Rroxscaffold_2G00084020

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0016571
Physical Location & Seq
Forward (+)
6528218 .. 6528850
633 bp
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UTR
Exon/CDS
Intron
Rroxscaffold_2G00084020.1

Sequence Viewer

Length: 633 bp
ATGCAAATGTGCCTCCCTGTCCGCTCCCCAACTTGGGTCTCCCGCCGACGACTCCTCGACCAAAACCTCGCCGACCTCCACCGCTGCACAAACCTCAGCCACATCAAGCAACTCCACGCCCAAATCCTCAAATCCCATCTCCACCAAGACCTCCACACCGCCCCCAAGCTCATCGCCGCCTTCTCTCTCTGCCGCCAGATGGCCCTCGCCGTCAACGTCTTCAACCAAGTCCACCACCCCAATGTTCACTTGTACAACACTCTCATAAGAGCTCACATCCACAACTCCCAGAGCTCCCAGGCTTTCGCGGCCTTCTTCGATATGCAGCTCCATGGGGTTTACCCTGATAATTTCACCTTCCCTTTTCTTCTAAAGGCGTGTTCCGGCAGGAATTGGCTGCCTGTGGTGCAGATGATTCATGCCCAGGTTGAGAAATTCGGGTTCTGTGGCGACATTTTCGTGCCGAATTCGCTGATTGATACCTACTCGAAGTGTGGATTGGTTGGTGTTAGTGAGGCGAGGAAGTTGTTTAGGGTGATGGGTGAGAGAGATATTGTTTCTTGGAACTCTATGATTGGGGGTTGGCGAAAGCTGGGGAGGGGAGCTGAGAGATGCACGCATCTTGTTCGATGA

Protein Analysis

210

Amino Acids

24.01

Weight (kDa)

9.75

Isoelectric Point (pI)

42.5

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 80 - 127 1.8e-10 PPR repeat family
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: OG0016571)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G29230
fragaria_vesca FvH4_6g47760
malus_domestica MD17G1054700.v1.1
prunus_persica Prupe.3G261400_v2.0.a1
rosa_chinensis RchiOBHm_Chr2g0166911
rosa_laevigata RLG00000021678
rosa_multiflora Rmu_sc0002735.1_g000016 Rmu_sc0005344.1_g000009
rosa_roxburghii Rroxscaffold_2G00084020
rosa_rugosa Rorug02G0526300
rosa_samantha Rh2BG604800 Rh2CG575500 Rh2DG616400
rosa_wichuraiana Rw2G049390

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 24
AccII CGCG 1 cut(s) 308
AciI CCGC 7 cut(s) 22, 43, 82, 159, 177, 193, 308
AcsI RAATTY 2 cut(s) 434, 466
AfaI GTAC 1 cut(s) 254
AfiI CCNNNNNNNGG 3 cut(s) 33, 34, 199
AgsI TTSAA 1 cut(s) 223
AjnI CCWGG 2 cut(s) 297, 423
AjuI GAANNNNNNNTTGG 2 cut(s) 482, 514
AluBI AGCT 6 cut(s) 169, 272, 294, 328, 592, 605
AluI AGCT 6 cut(s) 169, 272, 294, 328, 592, 605
Alw21I GWGCWC 2 cut(s) 274, 296
Alw26I GTCTC 1 cut(s) 43
AoxI GGCC 2 cut(s) 201, 309
ApeKI GCWGC 3 cut(s) 84, 325, 397
ApoI RAATTY 2 cut(s) 434, 466
AspS9I GGNCC 1 cut(s) 202
AsuHPI GGTGA 3 cut(s) 346, 547, 554
BanII GRGCYC 2 cut(s) 274, 296
BbsI GAAGAC 1 cut(s) 211
Bbv12I GWGCWC 2 cut(s) 274, 296
BbvCI CCTCAGC 1 cut(s) 95
BbvI GCAGC 3 cut(s) 71, 337, 384
BccI CCATC 3 cut(s) 144, 193, 532
BceAI ACGGC 1 cut(s) 194
BcgI CGANNNNNNTGC 1 cut(s) 608
BciT130I CCWGG 2 cut(s) 299, 425
BcoDI GTCTC 1 cut(s) 43
BisI GCNGC 6 cut(s) 85, 177, 193, 309, 326, 398
BlsI GCNGC 6 cut(s) 86, 178, 194, 310, 327, 399
Bme1390I CCNGG 2 cut(s) 299, 425
BmgT120I GGNCC 1 cut(s) 202
BmrFI CCNGG 2 cut(s) 299, 425
BmsI GCATC 2 cut(s) 602, 628
BpiI GAAGAC 1 cut(s) 211
Bpu10I CCTNAGC 1 cut(s) 95
BsaI GGTCTC 1 cut(s) 43
BsaJI CCNNGG 3 cut(s) 297, 331, 423
Bsc4I CCNNNNNNNGG 3 cut(s) 33, 34, 199
BseBI CCWGG 2 cut(s) 299, 425
BseDI CCNNGG 3 cut(s) 297, 331, 423
BseGI GGATG 1 cut(s) 276
BseLI CCNNNNNNNGG 3 cut(s) 33, 34, 199
BseMII CTCAG 2 cut(s) 109, 597
BseRI GAGGAG 1 cut(s) 44
BseXI GCAGC 3 cut(s) 71, 337, 384
BseYI CCCAGC 1 cut(s) 592
BsgI GTGCAG 2 cut(s) 70, 428
Bsh1236I CGCG 1 cut(s) 308
BshFI GGCC 2 cut(s) 203, 311
BsiHKAI GWGCWC 2 cut(s) 274, 296
BsiSI CCGG 1 cut(s) 384
BslI CCNNNNNNNGG 3 cut(s) 33, 34, 199
BsmAI GTCTC 1 cut(s) 43
BsnI GGCC 2 cut(s) 203, 311
Bso31I GGTCTC 1 cut(s) 43
Bsp1286I GDGCHC 2 cut(s) 274, 296
Bsp1407I TGTACA 1 cut(s) 252
Bsp19I CCATGG 1 cut(s) 331
BspACI CCGC 7 cut(s) 22, 43, 82, 159, 177, 193, 308
BspANI GGCC 2 cut(s) 203, 311
BspCNI CTCAG 2 cut(s) 108, 598
BspFNI CGCG 1 cut(s) 308
BspTNI GGTCTC 1 cut(s) 43
BsrBI CCGCTC 1 cut(s) 24
BsrGI TGTACA 1 cut(s) 252
BssECI CCNNGG 3 cut(s) 297, 331, 423
BssT1I CCWWGG 1 cut(s) 331
Bst2UI CCWGG 2 cut(s) 299, 425
BstAUI TGTACA 1 cut(s) 252
BstC8I GCNNGC 1 cut(s) 617
BstDEI CTNAG 2 cut(s) 95, 606
BstDSI CCRYGG 1 cut(s) 331
BstF5I GGATG 1 cut(s) 276
BstFNI CGCG 1 cut(s) 308
BstMAI GTCTC 1 cut(s) 43
BstMWI GCNNNNNNNGC 3 cut(s) 308, 406, 469
BstNI CCWGG 2 cut(s) 299, 425
BstSCI CCNGG 2 cut(s) 297, 423
BstUI CGCG 1 cut(s) 308
BstV1I GCAGC 3 cut(s) 71, 337, 384
BstV2I GAAGAC 1 cut(s) 211
BsuRI GGCC 2 cut(s) 203, 311
BtgI CCRYGG 1 cut(s) 331
BtgZI GCGATG 1 cut(s) 157
BtsCI GGATG 1 cut(s) 276
Cac8I GCNNGC 1 cut(s) 617
Cfr13I GGNCC 1 cut(s) 202
Csp6I GTAC 1 cut(s) 253
CviAII CATG 2 cut(s) 332, 419
CviQI GTAC 1 cut(s) 253
DdeI CTNAG 2 cut(s) 95, 606
Ecl136II GAGCTC 2 cut(s) 272, 294
Eco130I CCWWGG 1 cut(s) 331
Eco24I GRGCYC 2 cut(s) 274, 296
Eco31I GGTCTC 1 cut(s) 43
Eco53kI GAGCTC 2 cut(s) 272, 294
EcoICRI GAGCTC 2 cut(s) 272, 294
EcoRI GAATTC 1 cut(s) 466
EcoRII CCWGG 2 cut(s) 297, 423
EcoT14I CCWWGG 1 cut(s) 331
EcoT38I GRGCYC 2 cut(s) 274, 296
ErhI CCWWGG 1 cut(s) 331
FaeI CATG 2 cut(s) 335, 422
FaiI YATR 5 cut(s) 266, 323, 333, 420, 572
FatI CATG 2 cut(s) 331, 418
FauI CCCGC 1 cut(s) 50
Fnu4HI GCNGC 6 cut(s) 85, 177, 193, 309, 326, 398
FokI GGATG 1 cut(s) 263
FriOI GRGCYC 2 cut(s) 274, 296
Fsp4HI GCNGC 6 cut(s) 85, 177, 193, 309, 326, 398
GluI GCNGC 6 cut(s) 85, 177, 193, 309, 326, 398
GsaI CCCAGC 1 cut(s) 596
HaeIII GGCC 2 cut(s) 203, 311
HapII CCGG 1 cut(s) 384
Hin1II CATG 2 cut(s) 335, 422
HincII GTYRAC 1 cut(s) 214
HindII GTYRAC 1 cut(s) 214
HinfI GANTC 2 cut(s) 51, 415
HpaII CCGG 1 cut(s) 384
HphI GGTGA 3 cut(s) 346, 547, 554
Hpy166II GTNNAC 4 cut(s) 214, 232, 247, 340
Hpy8I GTNNAC 4 cut(s) 214, 232, 247, 340
Hpy99I CGWCG 1 cut(s) 51
HpyAV CCTTC 3 cut(s) 190, 322, 367
HpyCH4IV ACGT 1 cut(s) 216
HpyCH4V TGCA 5 cut(s) 4, 87, 325, 409, 615
HpyF10VI GCNNNNNNNGC 3 cut(s) 308, 406, 469
HpyF3I CTNAG 2 cut(s) 95, 606
HpySE526I ACGT 1 cut(s) 216
Hsp92II CATG 2 cut(s) 335, 422
LmnI GCTCC 4 cut(s) 29, 299, 333, 602
Lsp1109I GCAGC 3 cut(s) 71, 337, 384
LweI GCATC 2 cut(s) 602, 628
MaeII ACGT 1 cut(s) 216
MbiI CCGCTC 1 cut(s) 24
MboII GAAGA 3 cut(s) 211, 307, 359
MhlI GDGCHC 2 cut(s) 274, 296
MluCI AATT 4 cut(s) 349, 391, 434, 466
MlyI GAGTC 1 cut(s) 45
MslI CAYNNNNRTG 2 cut(s) 240, 458
MspA1I CMGCKG 1 cut(s) 84
MspI CCGG 1 cut(s) 384
MspR9I CCNGG 2 cut(s) 299, 425
MvaI CCWGG 2 cut(s) 299, 425
MvnI CGCG 1 cut(s) 308
MwoI GCNNNNNNNGC 3 cut(s) 308, 406, 469
NcoI CCATGG 1 cut(s) 331
NlaIII CATG 2 cut(s) 335, 422
PcsI WCGNNNNNNNCGW 1 cut(s) 213
PfeI GAWTC 1 cut(s) 415
PkrI GCNGC 6 cut(s) 86, 178, 194, 310, 327, 399
PleI GAGTC 1 cut(s) 45
PpsI GAGTC 1 cut(s) 45
Psp124BI GAGCTC 2 cut(s) 274, 296
Psp6I CCWGG 2 cut(s) 297, 423
PspFI CCCAGC 1 cut(s) 592
PspGI CCWGG 2 cut(s) 297, 423
PspPI GGNCC 1 cut(s) 202
RsaI GTAC 1 cut(s) 254
RsaNI GTAC 1 cut(s) 253
RseI CAYNNNNRTG 2 cut(s) 240, 458
SacI GAGCTC 2 cut(s) 274, 296
SatI GCNGC 6 cut(s) 85, 177, 193, 309, 326, 398
Sau96I GGNCC 1 cut(s) 202
SchI GAGTC 1 cut(s) 45
ScrFI CCNGG 2 cut(s) 299, 425
SduI GDGCHC 2 cut(s) 274, 296
SfaNI GCATC 2 cut(s) 602, 628
SmiMI CAYNNNNRTG 2 cut(s) 240, 458
Sse9I AATT 4 cut(s) 349, 391, 434, 466
SsiI CCGC 7 cut(s) 22, 43, 82, 159, 177, 193, 308
SstI GAGCTC 2 cut(s) 274, 296
StyD4I CCNGG 2 cut(s) 297, 423
StyI CCWWGG 1 cut(s) 331
TaiI ACGT 1 cut(s) 219
TaqI TCGA 4 cut(s) 57, 318, 488, 628
TasI AATT 4 cut(s) 349, 391, 434, 466
TatI WGTACW 1 cut(s) 252
TauI GCSGC 3 cut(s) 179, 195, 311
TfiI GAWTC 1 cut(s) 415
TseI GCWGC 3 cut(s) 84, 325, 397
TspDTI ATGAA 1 cut(s) 407
XapI RAATTY 2 cut(s) 434, 466
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.