Rh4AG363400

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4A
OG0016835
Physical Location & Seq
Reverse (-)
67209841 .. 67210455
615 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4AG363400.1

Sequence Viewer

Length: 615 bp
ATGGAGGCAGCTCAGGTCAGGCCGGATGATATCACCTTCATTGCTGTGTTTACTGCTTGTAGTTATGCAGGAATGGCATATGAAGGCATGAGGGTGTTGGATAAAATGTGTAATGTATACAATATTAGGCCGAAAAGTGAACATTATGGCTGCATTGTTGACCTTCTAAGTCGTGCTGGTCTCTTTGAAGAAGCAAGGGAAATAATCGAAAGAATACCCAGTTCAAGTAACCCTTCTGAAGAAACAGTAGCTTGGAGAGCTTTTCTCAGCGCTTGTTGCAATCATGGACAGTCTCAACTAGCTGAGATTGCTGCAGAGAAACTCTTTCAGCTAGAACGTCACAGTGGCGTGTATGTCTTGCTCTCAAATTTATATGCAGCTGCCGGAAAGCATGGTGATGCCAGGAGAATGAGAAGTTTGATGAGAAATATAGGAGTAGATAAGGCCCCGGGTTGCAGTTCGGTCGAGATTGATAGAGCTGTTTATGAATTCATTGCAGGGGAGAAAACACACCCTCAAATGGAAGAAATTCAGTTAGTTTTGCAAACTATAATGAAGCAAATGGATTTTTCAGGCAGTGATTATCCATATTTGTTTCTGGTTAACAAGAAATGA
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
PPR PPR_2

Protein Analysis

204

Amino Acids

22.9

Weight (kDa)

5.77

Isoelectric Point (pI)

51.45

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
E_motif PF20431 97 - 156 3.6e-15 E motif
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: OG0016835)

Species Orthologous Gene IDs
fragaria_vesca FvH4_4g30430
malus_domestica MD16G1063600.v1.1
prunus_persica Prupe.1G282900_v2.0.a1
rosa_chinensis RchiOBHm_Chr4g0438721
rosa_laevigata RLG00000006334
rosa_multiflora Rmu_sc0000144.1_g000047 Rmu_sc0002505.1_g000006
rosa_roxburghii Rroxscaffold_5G00379760
rosa_rugosa Rorug04G0312800
rosa_samantha Rh4AG363400 Rh4BG374800 Rh4CG389000
rosa_wichuraiana Rw0G007190 Rw0G016740

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 117
AcsI RAATTY 3 cut(s) 367, 488, 528
AcuI CTGAAG 1 cut(s) 258
AfeI AGCGCT 1 cut(s) 271
AfiI CCNNNNNNNGG 1 cut(s) 520
AgsI TTSAA 2 cut(s) 188, 225
AjnI CCWGG 1 cut(s) 401
AluBI AGCT 7 cut(s) 11, 251, 260, 302, 331, 380, 479
AluI AGCT 7 cut(s) 11, 251, 260, 302, 331, 380, 479
Alw26I GTCTC 2 cut(s) 185, 297
Ama87I CYCGRG 1 cut(s) 448
Aor51HI AGCGCT 1 cut(s) 271
AoxI GGCC 3 cut(s) 20, 128, 444
ApeKI GCWGC 5 cut(s) 8, 150, 311, 377, 380
ApoI RAATTY 3 cut(s) 367, 488, 528
Asp700I GAANNNNTTC 1 cut(s) 528
AspLEI GCGC 1 cut(s) 272
AspS9I GGNCC 1 cut(s) 445
AsuC2I CCSGG 2 cut(s) 449, 450
AsuHPI GGTGA 2 cut(s) 25, 407
AvaI CYCGRG 1 cut(s) 448
BbvI GCAGC 5 cut(s) 20, 137, 298, 367, 389
BcgI CGANNNNNNTGC 2 cut(s) 445, 479
BciT130I CCWGG 1 cut(s) 403
BcnI CCSGG 2 cut(s) 449, 450
BcoDI GTCTC 2 cut(s) 185, 297
BfaI CTAG 2 cut(s) 299, 332
BfmI CTRYAG 1 cut(s) 312
BfoI RGCGCY 1 cut(s) 273
BisI GCNGC 5 cut(s) 9, 151, 312, 378, 381
BlsI GCNGC 5 cut(s) 10, 152, 313, 379, 382
Bme1390I CCNGG 3 cut(s) 403, 449, 450
BmeT110I CYCGRG 1 cut(s) 448
BmgT120I GGNCC 1 cut(s) 445
BmiI GGNNCC 1 cut(s) 447
BmrFI CCNGG 3 cut(s) 403, 449, 450
BmrI ACTGGG 1 cut(s) 213
BmsI GCATC 1 cut(s) 388
BmuI ACTGGG 1 cut(s) 213
BplI GAGNNNNNCTC 2 cut(s) 249, 281
Bpu10I CCTNAGC 1 cut(s) 12
BpuMI CCSGG 2 cut(s) 449, 450
BsaI GGTCTC 1 cut(s) 185
BsaJI CCNNGG 2 cut(s) 447, 448
Bsc4I CCNNNNNNNGG 1 cut(s) 520
Bse1I ACTGG 1 cut(s) 219
Bse3DI GCAATG 2 cut(s) 39, 492
BseBI CCWGG 1 cut(s) 403
BseDI CCNNGG 2 cut(s) 447, 448
BseGI GGATG 1 cut(s) 31
BseLI CCNNNNNNNGG 1 cut(s) 520
BseMI GCAATG 2 cut(s) 39, 492
BseMII CTCAG 3 cut(s) 26, 280, 294
BseNI ACTGG 1 cut(s) 219
BseXI GCAGC 5 cut(s) 20, 137, 298, 367, 389
Bsh1285I CGRYCG 1 cut(s) 465
BshFI GGCC 3 cut(s) 22, 130, 446
BsiEI CGRYCG 1 cut(s) 465
BsiHKCI CYCGRG 1 cut(s) 448
BsiSI CCGG 3 cut(s) 23, 384, 449
BslI CCNNNNNNNGG 1 cut(s) 520
BsmAI GTCTC 2 cut(s) 185, 297
BsnI GGCC 3 cut(s) 22, 130, 446
Bso31I GGTCTC 1 cut(s) 185
BsoBI CYCGRG 1 cut(s) 448
BspANI GGCC 3 cut(s) 22, 130, 446
BspCNI CTCAG 3 cut(s) 25, 279, 295
BspLI GGNNCC 1 cut(s) 447
BspMAI CTGCAG 1 cut(s) 316
BspTNI GGTCTC 1 cut(s) 185
BsrDI GCAATG 2 cut(s) 39, 492
BsrI ACTGG 1 cut(s) 219
BssECI CCNNGG 2 cut(s) 447, 448
BssNAI GTATAC 1 cut(s) 118
Bst1107I GTATAC 1 cut(s) 118
Bst2UI CCWGG 1 cut(s) 403
Bst4CI ACNGT 3 cut(s) 247, 291, 344
BstDEI CTNAG 4 cut(s) 12, 167, 266, 303
BstF5I GGATG 1 cut(s) 31
BstH2I RGCGCY 1 cut(s) 273
BstHHI GCGC 1 cut(s) 272
BstMAI GTCTC 2 cut(s) 185, 297
BstMCI CGRYCG 1 cut(s) 465
BstMWI GCNNNNNNNGC 4 cut(s) 74, 257, 276, 308
BstNI CCWGG 1 cut(s) 403
BstSCI CCNGG 3 cut(s) 401, 447, 448
BstSFI CTRYAG 1 cut(s) 312
BstV1I GCAGC 5 cut(s) 20, 137, 298, 367, 389
BstZ17I GTATAC 1 cut(s) 118
BsuRI GGCC 3 cut(s) 22, 130, 446
BtsCI GGATG 1 cut(s) 31
BtsI GCAGTG 1 cut(s) 583
BtsIMutI CAGTG 2 cut(s) 349, 583
CfoI GCGC 1 cut(s) 272
Cfr13I GGNCC 1 cut(s) 445
Cfr9I CCCGGG 1 cut(s) 448
CviAII CATG 3 cut(s) 88, 284, 392
DdeI CTNAG 4 cut(s) 12, 167, 266, 303
Eco31I GGTCTC 1 cut(s) 185
Eco32I GATATC 1 cut(s) 31
Eco47III AGCGCT 1 cut(s) 271
Eco57I CTGAAG 1 cut(s) 258
Eco88I CYCGRG 1 cut(s) 448
EcoO109I RGGNCCY 1 cut(s) 445
EcoRI GAATTC 1 cut(s) 488
EcoRII CCWGG 1 cut(s) 401
EcoRV GATATC 1 cut(s) 31
FaeI CATG 3 cut(s) 91, 287, 395
FalI AAGNNNNNCTT 2 cut(s) 217, 249
FatI CATG 3 cut(s) 87, 283, 391
FauNDI CATATG 1 cut(s) 79
FblI GTMKAC 1 cut(s) 117
Fnu4HI GCNGC 5 cut(s) 9, 151, 312, 378, 381
FokI GGATG 1 cut(s) 38
Fsp4HI GCNGC 5 cut(s) 9, 151, 312, 378, 381
FspBI CTAG 2 cut(s) 299, 332
GlaI GCGC 1 cut(s) 271
GluI GCNGC 5 cut(s) 9, 151, 312, 378, 381
HaeII RGCGCY 1 cut(s) 273
HaeIII GGCC 3 cut(s) 22, 130, 446
HapII CCGG 3 cut(s) 23, 384, 449
HhaI GCGC 1 cut(s) 272
Hin1II CATG 3 cut(s) 91, 287, 395
Hin6I GCGC 1 cut(s) 270
HinP1I GCGC 1 cut(s) 270
HincII GTYRAC 2 cut(s) 160, 604
HindII GTYRAC 2 cut(s) 160, 604
HpaI GTTAAC 1 cut(s) 604
HpaII CCGG 3 cut(s) 23, 384, 449
HphI GGTGA 2 cut(s) 25, 407
Hpy166II GTNNAC 5 cut(s) 51, 118, 140, 160, 604
Hpy188I TCNGA 1 cut(s) 238
Hpy188III TCNNGA 1 cut(s) 466
Hpy8I GTNNAC 5 cut(s) 51, 118, 140, 160, 604
HpyAV CCTTC 4 cut(s) 46, 77, 173, 243
HpyCH4III ACNGT 3 cut(s) 247, 291, 344
HpyCH4IV ACGT 1 cut(s) 337
HpyCH4V TGCA 8 cut(s) 68, 153, 279, 314, 377, 456, 497, 544
HpyF10VI GCNNNNNNNGC 4 cut(s) 74, 257, 276, 308
HpyF3I CTNAG 4 cut(s) 12, 167, 266, 303
HpySE526I ACGT 1 cut(s) 337
Hsp92II CATG 3 cut(s) 91, 287, 395
HspAI GCGC 1 cut(s) 270
KspAI GTTAAC 1 cut(s) 604
Lsp1109I GCAGC 5 cut(s) 20, 137, 298, 367, 389
LweI GCATC 1 cut(s) 388
MaeI CTAG 2 cut(s) 299, 332
MaeII ACGT 1 cut(s) 337
MaeIII GTNAC 2 cut(s) 227, 338
MboII GAAGA 3 cut(s) 200, 251, 536
MluCI AATT 3 cut(s) 367, 488, 528
MmeI TCCRAC 1 cut(s) 78
MnlI CCTC 2 cut(s) 84, 525
MroXI GAANNNNTTC 1 cut(s) 528
MseI TTAA 1 cut(s) 603
MslI CAYNNNNRTG 3 cut(s) 44, 92, 396
MspA1I CMGCKG 1 cut(s) 380
MspI CCGG 3 cut(s) 23, 384, 449
MspR9I CCNGG 3 cut(s) 403, 449, 450
MvaI CCWGG 1 cut(s) 403
MwoI GCNNNNNNNGC 4 cut(s) 74, 257, 276, 308
NciI CCSGG 2 cut(s) 449, 450
NdeI CATATG 1 cut(s) 79
NlaIII CATG 3 cut(s) 91, 287, 395
NlaIV GGNNCC 1 cut(s) 447
NmuCI GTSAC 1 cut(s) 338
PdmI GAANNNNTTC 1 cut(s) 528
PkrI GCNGC 5 cut(s) 10, 152, 313, 379, 382
Psp6I CCWGG 1 cut(s) 401
PspGI CCWGG 1 cut(s) 401
PspN4I GGNNCC 1 cut(s) 447
PspPI GGNCC 1 cut(s) 445
PstI CTGCAG 1 cut(s) 316
PvuII CAGCTG 1 cut(s) 380
RseI CAYNNNNRTG 3 cut(s) 44, 92, 396
SaqAI TTAA 1 cut(s) 603
SatI GCNGC 5 cut(s) 9, 151, 312, 378, 381
Sau96I GGNCC 1 cut(s) 445
ScrFI CCNGG 3 cut(s) 403, 449, 450
SfaNI GCATC 1 cut(s) 388
SfcI CTRYAG 1 cut(s) 312
SmaI CCCGGG 1 cut(s) 450
SmiMI CAYNNNNRTG 3 cut(s) 44, 92, 396
Sse9I AATT 3 cut(s) 367, 488, 528
SspI AATATT 1 cut(s) 124
SspMI CTAG 2 cut(s) 299, 332
StyD4I CCNGG 3 cut(s) 401, 447, 448
TaaI ACNGT 3 cut(s) 247, 291, 344
TaiI ACGT 1 cut(s) 340
TaqI TCGA 2 cut(s) 207, 465
TaqII GACCGA 1 cut(s) 451
TasI AATT 3 cut(s) 367, 488, 528
Tru1I TTAA 1 cut(s) 603
Tru9I TTAA 1 cut(s) 603
TscAI CASTG 2 cut(s) 349, 583
TseFI GTSAC 1 cut(s) 338
TseI GCWGC 5 cut(s) 8, 150, 311, 377, 380
Tsp45I GTSAC 1 cut(s) 338
TspDTI ATGAA 5 cut(s) 28, 96, 481, 501, 569
TspMI CCCGGG 1 cut(s) 448
TspRI CASTG 2 cut(s) 349, 583
XapI RAATTY 3 cut(s) 367, 488, 528
XmaI CCCGGG 1 cut(s) 448
XmiI GTMKAC 1 cut(s) 117
XmnI GAANNNNTTC 1 cut(s) 528
XspI CTAG 2 cut(s) 299, 332
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.