Rroxscaffold_5G00359920

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000621
Physical Location & Seq
Reverse (-)
40246477 .. 40247655
1179 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00359920.1

Sequence Viewer

Length: 795 bp
ATGTCGTCTAGTCCCAACCAGAGTTTTAAGCAGTCAGATGAAACAAAACCCTTAAAGCTTGGGCCGTTCGGATCTGAAAATGGAGGGGAAAGTTTTGATGATGGAGTTCACTCAACGGTCAGGCAGTTGGTGATATCTACCAACGATCAGGCTTCGAGAATTATCTCCATCCAGATTGAATATGACGACAACGGGAGCTCTTTTTTATCAGACAAGCATGGTAAAGAAGACAATTACTATACTTACACGATCAGGCTTGACTATACTTACGAATTTTTGACTTCAGTTCATGGAAAATATGTTAAGCTTTGGCGCCTCCCAACCTATATCTGCTCCCTTACTTTTAGGAGCAACAGGAAAACTTACGGACCATATGGAGATGAAGGAAGCCTGGGAAAGTATTTTTCAATCCAAGCGCCTGGGAAAATGATTGTGGGCTTTCATGGTAGGATTTCCATGTTCATGAATCTCCGAGCACTAGGAGCTTACCTAAAGCCTGTCGATCATAATCTGAATGAAAAGTACAACCCCTCTAAACATCTCGATGATAAAGGATCTTCTATGGTGCCGGCATCACTAGATCCAGCAAATCCTCTACTTCAACCTACATATCCTTTTCAAACCAAGCTCATGAAGAAACACGAAGATGAAGGTGATAAACAGATATCATGCATAATTTCAGGTAATGAAGTTAGCGGAAACGAGGGCAACCGCAGTGGAGGGTTCGCAGTTGGAAACAAATATATTAATACTTACTACTATTATTCAGAAAAGTTCAAGGCAATGTACAATTGA
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

264

Amino Acids

29.79

Weight (kDa)

7.71

Isoelectric Point (pI)

36.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Jacalin PF01419 20 - 163 2e-30 Jacalin-like lectin domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

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)
AccB1I GGYRCC 2 cut(s) 312, 565
AciI CCGC 2 cut(s) 696, 712
AclWI GGATC 3 cut(s) 79, 562, 575
AcsI RAATTY 1 cut(s) 272
AcuI CTGAAG 1 cut(s) 267
AcyI GRCGYC 1 cut(s) 313
AfaI GTAC 2 cut(s) 524, 788
AgsI TTSAA 5 cut(s) 179, 408, 602, 620, 778
AjnI CCWGG 2 cut(s) 390, 418
AluBI AGCT 5 cut(s) 58, 198, 307, 485, 628
AluI AGCT 5 cut(s) 58, 198, 307, 485, 628
Alw21I GWGCWC 2 cut(s) 200, 478
AlwI GGATC 3 cut(s) 79, 562, 575
AoxI GGCC 1 cut(s) 62
ApoI RAATTY 1 cut(s) 272
AseI ATTAAT 1 cut(s) 747
AspLEI GCGC 2 cut(s) 315, 418
AspS9I GGNCC 2 cut(s) 62, 368
AsuHPI GGTGA 2 cut(s) 142, 665
AvaII GGWCC 1 cut(s) 368
BanI GGYRCC 2 cut(s) 312, 565
BanII GRGCYC 1 cut(s) 200
BbsI GAAGAC 1 cut(s) 234
Bbv12I GWGCWC 2 cut(s) 200, 478
BccI CCATC 2 cut(s) 95, 176
BceAI ACGGC 1 cut(s) 49
BciT130I CCWGG 2 cut(s) 392, 420
BfaI CTAG 3 cut(s) 9, 479, 578
BfoI RGCGCY 2 cut(s) 316, 419
Bme1390I CCNGG 2 cut(s) 392, 420
Bme18I GGWCC 1 cut(s) 368
BmgT120I GGNCC 2 cut(s) 62, 368
BmiI GGNNCC 2 cut(s) 314, 567
BmrFI CCNGG 2 cut(s) 392, 420
BmsI GCATC 1 cut(s) 581
BpiI GAAGAC 1 cut(s) 234
BsaBI GATNNNNATC 1 cut(s) 507
BsaHI GRCGYC 1 cut(s) 313
BsaJI CCNNGG 2 cut(s) 391, 419
Bse118I RCCGGY 1 cut(s) 568
Bse3DI GCAATG 1 cut(s) 789
Bse8I GATNNNNATC 1 cut(s) 507
BseBI CCWGG 2 cut(s) 392, 420
BseDI CCNNGG 2 cut(s) 391, 419
BseGI GGATG 1 cut(s) 168
BseJI GATNNNNATC 1 cut(s) 507
BseMI GCAATG 1 cut(s) 789
BshFI GGCC 1 cut(s) 64
BshNI GGYRCC 2 cut(s) 312, 565
BsiHKAI GWGCWC 2 cut(s) 200, 478
BsiSI CCGG 1 cut(s) 569
BsnI GGCC 1 cut(s) 64
Bsp1286I GDGCHC 2 cut(s) 200, 478
Bsp1407I TGTACA 1 cut(s) 786
Bsp143I GATC 6 cut(s) 71, 145, 249, 502, 554, 580
BspACI CCGC 2 cut(s) 696, 712
BspANI GGCC 1 cut(s) 64
BspHI TCATGA 2 cut(s) 462, 630
BspLI GGNNCC 2 cut(s) 314, 567
BspPI GGATC 3 cut(s) 79, 562, 575
BspT107I GGYRCC 2 cut(s) 312, 565
BsrDI GCAATG 1 cut(s) 789
BsrFI RCCGGY 1 cut(s) 568
BsrGI TGTACA 1 cut(s) 786
BssAI RCCGGY 1 cut(s) 568
BssECI CCNNGG 2 cut(s) 391, 419
BssMI GATC 6 cut(s) 71, 145, 249, 502, 554, 580
BssNI GRCGYC 1 cut(s) 313
Bst2UI CCWGG 2 cut(s) 392, 420
Bst4CI ACNGT 1 cut(s) 118
BstACI GRCGYC 1 cut(s) 313
BstAUI TGTACA 1 cut(s) 786
BstC8I GCNNGC 1 cut(s) 570
BstF5I GGATG 1 cut(s) 168
BstH2I RGCGCY 2 cut(s) 316, 419
BstHHI GCGC 2 cut(s) 315, 418
BstKTI GATC 6 cut(s) 74, 148, 252, 505, 557, 583
BstMBI GATC 6 cut(s) 71, 145, 249, 502, 554, 580
BstMWI GCNNNNNNNGC 1 cut(s) 482
BstNI CCWGG 2 cut(s) 392, 420
BstSCI CCNGG 2 cut(s) 390, 418
BstV2I GAAGAC 1 cut(s) 234
BstX2I RGATCY 3 cut(s) 71, 554, 580
BstXI CCANNNNNNTGG 1 cut(s) 419
BstYI RGATCY 3 cut(s) 71, 554, 580
BsuRI GGCC 1 cut(s) 64
BtsCI GGATG 1 cut(s) 168
BtsI GCAGTG 1 cut(s) 721
BtsIMutI CAGTG 1 cut(s) 721
Cac8I GCNNGC 1 cut(s) 570
CciI TCATGA 2 cut(s) 462, 630
CfoI GCGC 2 cut(s) 315, 418
Cfr10I RCCGGY 1 cut(s) 568
Cfr13I GGNCC 2 cut(s) 62, 368
Csp6I GTAC 2 cut(s) 523, 787
CspCI CAANNNNNGTGG 2 cut(s) 697, 732
CviAII CATG 7 cut(s) 218, 290, 443, 457, 463, 631, 669
CviQI GTAC 2 cut(s) 523, 787
DinI GGCGCC 1 cut(s) 314
DpnI GATC 6 cut(s) 73, 147, 251, 504, 556, 582
DpnII GATC 6 cut(s) 71, 145, 249, 502, 554, 580
Ecl136II GAGCTC 1 cut(s) 198
Eco24I GRGCYC 1 cut(s) 200
Eco32I GATATC 2 cut(s) 135, 666
Eco47I GGWCC 1 cut(s) 368
Eco53kI GAGCTC 1 cut(s) 198
Eco57I CTGAAG 1 cut(s) 267
EcoICRI GAGCTC 1 cut(s) 198
EcoRII CCWGG 2 cut(s) 390, 418
EcoRV GATATC 2 cut(s) 135, 666
EcoT22I ATGCAT 1 cut(s) 674
EcoT38I GRGCYC 1 cut(s) 200
EgeI GGCGCC 1 cut(s) 314
EheI GGCGCC 1 cut(s) 314
FaeI CATG 7 cut(s) 221, 293, 446, 460, 466, 634, 672
FatI CATG 7 cut(s) 217, 289, 442, 456, 462, 630, 668
FauNDI CATATG 1 cut(s) 373
FokI GGATG 1 cut(s) 155
FriOI GRGCYC 1 cut(s) 200
FspBI CTAG 3 cut(s) 9, 479, 578
GlaI GCGC 2 cut(s) 314, 417
HaeII RGCGCY 2 cut(s) 316, 419
HaeIII GGCC 1 cut(s) 64
HapII CCGG 1 cut(s) 569
HhaI GCGC 2 cut(s) 315, 418
Hin1I GRCGYC 1 cut(s) 313
Hin1II CATG 7 cut(s) 221, 293, 446, 460, 466, 634, 672
Hin6I GCGC 2 cut(s) 313, 416
HinP1I GCGC 2 cut(s) 313, 416
HindIII AAGCTT 2 cut(s) 56, 305
HinfI GANTC 1 cut(s) 466
HpaII CCGG 1 cut(s) 569
HphI GGTGA 2 cut(s) 142, 665
Hpy166II GTNNAC 1 cut(s) 109
Hpy188I TCNGA 7 cut(s) 37, 71, 76, 211, 473, 513, 769
Hpy188III TCNNGA 5 cut(s) 156, 172, 463, 542, 631
Hpy8I GTNNAC 1 cut(s) 109
HpyAV CCTTC 2 cut(s) 377, 644
HpyCH4III ACNGT 1 cut(s) 118
HpyCH4V TGCA 1 cut(s) 672
HpyF10VI GCNNNNNNNGC 1 cut(s) 482
Hsp92I GRCGYC 1 cut(s) 313
Hsp92II CATG 7 cut(s) 221, 293, 446, 460, 466, 634, 672
HspAI GCGC 2 cut(s) 313, 416
KasI GGCGCC 1 cut(s) 312
KroI GCCGGC 1 cut(s) 568
KroNI GCCGGC 1 cut(s) 570
Kzo9I GATC 6 cut(s) 71, 145, 249, 502, 554, 580
LmnI GCTCC 4 cut(s) 195, 338, 348, 482
LweI GCATC 1 cut(s) 581
MaeI CTAG 3 cut(s) 9, 479, 578
MalI GATC 6 cut(s) 73, 147, 251, 504, 556, 582
MboI GATC 6 cut(s) 71, 145, 249, 502, 554, 580
MboII GAAGA 4 cut(s) 239, 549, 646, 656
MfeI CAATTG 1 cut(s) 790
MflI RGATCY 3 cut(s) 71, 554, 580
MhlI GDGCHC 2 cut(s) 200, 478
MluCI AATT 5 cut(s) 159, 232, 272, 675, 790
Mly113I GGCGCC 1 cut(s) 313
MmeI TCCRAC 1 cut(s) 712
MnlI CCTC 6 cut(s) 77, 326, 541, 603, 697, 713
Mph1103I ATGCAT 1 cut(s) 674
MroNI GCCGGC 1 cut(s) 568
MseI TTAA 4 cut(s) 27, 53, 303, 747
MslI CAYNNNNRTG 3 cut(s) 461, 543, 645
MspI CCGG 1 cut(s) 569
MspR9I CCNGG 2 cut(s) 392, 420
MunI CAATTG 1 cut(s) 790
MvaI CCWGG 2 cut(s) 392, 420
MwoI GCNNNNNNNGC 1 cut(s) 482
NaeI GCCGGC 1 cut(s) 570
NarI GGCGCC 1 cut(s) 313
NdeI CATATG 1 cut(s) 373
NdeII GATC 6 cut(s) 71, 145, 249, 502, 554, 580
NgoMIV GCCGGC 1 cut(s) 568
NlaIII CATG 7 cut(s) 221, 293, 446, 460, 466, 634, 672
NlaIV GGNNCC 2 cut(s) 314, 567
NsiI ATGCAT 1 cut(s) 674
PagI TCATGA 2 cut(s) 462, 630
PdiI GCCGGC 1 cut(s) 570
PfeI GAWTC 1 cut(s) 466
PluTI GGCGCC 1 cut(s) 316
PshBI ATTAAT 1 cut(s) 747
Psp124BI GAGCTC 1 cut(s) 200
Psp6I CCWGG 2 cut(s) 390, 418
PspGI CCWGG 2 cut(s) 390, 418
PspN4I GGNNCC 2 cut(s) 314, 567
PspPI GGNCC 2 cut(s) 62, 368
PsuI RGATCY 3 cut(s) 71, 554, 580
RsaI GTAC 2 cut(s) 524, 788
RsaNI GTAC 2 cut(s) 523, 787
RseI CAYNNNNRTG 3 cut(s) 461, 543, 645
SacI GAGCTC 1 cut(s) 200
SaqAI TTAA 4 cut(s) 27, 53, 303, 747
Sau3AI GATC 6 cut(s) 71, 145, 249, 502, 554, 580
Sau96I GGNCC 2 cut(s) 62, 368
ScrFI CCNGG 2 cut(s) 392, 420
SduI GDGCHC 2 cut(s) 200, 478
SfaNI GCATC 1 cut(s) 581
SfoI GGCGCC 1 cut(s) 314
SinI GGWCC 1 cut(s) 368
SmiMI CAYNNNNRTG 3 cut(s) 461, 543, 645
Sse9I AATT 5 cut(s) 159, 232, 272, 675, 790
SsiI CCGC 2 cut(s) 696, 712
SspDI GGCGCC 1 cut(s) 312
SspMI CTAG 3 cut(s) 9, 479, 578
SstI GAGCTC 1 cut(s) 200
StyD4I CCNGG 2 cut(s) 390, 418
TaaI ACNGT 1 cut(s) 118
TaqI TCGA 3 cut(s) 155, 501, 543
TasI AATT 5 cut(s) 159, 232, 272, 675, 790
TatI WGTACW 2 cut(s) 522, 786
TfiI GAWTC 1 cut(s) 466
Tru1I TTAA 4 cut(s) 27, 53, 303, 747
Tru9I TTAA 4 cut(s) 27, 53, 303, 747
TscAI CASTG 1 cut(s) 721
TspGWI ACGGA 1 cut(s) 381
TspRI CASTG 1 cut(s) 721
VpaK11BI GGWCC 1 cut(s) 368
VspI ATTAAT 1 cut(s) 747
XapI RAATTY 1 cut(s) 272
XspI CTAG 3 cut(s) 9, 479, 578
Zsp2I ATGCAT 1 cut(s) 674
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.