluI GCNGC 1 cut(s) 283
GsuI CTGGAG 1 cut(s) 216
HaeIII GGCC 4 cut(s) 120, 152, 263, 409
HapII CCGG 2 cut(s) 177, 358
HhaI GCGC 2 cut(s) 91, 347
Hin6I GCGC 2 cut(s) 89, 345
HinP1I GCGC 2 cut(s) 89, 345
HinfI GANTC 2 cut(s) 376, 424
HpaII CCGG 2 cut(s) 177, 358
HphI GGTGA 2 cut(s) 310, 322
Hpy166II GTNNAC 3 cut(s) 14, 145, 205
Hpy188III TCNNGA 1 cut(s) 428
Hpy8I GTNNAC 3 cut(s) 14, 145, 205
HpyAV CCTTC 3 cut(s) 261, 289, 420
HpyCH4III ACNGT 1 cut(s) 11
HpyCH4IV ACGT 1 cut(s) 16
HpyCH4V TGCA 1 cut(s) 145
HpyF10VI GCNNNNNNNGC 1 cut(s) 328
HpySE526I ACGT 1 cut(s) 16
HspAI GCGC 2 cut(s) 89, 345
KpnI GGTACC 1 cut(s) 183
Kzo9I GATC 2 cut(s) 45, 354
LpnPI CCDG 8 cut(s) 102, 125, 180, 190, 207, 328, 371, 441
MaeI CTAG 1 cut(s) 188
MaeII ACGT 1 cut(s) 16
MaeIII GTNAC 3 cut(s) 131, 310, 384
MalI GATC 2 cut(s) 47, 356
MboI GATC 2 cut(s) 45, 354
MboII GAAGA 4 cut(s) 55, 89, 116, 364
MfeI CAATTG 1 cut(s) 323
MflI RGATCY 1 cut(s) 354
MhlI GDGCHC 1 cut(s) 147
MluCI AATT 2 cut(s) 80, 323
MlyI GAGTC 1 cut(s) 385
MnlI CCTC 6 cut(s) 62, 193, 294, 399, 405, 437
MseI TTAA 2 cut(s) 63, 365
MspI CCGG 2 cut(s) 177, 358
MspR9I CCNGG 2 cut(s) 177, 195
MunI CAATTG 1 cut(s) 323
MvaI CCWGG 1 cut(s) 195
MwoI GCNNNNNNNGC 1 cut(s) 328
NciI CCSGG 1 cut(s) 177
NdeII GATC 2 cut(s) 45, 354
NlaIV GGNNCC 2 cut(s) 181, 249
NmuCI GTSAC 2 cut(s) 310, 384
PceI AGGCCT 1 cut(s) 409
PfeI GAWTC 1 cut(s) 424
PkrI GCNGC 1 cut(s) 284
PleI GAGTC 1 cut(s) 384
PpsI GAGTC 1 cut(s) 384
Ppu21I YACGTR 1 cut(s) 17
Psp6I CCWGG 1 cut(s) 193
PspEI GGTNACC 1 cut(s) 310
PspGI CCWGG 1 cut(s) 193
PspN4I GGNNCC 2 cut(s) 181, 249
PspPI GGNCC 2 cut(s) 119, 262
PsuI RGATCY 1 cut(s) 354
RsaI GTAC 2 cut(s) 15, 181
RsaNI GTAC 2 cut(s) 14, 180
SaqAI TTAA 2 cut(s) 63, 365
SatI GCNGC 1 cut(s) 283
Sau3AI GATC 2 cut(s) 45, 354
Sau96I GGNCC 2 cut(s) 119, 262
SchI GAGTC 1 cut(s) 385
ScrFI CCNGG 2 cut(s) 177, 195
SduI GDGCHC 1 cut(s) 147
SetI ASST 7 cut(s) 19, 141, 189, 196, 204, 225, 300
Sse9I AATT 2 cut(s) 80, 323
SseBI AGGCCT 1 cut(s) 409
SsiI CCGC 2 cut(s) 32, 282
SspMI CTAG 1 cut(s) 188
StuI AGGCCT 1 cut(s) 409
StyD4I CCNGG 2 cut(s) 175, 193
TaaI ACNGT 1 cut(s) 11
TaiI ACGT 1 cut(s) 19
TasI AATT 2 cut(s) 80, 323
TauI GCSGC 1 cut(s) 285
TfiI GAWTC 1 cut(s) 424
Tru1I TTAA 2 cut(s) 63, 365
Tru9I TTAA 2 cut(s) 63, 365
TscAI CASTG 1 cut(s) 91
TseFI GTSAC 2 cut(s) 310, 384
Tsp45I GTSAC 2 cut(s) 310, 384
TspGWI ACGGA 1 cut(s) 12
TspRI CASTG 1 cut(s) 91
VneI GTGCAC 1 cut(s) 143
XapI RAATTY 1 cut(s) 80
XcmI CCANNNNNNNNNTGG 2 cut(s) 225, 322
XspI CTAG 1 cut(s) 188
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.