Rroxscaffold_4G00330400

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0000621
Physical Location & Seq
Reverse (-)
64071985 .. 64073128
1144 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00330400.1

Sequence Viewer

Length: 324 bp
ATGGTCAAATCCTCCGACCTATCTCCTTTTGTTGGGCCGTTTGGGTCAAACGAAGGGACCGGTCGTTGGGATGATGGAGTTTACTCAACGGTGAGGCAGGTGATAATAAATTCTGATCATTCAGGCATTCGTTGGATTCAGTTTGAATACGATGAGAATGGGAGATCAGTTTTGTCAGAAAAGCATGGGTATTCTGTTCTCGGCGTGGCTAAAACACACATGTTTGCAGTGAAGACAAAGGCCAAAGAGATCAAGATCGAAGGTCCGGGCAGCGTGGTCGACCGCAAAGTGATAGTCCGATCAAGGTCGACCGGAAAGTGGTAG
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
Jacalin

Protein Analysis

107

Amino Acids

11.89

Weight (kDa)

9.52

Isoelectric Point (pI)

40.1

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Jacalin PF01419 11 - 78 8.4e-12 Jacalin-like lectin 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: OG0000621)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g32560 FvH4_3g35880 FvH4_4g19501 FvH4_4g19530 FvH4_4g19531 FvH4_4g19540 FvH4_4g19540
prunus_persica Prupe.1G121600_v2.0.a1 Prupe.1G121700_v2.0.a1
rosa_chinensis RchiOBHm_Chr4g0416301 RchiOBHm_Chr4g0424661
rosa_laevigata RLG00000007388 RLG00000007432 RLG00000007434 RLG00000007435 RLG00000007439 RLG00000007441 RLG00000007442 RLG00000007458 RLG00000007465 RLG00000007997 RLG00000008015 RLG00000008016 RLG00000008017 RLG00000035315
rosa_multiflora Rmu_co8150926.1_g000001 Rmu_co8225682.1_g000001 Rmu_co8296077.1_g000001 Rmu_sc0004841.1_g000022 Rmu_sc0006553.1_g000008 Rmu_sc0008889.1_g000002
rosa_roxburghii Rroxscaffold_1G00030220 Rroxscaffold_2G00114820 Rroxscaffold_3G00219510 Rroxscaffold_3G00255600 Rroxscaffold_4G00304060 Rroxscaffold_4G00330360 Rroxscaffold_4G00330400 Rroxscaffold_5G00359920 Rroxscaffold_5G00359930 Rroxscaffold_5G00359960 Rroxscaffold_5G00366600 Rroxscaffold_5G00366630 Rroxscaffold_5G00366640 Rroxscaffold_5G00366710 Rroxscaffold_5G00366970
rosa_rugosa Rorug04G0138400 Rorug04G0138500 Rorug04G0138700 Rorug04G0140600 Rorug04G0199000 Rorug07G0061600
rosa_samantha Rh4AG255800 Rh4AG255900 Rh4AG256000 Rh4AG256200 Rh4BG261200 Rh4BG261300 Rh4BG261600 Rh4CG212100 Rh4CG212800 Rh4CG212900 Rh4CG272300 Rh4CG272500 Rh4CG272600 Rh4CG272800 Rh4CG275800 Rh4DG255800 Rh4DG255900 Rh4DG256200 Rh4DG257200 Rh4DG257300 Rh7BG190600 Rh7CG198100
rosa_wichuraiana Rw1G001980 Rw4G022090 Rw4G024000 Rw4G024010 Rw7G016430

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 88
Acc36I ACCTGC 1 cut(s) 88
AccI GTMKAC 2 cut(s) 279, 308
AciI CCGC 1 cut(s) 283
AcsI RAATTY 1 cut(s) 109
AfiI CCNNNNNNNGG 3 cut(s) 32, 66, 318
AflIII ACRYGT 1 cut(s) 219
AgeI ACCGGT 1 cut(s) 59
AgsI TTSAA 1 cut(s) 146
AoxI GGCC 2 cut(s) 35, 240
ApeKI GCWGC 1 cut(s) 270
ApoI RAATTY 1 cut(s) 109
ArsI GACNNNNNNTTYG 2 cut(s) 279, 311
AsiGI ACCGGT 1 cut(s) 59
AspS9I GGNCC 3 cut(s) 35, 57, 263
AsuC2I CCSGG 1 cut(s) 267
AsuHPI GGTGA 2 cut(s) 103, 112
AvaII GGWCC 2 cut(s) 57, 263
BbsI GAAGAC 1 cut(s) 239
BbvI GCAGC 1 cut(s) 282
BccI CCATC 1 cut(s) 68
BceAI ACGGC 1 cut(s) 22
BcgI CGANNNNNNTGC 2 cut(s) 259, 293
BclI TGATCA 1 cut(s) 115
BcnI CCSGG 1 cut(s) 267
BfuAI ACCTGC 1 cut(s) 88
BisI GCNGC 1 cut(s) 271
BlsI GCNGC 1 cut(s) 272
Bme1390I CCNGG 1 cut(s) 267
Bme18I GGWCC 2 cut(s) 57, 263
BmgT120I GGNCC 3 cut(s) 35, 57, 263
BmiI GGNNCC 1 cut(s) 58
BmrFI CCNGG 1 cut(s) 267
BpiI GAAGAC 1 cut(s) 239
BpuMI CCSGG 1 cut(s) 267
BsaBI GATNNNNATC 1 cut(s) 254
BsaWI WCCGGW 2 cut(s) 59, 311
Bsc4I CCNNNNNNNGG 3 cut(s) 32, 66, 318
Bse118I RCCGGY 1 cut(s) 59
Bse8I GATNNNNATC 1 cut(s) 254
BseGI GGATG 1 cut(s) 76
BseJI GATNNNNATC 1 cut(s) 254
BseLI CCNNNNNNNGG 3 cut(s) 32, 66, 318
BseXI GCAGC 1 cut(s) 282
Bsh1285I CGRYCG 3 cut(s) 64, 283, 312
BshFI GGCC 2 cut(s) 37, 242
BshTI ACCGGT 1 cut(s) 59
BsiEI CGRYCG 3 cut(s) 64, 283, 312
BsiSI CCGG 3 cut(s) 60, 266, 312
BslFI GGGAC 1 cut(s) 70
BslI CCNNNNNNNGG 3 cut(s) 32, 66, 318
BsmFI GGGAC 1 cut(s) 70
BsmI GAATGC 1 cut(s) 126
BsnI GGCC 2 cut(s) 37, 242
Bsp143I GATC 5 cut(s) 115, 164, 249, 255, 299
BspACI CCGC 1 cut(s) 283
BspANI GGCC 2 cut(s) 37, 242
BspLI GGNNCC 1 cut(s) 58
BspMI ACCTGC 1 cut(s) 88
BsrFI RCCGGY 1 cut(s) 59
BssAI RCCGGY 1 cut(s) 59
BssMI GATC 5 cut(s) 115, 164, 249, 255, 299
Bst4CI ACNGT 1 cut(s) 91
BstF5I GGATG 1 cut(s) 76
BstKTI GATC 5 cut(s) 118, 167, 252, 258, 302
BstMBI GATC 5 cut(s) 115, 164, 249, 255, 299
BstMCI CGRYCG 3 cut(s) 64, 283, 312
BstNSI RCATGY 1 cut(s) 223
BstSCI CCNGG 1 cut(s) 265
BstV1I GCAGC 1 cut(s) 282
BstV2I GAAGAC 1 cut(s) 239
BsuRI GGCC 2 cut(s) 37, 242
BtsCI GGATG 1 cut(s) 76
BtsI GCAGTG 1 cut(s) 234
BtsIMutI CAGTG 1 cut(s) 234
BveI ACCTGC 1 cut(s) 88
Cfr10I RCCGGY 1 cut(s) 59
Cfr13I GGNCC 3 cut(s) 35, 57, 263
CspAI ACCGGT 1 cut(s) 59
CviAII CATG 2 cut(s) 185, 220
CviJI RGCY 3 cut(s) 37, 209, 242
CviKI_1 RGCY 3 cut(s) 37, 209, 242
DpnI GATC 5 cut(s) 117, 166, 251, 257, 301
DpnII GATC 5 cut(s) 115, 164, 249, 255, 299
Eco47I GGWCC 2 cut(s) 57, 263
FaeI CATG 2 cut(s) 188, 223
FaiI YATR 2 cut(s) 186, 221
FaqI GGGAC 1 cut(s) 70
FatI CATG 2 cut(s) 184, 219
FbaI TGATCA 1 cut(s) 115
FblI GTMKAC 2 cut(s) 279, 308
Fnu4HI GCNGC 1 cut(s) 271
FokI GGATG 1 cut(s) 83
Fsp4HI GCNGC 1 cut(s) 271
GluI GCNGC 1 cut(s) 271
HaeIII GGCC 2 cut(s) 37, 242
HapII CCGG 3 cut(s) 60, 266, 312
Hin1II CATG 2 cut(s) 188, 223
HincII GTYRAC 2 cut(s) 280, 309
HindII GTYRAC 2 cut(s) 280, 309
HinfI GANTC 1 cut(s) 136
HpaII CCGG 3 cut(s) 60, 266, 312
HphI GGTGA 2 cut(s) 103, 112
Hpy166II GTNNAC 3 cut(s) 82, 280, 309
Hpy188I TCNGA 4 cut(s) 16, 115, 178, 299
Hpy188III TCNNGA 1 cut(s) 253
Hpy8I GTNNAC 3 cut(s) 82, 280, 309
HpyAV CCTTC 2 cut(s) 47, 254
HpyCH4III ACNGT 1 cut(s) 91
HpyCH4V TGCA 1 cut(s) 227
Hsp92II CATG 2 cut(s) 188, 223
Ksp22I TGATCA 1 cut(s) 115
Kzo9I GATC 5 cut(s) 115, 164, 249, 255, 299
LpnPI CCDG 4 cut(s) 73, 83, 108, 279
Lsp1109I GCAGC 1 cut(s) 282
MalI GATC 5 cut(s) 117, 166, 251, 257, 301
MboI GATC 5 cut(s) 115, 164, 249, 255, 299
MboII GAAGA 1 cut(s) 244
MluCI AATT 1 cut(s) 109
MmeI TCCRAC 2 cut(s) 39, 113
MnlI CCTC 2 cut(s) 22, 87
MspI CCGG 3 cut(s) 60, 266, 312
MspR9I CCNGG 1 cut(s) 267
Mva1269I GAATGC 1 cut(s) 126
NciI CCSGG 1 cut(s) 267
NdeII GATC 5 cut(s) 115, 164, 249, 255, 299
NlaIII CATG 2 cut(s) 188, 223
NlaIV GGNNCC 1 cut(s) 58
NmeAIII GCCGAG 1 cut(s) 180
NspI RCATGY 1 cut(s) 223
PaqCI CACCTGC 1 cut(s) 88
PciI ACATGT 1 cut(s) 219
PctI GAATGC 1 cut(s) 126
PfeI GAWTC 1 cut(s) 136
PinAI ACCGGT 1 cut(s) 59
PkrI GCNGC 1 cut(s) 272
PscI ACATGT 1 cut(s) 219
PspN4I GGNNCC 1 cut(s) 58
PspPI GGNCC 3 cut(s) 35, 57, 263
SalI GTCGAC 2 cut(s) 278, 307
SatI GCNGC 1 cut(s) 271
Sau3AI GATC 5 cut(s) 115, 164, 249, 255, 299
Sau96I GGNCC 3 cut(s) 35, 57, 263
ScrFI CCNGG 1 cut(s) 267
SetI ASST 4 cut(s) 21, 102, 265, 308
SinI GGWCC 2 cut(s) 57, 263
Sse9I AATT 1 cut(s) 109
SsiI CCGC 1 cut(s) 283
StyD4I CCNGG 1 cut(s) 265
TaaI ACNGT 1 cut(s) 91
TaqI TCGA 3 cut(s) 258, 279, 308
TasI AATT 1 cut(s) 109
TfiI GAWTC 1 cut(s) 136
TscAI CASTG 1 cut(s) 234
TseI GCWGC 1 cut(s) 270
TspRI CASTG 1 cut(s) 234
VpaK11BI GGWCC 2 cut(s) 57, 263
XapI RAATTY 1 cut(s) 109
XceI RCATGY 1 cut(s) 223
XmiI GTMKAC 2 cut(s) 279, 308
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.