RLG00000008016

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr2
OG0000621
Physical Location & Seq
Forward (+)
24325194 .. 24326256
1063 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000008016

Sequence Viewer

Length: 753 bp
ATGAGTTTGAAGGATTCTGGTGAGAAAAAACTGTTGAAACTTGGGCCCTTTGGATCAGAAACCGGAGGGGAAAGTTTTGATGATGGAGCTCATTCAACAGTCAGGCAGTTGGTAATATCTCATTCATCGAACATTAACTCTATACAGATTGAATATGATGACAACGGGAGCTCATTTTGGTCAGACAAGCATGGTCATGAAGGCGATACCTATATTGACACGATCAAACTTGATTATCCGTACGAATATTTGATTTCAGTTCATGGAAAATACGTTAAGTTTTGGCGGTTCCCAACCTATATTTGCTCCCTTACTTTTAGGAGCAACAAGAAATGTTACGGACCATATGGAGATGAAGGAAGCCTGGGAAAGTATTTTTCAATCCAAGCACCTGGGAATATGATTGTCGGCTTTCATGGTAGGGCTTCCATGTTTATGGATATCCGTGCAATAGGAGCTTACCTTAAACCTCTTGATCATTACCAGAATGAAAAGTACAACCCCTCTAAAGTTCTCGAGGTCGTGCCCGCATTACGAAATCCGTCAAGGCCTCTACGTCAAGCTAGATATCCTTCTCAGACCAAGCTCAGAAACACACAGGACGACGACGAAGATAACAAACAATTATCATGCATAATTGCCGGTAACCAAGTTAAGGGAAACGAGGGCGACCGGAATGGAGGATTCGCTGTTGGAAACACATATATTAATACCCACTACTATTATCCAGACAAGTTCAATAATGCCATGTAG
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

251

Amino Acids

28.29

Weight (kDa)

7.08

Isoelectric Point (pI)

31.93

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Jacalin PF01419 14 - 154 7.6e-35 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AciI CCGC 2 cut(s) 286, 528
AclWI GGATC 1 cut(s) 61
AfaI GTAC 2 cut(s) 242, 497
AfiI CCNNNNNNNGG 1 cut(s) 655
AgsI TTSAA 6 cut(s) 10, 37, 96, 152, 381, 739
AjnI CCWGG 2 cut(s) 363, 391
AluBI AGCT 5 cut(s) 89, 171, 458, 563, 586
AluI AGCT 5 cut(s) 89, 171, 458, 563, 586
Alw21I GWGCWC 2 cut(s) 91, 173
AlwI GGATC 1 cut(s) 61
Ama87I CYCGRG 1 cut(s) 515
AoxI GGCC 2 cut(s) 44, 548
ApaI GGGCCC 1 cut(s) 48
AseI ATTAAT 1 cut(s) 708
AspS9I GGNCC 3 cut(s) 44, 45, 341
AsuHPI GGTGA 1 cut(s) 32
AvaI CYCGRG 1 cut(s) 515
AvaII GGWCC 1 cut(s) 341
BaeGI GKGCMC 2 cut(s) 48, 528
BanII GRGCYC 3 cut(s) 48, 91, 173
Bbv12I GWGCWC 2 cut(s) 91, 173
BccI CCATC 1 cut(s) 77
BciT130I CCWGG 2 cut(s) 365, 393
BclI TGATCA 1 cut(s) 475
BfaI CTAG 1 cut(s) 564
Bme1390I CCNGG 2 cut(s) 365, 393
Bme18I GGWCC 1 cut(s) 341
BmeT110I CYCGRG 1 cut(s) 515
BmgT120I GGNCC 3 cut(s) 44, 45, 341
BmiI GGNNCC 2 cut(s) 46, 290
BmrFI CCNGG 2 cut(s) 365, 393
BsaJI CCNNGG 2 cut(s) 364, 392
BsaWI WCCGGW 2 cut(s) 62, 672
Bsc4I CCNNNNNNNGG 1 cut(s) 655
Bse118I RCCGGY 1 cut(s) 641
BseBI CCWGG 2 cut(s) 365, 393
BseDI CCNNGG 2 cut(s) 364, 392
BseLI CCNNNNNNNGG 1 cut(s) 655
BseMII CTCAG 2 cut(s) 590, 601
BseSI GKGCMC 2 cut(s) 48, 528
Bsh1285I CGRYCG 1 cut(s) 673
BshFI GGCC 2 cut(s) 46, 550
BsiEI CGRYCG 1 cut(s) 673
BsiHKAI GWGCWC 2 cut(s) 91, 173
BsiHKCI CYCGRG 1 cut(s) 515
BsiSI CCGG 3 cut(s) 63, 642, 673
BsiWI CGTACG 1 cut(s) 240
BslI CCNNNNNNNGG 1 cut(s) 655
BsnI GGCC 2 cut(s) 46, 550
BsoBI CYCGRG 1 cut(s) 515
Bsp120I GGGCCC 1 cut(s) 44
Bsp1286I GDGCHC 4 cut(s) 48, 91, 173, 528
Bsp143I GATC 3 cut(s) 53, 222, 475
BspACI CCGC 2 cut(s) 286, 528
BspANI GGCC 2 cut(s) 46, 550
BspCNI CTCAG 2 cut(s) 589, 600
BspHI TCATGA 1 cut(s) 196
BspLI GGNNCC 2 cut(s) 46, 290
BspPI GGATC 1 cut(s) 61
BsrFI RCCGGY 1 cut(s) 641
BssAI RCCGGY 1 cut(s) 641
BssECI CCNNGG 2 cut(s) 364, 392
BssMI GATC 3 cut(s) 53, 222, 475
Bst2UI CCWGG 2 cut(s) 365, 393
Bst4CI ACNGT 2 cut(s) 33, 100
BstC8I GCNNGC 1 cut(s) 528
BstDEI CTNAG 2 cut(s) 576, 587
BstEII GGTNACC 1 cut(s) 644
BstKTI GATC 3 cut(s) 56, 225, 478
BstMBI GATC 3 cut(s) 53, 222, 475
BstMCI CGRYCG 1 cut(s) 673
BstMWI GCNNNNNNNGC 1 cut(s) 455
BstNI CCWGG 2 cut(s) 365, 393
BstPI GGTNACC 1 cut(s) 644
BstSCI CCNGG 2 cut(s) 363, 391
BstSLI GKGCMC 2 cut(s) 48, 528
BstXI CCANNNNNNTGG 2 cut(s) 392, 436
BsuRI GGCC 2 cut(s) 46, 550
Cac8I GCNNGC 1 cut(s) 528
CciI TCATGA 1 cut(s) 196
Cfr10I RCCGGY 1 cut(s) 641
Cfr13I GGNCC 3 cut(s) 44, 45, 341
Csp6I GTAC 2 cut(s) 241, 496
CviAII CATG 7 cut(s) 191, 197, 263, 416, 430, 630, 748
CviQI GTAC 2 cut(s) 241, 496
DdeI CTNAG 2 cut(s) 576, 587
DpnI GATC 3 cut(s) 55, 224, 477
DpnII GATC 3 cut(s) 53, 222, 475
Ecl136II GAGCTC 2 cut(s) 89, 171
Eco147I AGGCCT 1 cut(s) 550
Eco24I GRGCYC 3 cut(s) 48, 91, 173
Eco32I GATATC 2 cut(s) 442, 569
Eco47I GGWCC 1 cut(s) 341
Eco53kI GAGCTC 2 cut(s) 89, 171
Eco88I CYCGRG 1 cut(s) 515
Eco91I GGTNACC 1 cut(s) 644
EcoICRI GAGCTC 2 cut(s) 89, 171
EcoO109I RGGNCCY 1 cut(s) 45
EcoO65I GGTNACC 1 cut(s) 644
EcoRII CCWGG 2 cut(s) 363, 391
EcoRV GATATC 2 cut(s) 442, 569
EcoT22I ATGCAT 1 cut(s) 635
EcoT38I GRGCYC 3 cut(s) 48, 91, 173
FaeI CATG 7 cut(s) 194, 200, 266, 419, 433, 633, 751
FatI CATG 7 cut(s) 190, 196, 262, 415, 429, 629, 747
FauI CCCGC 1 cut(s) 535
FauNDI CATATG 1 cut(s) 346
FbaI TGATCA 1 cut(s) 475
FriOI GRGCYC 3 cut(s) 48, 91, 173
FspBI CTAG 1 cut(s) 564
HaeIII GGCC 2 cut(s) 46, 550
HapII CCGG 3 cut(s) 63, 642, 673
Hin1II CATG 7 cut(s) 194, 200, 266, 419, 433, 633, 751
HinfI GANTC 2 cut(s) 14, 684
HpaII CCGG 3 cut(s) 63, 642, 673
HphI GGTGA 1 cut(s) 32
Hpy188I TCNGA 4 cut(s) 58, 184, 579, 590
Hpy188III TCNNGA 4 cut(s) 197, 473, 515, 728
Hpy99I CGWCG 2 cut(s) 608, 611
HpyAV CCTTC 4 cut(s) 4, 194, 350, 582
HpyCH4III ACNGT 2 cut(s) 33, 100
HpyCH4IV ACGT 2 cut(s) 273, 556
HpyCH4V TGCA 2 cut(s) 449, 633
HpyF10VI GCNNNNNNNGC 1 cut(s) 455
HpyF3I CTNAG 2 cut(s) 576, 587
HpySE526I ACGT 2 cut(s) 273, 556
Hsp92II CATG 7 cut(s) 194, 200, 266, 419, 433, 633, 751
Ksp22I TGATCA 1 cut(s) 475
Kzo9I GATC 3 cut(s) 53, 222, 475
LmnI GCTCC 5 cut(s) 86, 168, 311, 321, 455
MaeI CTAG 1 cut(s) 564
MaeII ACGT 2 cut(s) 273, 556
MaeIII GTNAC 2 cut(s) 335, 644
MalI GATC 3 cut(s) 55, 224, 477
MboI GATC 3 cut(s) 53, 222, 475
MboII GAAGA 1 cut(s) 623
MhlI GDGCHC 4 cut(s) 48, 91, 173, 528
MluCI AATT 2 cut(s) 623, 636
MmeI TCCRAC 1 cut(s) 673
MnlI CCTC 7 cut(s) 59, 480, 511, 514, 561, 658, 674
Mph1103I ATGCAT 1 cut(s) 635
MseI TTAA 5 cut(s) 135, 276, 465, 654, 708
MslI CAYNNNNRTG 2 cut(s) 195, 434
MspI CCGG 3 cut(s) 63, 642, 673
MspR9I CCNGG 2 cut(s) 365, 393
MvaI CCWGG 2 cut(s) 365, 393
MwoI GCNNNNNNNGC 1 cut(s) 455
NdeI CATATG 1 cut(s) 346
NdeII GATC 3 cut(s) 53, 222, 475
NlaIII CATG 7 cut(s) 194, 200, 266, 419, 433, 633, 751
NlaIV GGNNCC 2 cut(s) 46, 290
NsiI ATGCAT 1 cut(s) 635
PaeR7I CTCGAG 1 cut(s) 515
PagI TCATGA 1 cut(s) 196
PceI AGGCCT 1 cut(s) 550
PfeI GAWTC 2 cut(s) 14, 684
Pfl23II CGTACG 1 cut(s) 240
PshBI ATTAAT 1 cut(s) 708
Psp124BI GAGCTC 2 cut(s) 91, 173
Psp6I CCWGG 2 cut(s) 363, 391
PspEI GGTNACC 1 cut(s) 644
PspGI CCWGG 2 cut(s) 363, 391
PspLI CGTACG 1 cut(s) 240
PspN4I GGNNCC 2 cut(s) 46, 290
PspOMI GGGCCC 1 cut(s) 44
PspPI GGNCC 3 cut(s) 44, 45, 341
RsaI GTAC 2 cut(s) 242, 497
RsaNI GTAC 2 cut(s) 241, 496
RseI CAYNNNNRTG 2 cut(s) 195, 434
SacI GAGCTC 2 cut(s) 91, 173
SaqAI TTAA 5 cut(s) 135, 276, 465, 654, 708
Sau3AI GATC 3 cut(s) 53, 222, 475
Sau96I GGNCC 3 cut(s) 44, 45, 341
ScrFI CCNGG 2 cut(s) 365, 393
SduI GDGCHC 4 cut(s) 48, 91, 173, 528
Sfr274I CTCGAG 1 cut(s) 515
SinI GGWCC 1 cut(s) 341
SlaI CTCGAG 1 cut(s) 515
SmiMI CAYNNNNRTG 2 cut(s) 195, 434
SmlI CTYRAG 1 cut(s) 515
SmoI CTYRAG 1 cut(s) 515
Sse9I AATT 2 cut(s) 623, 636
SseBI AGGCCT 1 cut(s) 550
SsiI CCGC 2 cut(s) 286, 528
SspI AATATT 1 cut(s) 248
SspMI CTAG 1 cut(s) 564
SstI GAGCTC 2 cut(s) 91, 173
StuI AGGCCT 1 cut(s) 550
StyD4I CCNGG 2 cut(s) 363, 391
TaaI ACNGT 2 cut(s) 33, 100
TaiI ACGT 2 cut(s) 276, 559
TaqI TCGA 2 cut(s) 128, 516
TasI AATT 2 cut(s) 623, 636
TatI WGTACW 1 cut(s) 495
TfiI GAWTC 2 cut(s) 14, 684
Tru1I TTAA 5 cut(s) 135, 276, 465, 654, 708
Tru9I TTAA 5 cut(s) 135, 276, 465, 654, 708
TspDTI ATGAA 6 cut(s) 114, 213, 251, 369, 404, 504
TspGWI ACGGA 4 cut(s) 228, 354, 434, 531
VpaK11BI GGWCC 1 cut(s) 341
VspI ATTAAT 1 cut(s) 708
XhoI CTCGAG 1 cut(s) 515
XspI CTAG 1 cut(s) 564
Zsp2I ATGCAT 1 cut(s) 635
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.