RLG00000025002

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr5
OG0015649
Physical Location & Seq
Reverse (-)
41248800 .. 41250505
1706 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000025002

Sequence Viewer

Length: 1575 bp
ATGGACCTCTCTGTGTCTTTGATGCCTTCTCCATATCCTGTAAGCTTCAAACTTGTTCAGACTCCCTCTCCATACAGAAGCAGATACATAAGAACCCAACAAGGTAAGCTACTAACTTTCACAACACTTCCATGCTCTGCTAGAAACCTTGCTGATAGAACACACCAGACATCCCCAAAAGATAATGGCTTTCACTTCCATAGTGAGGAAGCCAAGTTGGGTTTTGATGAAATTACTAGTAGATTGCATGTACAGAGTTTAGTTGACAGAATTAGAGCTCTGCACACTGGAGAGACAAGTGAAATTGTTAGTATTTTTGAGCAAGATGGTTGCTTTAGAACCATTTCTGAGTTCAATGATTTGCTCATGGCTTTAGTTGTAGCGAAAGAGTTTGATATTGCTTTGAGCTTGTATGATGAAATATCATCTTACTGTTTAGTTCCTGATTCTTCCACATTTTCTATTGTGATTACCTGTTACTGTGAGAAAAATGATCTGGATGCGGCCAAGAGGGTTTTAGTCCATATGATTGAAAATGGGTTTAGCCCAAGTGTTGCAACAATGACTTTTGTGATAGATTCATTATGCAAAAAGGGTAGATTGCAAAGAGCTTTGCAGGTTTTTGAGGTGATGGGTAGAGTTGGGTCCAAGCCCACTGTTCAAATGTACAATTGCTTGTTAAAGGGTTTGTGCTATGTGGGAAGAGTGGAGGATGCATATGAAATGTTGATGACGATAAAGAAGGGTGTTGTAAAACCTGACATTTTTACATACACAGCTGTTATGGATGGTTTTTGTAAAGTGGGTCGCACAGATGAGGCAATGGAACTGCTTAATGAAGCTGTGGAGTTGGGATTGATACCAGATGTGGTTGCTTTCAATACTCTGTTTGATGGGTACTGCAGGGAGGGTAGGGCAATGGAGGGACTTAATGTGTTGAAGCAGATGAAGGAGAGAAACTGCATCCCTGATTATATTACATATAGCACATTGTTACATGGATTGTTGAAATGGGGTAAGACCCGTAATGCGCTAAGGATTTACAAGGAGATGGTGGAAATTGGTTTCGAAGTGGATGAGAGATTGACGAATGCTCTTGTGAGAGGGTTGTGCAGGAGATCATCGAAGGAAAAAGACCTGTTGGAAGATGCCTGTGAACTGTTTGAAAAATTGCAGAATGGGGTTTCTGACATAGAAGCTAGTACATATGGGCTTATGATCCAAAGGCTTTGCATGGAAAAGAAGATTGATGACGCTATGATCAATTTGAAGCAGATGATGGCAGTGGGTTATTCACCATGGATGATCACCTTTAACAAAGTGATTCAAACCCTCTGTTCCGAGGACAAGATGATTGATGCATTATTAGTTTTAGGTACTGCGTATGAATGTGATAGAGTAGCAAGTAGAGCAACTTATAACCTTTTGATTCAAAAGTTGAATCAACATGGCAATATGCTAGAAGCTTGTAGTGCTTGCATTGCACTGAAATTGGAAGCTAACAGTATTTTAAGTGCCTATTGGCTAGCTGTCAAGGTTGAGAAAGCAGGGGGTCATAGTTCCCTGGGTACTTGA
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_1 PPR_2 PPR_3

Protein Analysis

525

Amino Acids

58.91

Weight (kDa)

5.95

Isoelectric Point (pI)

33.97

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_1 PF12854 145 - 176 1.7e-06 PPR repeat
PPR_2 PF13041 148 - 197 4.5e-11 PPR repeat family
PPR_3 PF13812 172 - 228 1.6e-06 Pentatricopeptide repeat domain
PPR_1 PF12854 179 - 211 1e-06 PPR repeat
PPR_2 PF13041 183 - 231 6.1e-11 PPR repeat family
PPR_long PF17177 187 - 340 1.6e-06 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 208 - 263 1.4e-06 Pentatricopeptide repeat domain
PPR_1 PF12854 215 - 243 1.3e-06 PPR repeat
PPR_2 PF13041 218 - 267 3e-13 PPR repeat family
PPR_1 PF12854 251 - 280 1.1e-10 PPR repeat
PPR_2 PF13041 253 - 291 8.7e-09 PPR repeat family
PPR PF01535 256 - 286 3.7e-07 PPR repeat
PPR_3 PF13812 277 - 332 2e-07 Pentatricopeptide repeat domain
PPR_1 PF12854 285 - 317 2.8e-08 PPR repeat
PPR_2 PF13041 288 - 337 6.1e-16 PPR repeat family
PPR PF01535 291 - 321 6.6e-07 PPR repeat
PPR_2 PF13041 323 - 372 4.6e-08 PPR repeat family
PPR PF01535 326 - 356 8.1e-06 PPR repeat
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: OG0015649)

Species Orthologous Gene IDs
fragaria_vesca FvH4_6g09870
malus_domestica MD04G1174700.v1.1
prunus_persica Prupe.6G293600_v2.0.a1
pyrus_communis pycom04g15410
rosa_chinensis RchiOBHm_Chr3g0460471
rosa_laevigata RLG00000025002 RLG00000025008
rosa_multiflora Rmu_co8379257.1_g000001 Rmu_sc0004267.1_g000007
rosa_roxburghii Rroxscaffold_6G00419450
rosa_rugosa Rorug03G0042900
rosa_samantha Rh3AG101000 Rh3BG105000 Rh3CG106800 Rh3DG106300
rosa_wichuraiana Rw3G008590

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 1419
Acc36I ACCTGC 1 cut(s) 607
AciI CCGC 1 cut(s) 503
AclWI GGATC 1 cut(s) 1213
AcoI YGGCCR 1 cut(s) 504
AfaI GTAC 6 cut(s) 252, 668, 899, 1204, 1378, 1570
AfiI CCNNNNNNNGG 1 cut(s) 205
AhlI ACTAGT 1 cut(s) 236
AjnI CCWGG 1 cut(s) 1563
Alw21I GWGCWC 1 cut(s) 280
Alw26I GTCTC 1 cut(s) 287
AlwI GGATC 1 cut(s) 1213
AoxI GGCC 1 cut(s) 504
Asp700I GAANNNNTTC 1 cut(s) 343
AspLEI GCGC 1 cut(s) 1033
AspS9I GGNCC 2 cut(s) 4, 645
AsuHPI GGTGA 3 cut(s) 640, 1287, 1300
AsuII TTCGAA 1 cut(s) 1068
AsuNHI GCTAGC 1 cut(s) 1525
AvaII GGWCC 2 cut(s) 4, 645
BanII GRGCYC 1 cut(s) 280
Bbv12I GWGCWC 1 cut(s) 280
BccI CCATC 6 cut(s) 320, 625, 782, 887, 1045, 1273
BciT130I CCWGG 1 cut(s) 1565
BclI TGATCA 2 cut(s) 1260, 1305
BcoDI GTCTC 1 cut(s) 287
BcuI ACTAGT 1 cut(s) 236
BfaI CTAG 5 cut(s) 141, 237, 1200, 1460, 1526
BfmI CTRYAG 1 cut(s) 901
BfuAI ACCTGC 1 cut(s) 607
BisI GCNGC 1 cut(s) 504
BlsI GCNGC 1 cut(s) 505
Bme1390I CCNGG 1 cut(s) 1565
Bme18I GGWCC 2 cut(s) 4, 645
BmgT120I GGNCC 2 cut(s) 4, 645
BmiI GGNNCC 1 cut(s) 646
BmrFI CCNGG 1 cut(s) 1565
BmsI GCATC 6 cut(s) 12, 490, 703, 972, 1138, 1348
BmtI GCTAGC 1 cut(s) 1529
BpmI CTGGAG 1 cut(s) 309
Bpu10I CCTNAGC 1 cut(s) 1034
Bpu14I TTCGAA 1 cut(s) 1068
BsaJI CCNNGG 4 cut(s) 1298, 1341, 1563, 1564
BsaXI ACNNNNNCTCC 2 cut(s) 52, 82
Bsc4I CCNNNNNNNGG 1 cut(s) 205
Bse1I ACTGG 1 cut(s) 292
Bse3DI GCAATG 3 cut(s) 828, 924, 1479
BseBI CCWGG 1 cut(s) 1565
BseDI CCNNGG 4 cut(s) 1298, 1341, 1563, 1564
BseGI GGATG 7 cut(s) 170, 505, 718, 793, 963, 1081, 1308
BseLI CCNNNNNNNGG 1 cut(s) 205
BseMI GCAATG 3 cut(s) 828, 924, 1479
BseMII CTCAG 1 cut(s) 339
BseNI ACTGG 1 cut(s) 292
BsgI GTGCAG 2 cut(s) 266, 1132
BshFI GGCC 1 cut(s) 506
BsiHKAI GWGCWC 1 cut(s) 280
BslFI GGGAC 1 cut(s) 939
BslI CCNNNNNNNGG 1 cut(s) 205
BsmAI GTCTC 1 cut(s) 287
BsmFI GGGAC 1 cut(s) 939
BsmI GAATGC 1 cut(s) 1096
BsnI GGCC 1 cut(s) 506
Bsp119I TTCGAA 1 cut(s) 1068
Bsp1286I GDGCHC 1 cut(s) 280
Bsp1407I TGTACA 2 cut(s) 250, 666
Bsp143I GATC 5 cut(s) 493, 1118, 1218, 1260, 1305
Bsp19I CCATGG 1 cut(s) 1298
BspACI CCGC 1 cut(s) 503
BspANI GGCC 1 cut(s) 506
BspCNI CTCAG 1 cut(s) 340
BspLI GGNNCC 1 cut(s) 646
BspMAI CTGCAG 1 cut(s) 905
BspMI ACCTGC 1 cut(s) 607
BspOI GCTAGC 1 cut(s) 1529
BspPI GGATC 1 cut(s) 1213
BspT104I TTCGAA 1 cut(s) 1068
BsrDI GCAATG 3 cut(s) 828, 924, 1479
BsrGI TGTACA 2 cut(s) 250, 666
BsrI ACTGG 1 cut(s) 292
BssECI CCNNGG 4 cut(s) 1298, 1341, 1563, 1564
BssMI GATC 5 cut(s) 493, 1118, 1218, 1260, 1305
BssT1I CCWWGG 1 cut(s) 1298
Bst2UI CCWGG 1 cut(s) 1565
Bst4CI ACNGT 5 cut(s) 434, 482, 658, 1161, 1505
Bst6I CTCTTC 1 cut(s) 697
BstAUI TGTACA 2 cut(s) 250, 666
BstBI TTCGAA 1 cut(s) 1068
BstC8I GCNNGC 2 cut(s) 1477, 1527
BstDEI CTNAG 2 cut(s) 348, 1034
BstDSI CCRYGG 1 cut(s) 1298
BstF5I GGATG 7 cut(s) 170, 505, 718, 793, 963, 1081, 1308
BstHHI GCGC 1 cut(s) 1033
BstKTI GATC 5 cut(s) 496, 1121, 1221, 1263, 1308
BstMAI GTCTC 1 cut(s) 287
BstMBI GATC 5 cut(s) 493, 1118, 1218, 1260, 1305
BstMWI GCNNNNNNNGC 3 cut(s) 1409, 1472, 1481
BstNI CCWGG 1 cut(s) 1565
BstNSI RCATGY 1 cut(s) 251
BstSCI CCNGG 1 cut(s) 1563
BstSFI CTRYAG 1 cut(s) 901
BsuRI GGCC 1 cut(s) 506
BtgI CCRYGG 1 cut(s) 1298
BtsCI GGATG 7 cut(s) 170, 505, 718, 793, 963, 1081, 1308
BtsI GCAGTG 1 cut(s) 1290
BtsIMutI CAGTG 4 cut(s) 285, 654, 1290, 1484
BveI ACCTGC 1 cut(s) 607
Cac8I GCNNGC 2 cut(s) 1477, 1527
CfoI GCGC 1 cut(s) 1033
Cfr13I GGNCC 2 cut(s) 4, 645
CseI GACGC 1 cut(s) 1262
Csp6I GTAC 6 cut(s) 251, 667, 898, 1203, 1377, 1569
CviAII CATG 7 cut(s) 132, 248, 367, 998, 1234, 1299, 1448
CviQI GTAC 6 cut(s) 251, 667, 898, 1203, 1377, 1569
DdeI CTNAG 2 cut(s) 348, 1034
DpnI GATC 5 cut(s) 495, 1120, 1220, 1262, 1307
DpnII GATC 5 cut(s) 493, 1118, 1218, 1260, 1305
EaeI YGGCCR 1 cut(s) 504
Eam1104I CTCTTC 1 cut(s) 697
EarI CTCTTC 1 cut(s) 697
Ecl136II GAGCTC 1 cut(s) 278
Eco130I CCWWGG 1 cut(s) 1298
Eco24I GRGCYC 1 cut(s) 280
Eco47I GGWCC 2 cut(s) 4, 645
Eco53kI GAGCTC 1 cut(s) 278
EcoICRI GAGCTC 1 cut(s) 278
EcoRII CCWGG 1 cut(s) 1563
EcoT14I CCWWGG 1 cut(s) 1298
EcoT22I ATGCAT 2 cut(s) 718, 1363
EcoT38I GRGCYC 1 cut(s) 280
ErhI CCWWGG 1 cut(s) 1298
FaeI CATG 7 cut(s) 135, 251, 370, 1001, 1237, 1302, 1451
FaqI GGGAC 1 cut(s) 939
FatI CATG 7 cut(s) 131, 247, 366, 997, 1233, 1298, 1447
FauNDI CATATG 3 cut(s) 525, 718, 1207
FbaI TGATCA 2 cut(s) 1260, 1305
Fnu4HI GCNGC 1 cut(s) 504
FokI GGATG 7 cut(s) 157, 512, 725, 800, 950, 1088, 1315
FriOI GRGCYC 1 cut(s) 280
Fsp4HI GCNGC 1 cut(s) 504
FspBI CTAG 5 cut(s) 141, 237, 1200, 1460, 1526
GlaI GCGC 1 cut(s) 1032
GluI GCNGC 1 cut(s) 504
GsuI CTGGAG 1 cut(s) 309
HaeIII GGCC 1 cut(s) 506
HgaI GACGC 1 cut(s) 1262
HhaI GCGC 1 cut(s) 1033
Hin1II CATG 7 cut(s) 135, 251, 370, 1001, 1237, 1302, 1451
Hin6I GCGC 1 cut(s) 1031
HinP1I GCGC 1 cut(s) 1031
HincII GTYRAC 1 cut(s) 265
HindII GTYRAC 1 cut(s) 265
HindIII AAGCTT 2 cut(s) 43, 1464
HinfI GANTC 6 cut(s) 61, 446, 578, 1324, 1429, 1441
HphI GGTGA 3 cut(s) 640, 1287, 1300
Hpy166II GTNNAC 2 cut(s) 265, 1157
Hpy188I TCNGA 4 cut(s) 60, 349, 1189, 1342
Hpy188III TCNNGA 2 cut(s) 443, 497
Hpy8I GTNNAC 2 cut(s) 265, 1157
HpyAV CCTTC 4 cut(s) 36, 736, 943, 1120
HpyCH4III ACNGT 5 cut(s) 434, 482, 658, 1161, 1505
HpyF10VI GCNNNNNNNGC 3 cut(s) 1409, 1472, 1481
HpyF3I CTNAG 2 cut(s) 348, 1034
Hsp92II CATG 7 cut(s) 135, 251, 370, 1001, 1237, 1302, 1451
HspAI GCGC 1 cut(s) 1031
Ksp22I TGATCA 2 cut(s) 1260, 1305
Kzo9I GATC 5 cut(s) 493, 1118, 1218, 1260, 1305
LweI GCATC 6 cut(s) 12, 490, 703, 972, 1138, 1348
MaeI CTAG 5 cut(s) 141, 237, 1200, 1460, 1526
MaeIII GTNAC 2 cut(s) 476, 993
MalI GATC 5 cut(s) 495, 1120, 1220, 1262, 1307
MboI GATC 5 cut(s) 493, 1118, 1218, 1260, 1305
MboII GAAGA 4 cut(s) 441, 714, 1157, 1255
MfeI CAATTG 1 cut(s) 670
MhlI GDGCHC 1 cut(s) 280
MluCI AATT 8 cut(s) 231, 270, 303, 670, 1059, 1169, 1264, 1490
MlyI GAGTC 1 cut(s) 55
MmeI TCCRAC 1 cut(s) 1122
Mph1103I ATGCAT 2 cut(s) 718, 1363
MroXI GAANNNNTTC 1 cut(s) 343
MseI TTAA 5 cut(s) 680, 834, 930, 1314, 1511
MslI CAYNNNNRTG 1 cut(s) 130
MspA1I CMGCKG 1 cut(s) 779
MspR9I CCNGG 1 cut(s) 1565
MunI CAATTG 1 cut(s) 670
Mva1269I GAATGC 1 cut(s) 1096
MvaI CCWGG 1 cut(s) 1565
MwoI GCNNNNNNNGC 3 cut(s) 1409, 1472, 1481
NcoI CCATGG 1 cut(s) 1298
NdeI CATATG 3 cut(s) 525, 718, 1207
NdeII GATC 5 cut(s) 493, 1118, 1218, 1260, 1305
NheI GCTAGC 1 cut(s) 1525
NlaIII CATG 7 cut(s) 135, 251, 370, 1001, 1237, 1302, 1451
NlaIV GGNNCC 1 cut(s) 646
NsiI ATGCAT 2 cut(s) 718, 1363
NspI RCATGY 1 cut(s) 251
NspV TTCGAA 1 cut(s) 1068
PasI CCCWGGG 1 cut(s) 1564
PctI GAATGC 1 cut(s) 1096
PdmI GAANNNNTTC 1 cut(s) 343
PfeI GAWTC 5 cut(s) 446, 578, 1324, 1429, 1441
PkrI GCNGC 1 cut(s) 505
PleI GAGTC 1 cut(s) 55
PpsI GAGTC 1 cut(s) 55
PsiI TTATAA 1 cut(s) 1419
Psp124BI GAGCTC 1 cut(s) 280
Psp6I CCWGG 1 cut(s) 1563
PspGI CCWGG 1 cut(s) 1563
PspN4I GGNNCC 1 cut(s) 646
PspPI GGNCC 2 cut(s) 4, 645
PstI CTGCAG 1 cut(s) 905
PvuII CAGCTG 1 cut(s) 779
RsaI GTAC 6 cut(s) 252, 668, 899, 1204, 1378, 1570
RsaNI GTAC 6 cut(s) 251, 667, 898, 1203, 1377, 1569
RseI CAYNNNNRTG 1 cut(s) 130
SacI GAGCTC 1 cut(s) 280
SaqAI TTAA 5 cut(s) 680, 834, 930, 1314, 1511
SatI GCNGC 1 cut(s) 504
Sau3AI GATC 5 cut(s) 493, 1118, 1218, 1260, 1305
Sau96I GGNCC 2 cut(s) 4, 645
SchI GAGTC 1 cut(s) 55
ScrFI CCNGG 1 cut(s) 1565
SduI GDGCHC 1 cut(s) 280
SfaNI GCATC 6 cut(s) 12, 490, 703, 972, 1138, 1348
SfcI CTRYAG 1 cut(s) 901
SfuI TTCGAA 1 cut(s) 1068
SinI GGWCC 2 cut(s) 4, 645
SmiMI CAYNNNNRTG 1 cut(s) 130
SpeI ACTAGT 1 cut(s) 236
Sse9I AATT 8 cut(s) 231, 270, 303, 670, 1059, 1169, 1264, 1490
SsiI CCGC 1 cut(s) 503
SspMI CTAG 5 cut(s) 141, 237, 1200, 1460, 1526
SstI GAGCTC 1 cut(s) 280
StyD4I CCNGG 1 cut(s) 1563
StyI CCWWGG 1 cut(s) 1298
TaaI ACNGT 5 cut(s) 434, 482, 658, 1161, 1505
TaqI TCGA 2 cut(s) 1068, 1124
TasI AATT 8 cut(s) 231, 270, 303, 670, 1059, 1169, 1264, 1490
TatI WGTACW 3 cut(s) 250, 666, 1202
TauI GCSGC 1 cut(s) 506
TfiI GAWTC 5 cut(s) 446, 578, 1324, 1429, 1441
Tru1I TTAA 5 cut(s) 680, 834, 930, 1314, 1511
Tru9I TTAA 5 cut(s) 680, 834, 930, 1314, 1511
TscAI CASTG 4 cut(s) 292, 661, 1290, 1491
TspDTI ATGAA 7 cut(s) 243, 432, 570, 735, 852, 962, 1401
TspRI CASTG 4 cut(s) 292, 661, 1290, 1491
VpaK11BI GGWCC 2 cut(s) 4, 645
XceI RCATGY 1 cut(s) 251
XmnI GAANNNNTTC 1 cut(s) 343
XspI CTAG 5 cut(s) 141, 237, 1200, 1460, 1526
Zsp2I ATGCAT 2 cut(s) 718, 1363
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.