Rroxscaffold_2G00139910

Domain of unknown function (DUF4228)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0014021
Physical Location & Seq
Forward (+)
78190295 .. 78191213
919 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00139910.1

Sequence Viewer

Length: 465 bp
ATGGGAATCTGCAGCTCCACGAGCTCGACCCAAGTGGCCACCGCCAAGCTTATTCTACCCGACGGCAAACTACAGGAGTACTCCTACCCCGTCCGGGTTTCCTACGTCCTCCAGAAGCACCCCGCTTGCTTTATATGCAACGCCGACGAGATGGACTTCGACGACGTCGTTTCCGCCGTCAACGACAACGACGAGCTCCACCCGGGGCAGCTCTACTTCGCTTTGCCGACGAGCTGGCTCAAGCATCCCTTACAGGCCGACGAGATGGCCGCATTGGCCGTCAGAGCCAGCTCCGCTCTCATGAAGAGCGGCGGTGAGAAATGCGGCTTTCGGAAAAATTCCGTTTCTCCGGTGACTTTTTCCGGCGAGGAGGTGAAGTCCGGCCGGACCACCGGCGGGGCGAGGAGGGGGAGTGGTAGTGGGGGGAGGAAGTTCTCGGCAATGTTGAGTGCGATACCGGAGTAG
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

16.42

Weight (kDa)

6.82

Isoelectric Point (pI)

37.94

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PADRE PF14009 1 - 154 1.6e-28 PADRE 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: OG0014021)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G23690
fragaria_vesca FvH4_1g14400
malus_domestica MD02G1157500.v1.1 MD15G1272100.v1.1
prunus_persica Prupe.7G146200_v2.0.a1
pyrus_communis pycom02g12450
rosa_chinensis RchiOBHm_Chr2g0103121
rosa_laevigata RLG00000017210
rosa_multiflora Rmu_sc0000388.1_g000007
rosa_roxburghii Rroxscaffold_2G00139910 Rroxscaffold_2G00140190
rosa_rugosa Rorug02G0112000
rosa_samantha Rh2AG160700 Rh2BG167400 Rh2CG167700 Rh2DG166300
rosa_wichuraiana Rw2G012580

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 168
AccBSI CCGCTC 2 cut(s) 296, 309
AciI CCGC 9 cut(s) 42, 123, 174, 270, 294, 309, 312, 324, 396
AcoI YGGCCR 4 cut(s) 36, 267, 276, 382
AcsI RAATTY 1 cut(s) 337
AcyI GRCGYC 1 cut(s) 165
AfaI GTAC 1 cut(s) 80
AfiI CCNNNNNNNGG 2 cut(s) 94, 396
AluBI AGCT 7 cut(s) 15, 24, 49, 196, 211, 234, 291
AluI AGCT 7 cut(s) 15, 24, 49, 196, 211, 234, 291
Alw21I GWGCWC 2 cut(s) 26, 198
Ama87I CYCGRG 1 cut(s) 202
AoxI GGCC 5 cut(s) 36, 255, 267, 276, 382
ApeKI GCWGC 2 cut(s) 12, 208
ApoI RAATTY 1 cut(s) 337
AspS9I GGNCC 1 cut(s) 387
AsuC2I CCSGG 3 cut(s) 95, 203, 204
AsuHPI GGTGA 3 cut(s) 326, 364, 385
AvaI CYCGRG 1 cut(s) 202
AvaII GGWCC 1 cut(s) 387
BaeI ACNNNNGTAYC 1 cut(s) 446
BalI TGGCCA 1 cut(s) 38
BanII GRGCYC 2 cut(s) 26, 198
BauI CACGAG 1 cut(s) 19
Bbv12I GWGCWC 2 cut(s) 26, 198
BbvI GCAGC 2 cut(s) 24, 220
BccI CCATC 2 cut(s) 145, 259
BceAI ACGGC 3 cut(s) 79, 161, 263
BcnI CCSGG 3 cut(s) 95, 203, 204
BfmI CTRYAG 2 cut(s) 10, 71
BglI GCCNNNNNGGC 1 cut(s) 275
BisI GCNGC 5 cut(s) 13, 209, 270, 310, 325
BlsI GCNGC 5 cut(s) 14, 210, 271, 311, 326
BmcAI AGTACT 1 cut(s) 80
Bme1390I CCNGG 3 cut(s) 95, 203, 204
Bme18I GGWCC 1 cut(s) 387
BmeT110I CYCGRG 1 cut(s) 202
BmgT120I GGNCC 1 cut(s) 387
BmrFI CCNGG 3 cut(s) 95, 203, 204
BmsI GCATC 1 cut(s) 253
BpmI CTGGAG 1 cut(s) 95
BpuEI CTTGAG 1 cut(s) 224
BpuMI CCSGG 3 cut(s) 95, 203, 204
BsaHI GRCGYC 1 cut(s) 165
BsaJI CCNNGG 2 cut(s) 202, 203
BsaWI WCCGGW 2 cut(s) 349, 457
BsaXI ACNNNNNCTCC 6 cut(s) 362, 392, 397, 403, 427, 433
Bsc4I CCNNNNNNNGG 2 cut(s) 94, 396
Bse118I RCCGGY 1 cut(s) 392
Bse3DI GCAATG 1 cut(s) 447
BseDI CCNNGG 2 cut(s) 202, 203
BseGI GGATG 1 cut(s) 244
BseLI CCNNNNNNNGG 2 cut(s) 94, 396
BseMI GCAATG 1 cut(s) 447
BseRI GAGGAG 2 cut(s) 383, 418
BseX3I CGGCCG 1 cut(s) 382
BseXI GCAGC 2 cut(s) 24, 220
Bsh1285I CGRYCG 1 cut(s) 385
BshFI GGCC 5 cut(s) 38, 257, 269, 278, 384
BsiEI CGRYCG 1 cut(s) 385
BsiHKAI GWGCWC 2 cut(s) 26, 198
BsiHKCI CYCGRG 1 cut(s) 202
BsiSI CCGG 8 cut(s) 94, 203, 350, 363, 381, 385, 393, 458
BslI CCNNNNNNNGG 2 cut(s) 94, 396
BsnI GGCC 5 cut(s) 38, 257, 269, 278, 384
BsoBI CYCGRG 1 cut(s) 202
Bsp1286I GDGCHC 2 cut(s) 26, 198
BspACI CCGC 9 cut(s) 42, 123, 174, 270, 294, 309, 312, 324, 396
BspANI GGCC 5 cut(s) 38, 257, 269, 278, 384
BspHI TCATGA 1 cut(s) 300
BspMAI CTGCAG 1 cut(s) 14
BspQI GCTCTTC 1 cut(s) 299
BsrBI CCGCTC 2 cut(s) 296, 309
BsrDI GCAATG 1 cut(s) 447
BsrFI RCCGGY 1 cut(s) 392
BssAI RCCGGY 1 cut(s) 392
BssECI CCNNGG 2 cut(s) 202, 203
BssNI GRCGYC 1 cut(s) 165
BssSI CACGAG 1 cut(s) 19
Bst2BI CACGAG 1 cut(s) 19
Bst6I CTCTTC 1 cut(s) 299
BstACI GRCGYC 1 cut(s) 165
BstC8I GCNNGC 3 cut(s) 127, 236, 289
BstF5I GGATG 1 cut(s) 244
BstMCI CGRYCG 1 cut(s) 385
BstMWI GCNNNNNNNGC 5 cut(s) 21, 135, 275, 284, 293
BstSCI CCNGG 3 cut(s) 93, 201, 202
BstSFI CTRYAG 2 cut(s) 10, 71
BstV1I GCAGC 2 cut(s) 24, 220
BstZI CGGCCG 1 cut(s) 382
BsuRI GGCC 5 cut(s) 38, 257, 269, 278, 384
BtsCI GGATG 1 cut(s) 244
Cac8I GCNNGC 3 cut(s) 127, 236, 289
CciI TCATGA 1 cut(s) 300
Cfr10I RCCGGY 1 cut(s) 392
Cfr13I GGNCC 1 cut(s) 387
Cfr9I CCCGGG 1 cut(s) 202
Csp6I GTAC 1 cut(s) 79
CviAII CATG 1 cut(s) 301
CviQI GTAC 1 cut(s) 79
EaeI YGGCCR 4 cut(s) 36, 267, 276, 382
EagI CGGCCG 1 cut(s) 382
Eam1104I CTCTTC 1 cut(s) 299
EarI CTCTTC 1 cut(s) 299
EciI GGCGGA 1 cut(s) 163
Ecl136II GAGCTC 2 cut(s) 24, 196
EclXI CGGCCG 1 cut(s) 382
Eco24I GRGCYC 2 cut(s) 26, 198
Eco47I GGWCC 1 cut(s) 387
Eco52I CGGCCG 1 cut(s) 382
Eco53kI GAGCTC 2 cut(s) 24, 196
Eco88I CYCGRG 1 cut(s) 202
EcoICRI GAGCTC 2 cut(s) 24, 196
EcoT38I GRGCYC 2 cut(s) 26, 198
FaeI CATG 1 cut(s) 304
FaiI YATR 3 cut(s) 134, 136, 302
FalI AAGNNNNNCTT 2 cut(s) 233, 265
FatI CATG 1 cut(s) 300
FauI CCCGC 2 cut(s) 130, 389
Fnu4HI GCNGC 5 cut(s) 13, 209, 270, 310, 325
FokI GGATG 1 cut(s) 231
FriOI GRGCYC 2 cut(s) 26, 198
Fsp4HI GCNGC 5 cut(s) 13, 209, 270, 310, 325
GluI GCNGC 5 cut(s) 13, 209, 270, 310, 325
GsuI CTGGAG 1 cut(s) 95
HaeIII GGCC 5 cut(s) 38, 257, 269, 278, 384
HapII CCGG 8 cut(s) 94, 203, 350, 363, 381, 385, 393, 458
Hin1I GRCGYC 1 cut(s) 165
Hin1II CATG 1 cut(s) 304
HincII GTYRAC 1 cut(s) 181
HindII GTYRAC 1 cut(s) 181
HindIII AAGCTT 1 cut(s) 47
HinfI GANTC 1 cut(s) 6
HpaII CCGG 8 cut(s) 94, 203, 350, 363, 381, 385, 393, 458
HphI GGTGA 3 cut(s) 326, 364, 385
Hpy166II GTNNAC 1 cut(s) 181
Hpy188I TCNGA 2 cut(s) 284, 333
Hpy188III TCNNGA 2 cut(s) 112, 301
Hpy8I GTNNAC 1 cut(s) 181
Hpy99I CGWCG 8 cut(s) 65, 149, 164, 167, 170, 194, 232, 263
HpyCH4IV ACGT 2 cut(s) 105, 165
HpyCH4V TGCA 2 cut(s) 12, 138
HpyF10VI GCNNNNNNNGC 5 cut(s) 21, 135, 275, 284, 293
HpySE526I ACGT 2 cut(s) 105, 165
Hsp92I GRCGYC 1 cut(s) 165
Hsp92II CATG 1 cut(s) 304
LguI GCTCTTC 1 cut(s) 299
LmnI GCTCC 3 cut(s) 20, 201, 296
Lsp1109I GCAGC 2 cut(s) 24, 220
LweI GCATC 1 cut(s) 253
MaeII ACGT 2 cut(s) 105, 165
MaeIII GTNAC 1 cut(s) 352
MbiI CCGCTC 2 cut(s) 296, 309
MboII GAAGA 1 cut(s) 316
MhlI GDGCHC 2 cut(s) 26, 198
MlsI TGGCCA 1 cut(s) 38
MluCI AATT 1 cut(s) 337
MluNI TGGCCA 1 cut(s) 38
MnlI CCTC 6 cut(s) 119, 361, 364, 396, 399, 420
Mox20I TGGCCA 1 cut(s) 38
MscI TGGCCA 1 cut(s) 38
Msp20I TGGCCA 1 cut(s) 38
MspI CCGG 8 cut(s) 94, 203, 350, 363, 381, 385, 393, 458
MspR9I CCNGG 3 cut(s) 95, 203, 204
MwoI GCNNNNNNNGC 5 cut(s) 21, 135, 275, 284, 293
NciI CCSGG 3 cut(s) 95, 203, 204
NlaIII CATG 1 cut(s) 304
NmeAIII GCCGAG 1 cut(s) 416
NmuCI GTSAC 1 cut(s) 352
PagI TCATGA 1 cut(s) 300
PciSI GCTCTTC 1 cut(s) 299
PcsI WCGNNNNNNNCGW 3 cut(s) 165, 174, 189
PfeI GAWTC 1 cut(s) 6
PflFI GACNNNGTC 1 cut(s) 164
PkrI GCNGC 5 cut(s) 14, 210, 271, 311, 326
Psp124BI GAGCTC 2 cut(s) 26, 198
PspPI GGNCC 1 cut(s) 387
PstI CTGCAG 1 cut(s) 14
PsyI GACNNNGTC 1 cut(s) 164
RsaI GTAC 1 cut(s) 80
RsaNI GTAC 1 cut(s) 79
SacI GAGCTC 2 cut(s) 26, 198
SapI GCTCTTC 1 cut(s) 299
SatI GCNGC 5 cut(s) 13, 209, 270, 310, 325
Sau96I GGNCC 1 cut(s) 387
ScaI AGTACT 1 cut(s) 80
ScrFI CCNGG 3 cut(s) 95, 203, 204
SduI GDGCHC 2 cut(s) 26, 198
SfaNI GCATC 1 cut(s) 253
SfcI CTRYAG 2 cut(s) 10, 71
SfiI GGCCNNNNNGGCC 1 cut(s) 275
SgrAI CRCCGGYG 1 cut(s) 392
SinI GGWCC 1 cut(s) 387
SmaI CCCGGG 1 cut(s) 204
SmlI CTYRAG 1 cut(s) 239
SmoI CTYRAG 1 cut(s) 239
Sse9I AATT 1 cut(s) 337
SsiI CCGC 9 cut(s) 42, 123, 174, 270, 294, 309, 312, 324, 396
SstI GAGCTC 2 cut(s) 26, 198
StyD4I CCNGG 3 cut(s) 93, 201, 202
TaiI ACGT 2 cut(s) 108, 168
TaqI TCGA 2 cut(s) 26, 159
TasI AATT 1 cut(s) 337
TatI WGTACW 1 cut(s) 78
TauI GCSGC 3 cut(s) 272, 312, 327
TfiI GAWTC 1 cut(s) 6
TseFI GTSAC 1 cut(s) 352
TseI GCWGC 2 cut(s) 12, 208
Tsp45I GTSAC 1 cut(s) 352
TspDTI ATGAA 1 cut(s) 317
TspGWI ACGGA 1 cut(s) 331
TspMI CCCGGG 1 cut(s) 202
Tth111I GACNNNGTC 1 cut(s) 164
VpaK11BI GGWCC 1 cut(s) 387
XapI RAATTY 1 cut(s) 337
XmaI CCCGGG 1 cut(s) 202
ZraI GACGTC 1 cut(s) 166
ZrmI AGTACT 1 cut(s) 80
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.