Rroxscaffold_5G00359930

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000621
Physical Location & Seq
Reverse (-)
40251313 .. 40253420
2108 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00359930.1

Sequence Viewer

Length: 759 bp
ATGTTACAGAGTTTGAAGGATTCTGGTGAGAAAAAACTGTTGAAACTTGGGCCCTTTGGATCAGAAACCGGAGGGGAAAGTTTTGATGATGGAGCTCATTCAACAGTCAGGCAATTGGTAATTTCTCATTCATCCAACATTAACTCTATACAGATTGAATATGATGACAACGGGAGCTCATTTTGGTCAGACAAGCATGGTCACGAAGGCGATATCTATATTGACAAGATCAATCTTGATTATCCGTACGAATATTTAATTTCAGTTCATGGAAAATACGTTAAGTTTTGGCGGTTCCCAACCTATATTTGCTCCCTTACTTTTAGGAGCAACAAGAAATGTTACGGACCATATGGAGATGAAGGAAGCCTGGGAAAGTATTTTTCAATCCAAGCACCTGGGAATATGATTGTCGGCTTTCATGGCAGGGCTTCCATTTTTATGGATATCCGTGCAATAGGAGCTTACCTTAAACCTCTTGATCATTGTCAGAATGAAAAGTACAACCCCTCTAAAGTTCTCGAGGTCGTGCCCGCATTACGAAATCCATCAAGGCCTCTACGTCAGTCTAGATATCCTTCTCAGACCAAGCACAGAAACACACACGACGACGACGAAGATAACAAACAATTATCATGCATAATTGCCGATAACCAAGTTAAGGGAAACGAGGGCGACCGGAATGGAGGATTCGCTGTTGGAAATACATATATTAATACCCACTACTATTATCCAGAAAAGTTCAATAATGCCATGTAG
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

252

Amino Acids

28.6

Weight (kDa)

6.79

Isoelectric Point (pI)

35.14

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Jacalin PF01419 16 - 156 2.8e-34 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
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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) 292, 534
AclWI GGATC 1 cut(s) 67
AfaI GTAC 2 cut(s) 248, 503
AfiI CCNNNNNNNGG 1 cut(s) 661
AgsI TTSAA 6 cut(s) 16, 43, 102, 158, 387, 745
AjnI CCWGG 2 cut(s) 369, 397
AluBI AGCT 3 cut(s) 95, 177, 464
AluI AGCT 3 cut(s) 95, 177, 464
Alw21I GWGCWC 2 cut(s) 97, 179
AlwI GGATC 1 cut(s) 67
Ama87I CYCGRG 1 cut(s) 521
AoxI GGCC 2 cut(s) 50, 554
ApaI GGGCCC 1 cut(s) 54
AseI ATTAAT 1 cut(s) 714
AspS9I GGNCC 3 cut(s) 50, 51, 347
AsuHPI GGTGA 1 cut(s) 38
AvaI CYCGRG 1 cut(s) 521
AvaII GGWCC 1 cut(s) 347
BaeGI GKGCMC 2 cut(s) 54, 534
BanII GRGCYC 3 cut(s) 54, 97, 179
Bbv12I GWGCWC 2 cut(s) 97, 179
BccI CCATC 2 cut(s) 83, 556
BciT130I CCWGG 2 cut(s) 371, 399
BclI TGATCA 1 cut(s) 481
BfaI CTAG 1 cut(s) 570
Bme1390I CCNGG 2 cut(s) 371, 399
Bme18I GGWCC 1 cut(s) 347
BmeT110I CYCGRG 1 cut(s) 521
BmgT120I GGNCC 3 cut(s) 50, 51, 347
BmiI GGNNCC 2 cut(s) 52, 296
BmrFI CCNGG 2 cut(s) 371, 399
BsaJI CCNNGG 2 cut(s) 370, 398
BsaWI WCCGGW 2 cut(s) 68, 678
Bsc4I CCNNNNNNNGG 1 cut(s) 661
BseBI CCWGG 2 cut(s) 371, 399
BseDI CCNNGG 2 cut(s) 370, 398
BseGI GGATG 1 cut(s) 131
BseLI CCNNNNNNNGG 1 cut(s) 661
BseMII CTCAG 1 cut(s) 596
BseSI GKGCMC 2 cut(s) 54, 534
Bsh1285I CGRYCG 1 cut(s) 679
BshFI GGCC 2 cut(s) 52, 556
BsiEI CGRYCG 1 cut(s) 679
BsiHKAI GWGCWC 2 cut(s) 97, 179
BsiHKCI CYCGRG 1 cut(s) 521
BsiSI CCGG 2 cut(s) 69, 679
BsiWI CGTACG 1 cut(s) 246
BslI CCNNNNNNNGG 1 cut(s) 661
BsnI GGCC 2 cut(s) 52, 556
BsoBI CYCGRG 1 cut(s) 521
Bsp120I GGGCCC 1 cut(s) 50
Bsp1286I GDGCHC 4 cut(s) 54, 97, 179, 534
Bsp143I GATC 3 cut(s) 59, 228, 481
BspACI CCGC 2 cut(s) 292, 534
BspANI GGCC 2 cut(s) 52, 556
BspCNI CTCAG 1 cut(s) 595
BspLI GGNNCC 2 cut(s) 52, 296
BspPI GGATC 1 cut(s) 67
BssECI CCNNGG 2 cut(s) 370, 398
BssMI GATC 3 cut(s) 59, 228, 481
Bst2UI CCWGG 2 cut(s) 371, 399
Bst4CI ACNGT 2 cut(s) 39, 106
BstC8I GCNNGC 1 cut(s) 534
BstDEI CTNAG 1 cut(s) 582
BstF5I GGATG 1 cut(s) 131
BstKTI GATC 3 cut(s) 62, 231, 484
BstMBI GATC 3 cut(s) 59, 228, 481
BstMCI CGRYCG 1 cut(s) 679
BstMWI GCNNNNNNNGC 2 cut(s) 423, 461
BstNI CCWGG 2 cut(s) 371, 399
BstSCI CCNGG 2 cut(s) 369, 397
BstSLI GKGCMC 2 cut(s) 54, 534
BstXI CCANNNNNNTGG 2 cut(s) 398, 442
BsuRI GGCC 2 cut(s) 52, 556
BtsCI GGATG 1 cut(s) 131
Cac8I GCNNGC 1 cut(s) 534
Cfr13I GGNCC 3 cut(s) 50, 51, 347
Csp6I GTAC 2 cut(s) 247, 502
CviAII CATG 5 cut(s) 197, 269, 422, 636, 754
CviJI RGCY 8 cut(s) 52, 95, 177, 369, 417, 431, 464, 556
CviKI_1 RGCY 8 cut(s) 52, 95, 177, 369, 417, 431, 464, 556
CviQI GTAC 2 cut(s) 247, 502
DdeI CTNAG 1 cut(s) 582
DpnI GATC 3 cut(s) 61, 230, 483
DpnII GATC 3 cut(s) 59, 228, 481
Ecl136II GAGCTC 2 cut(s) 95, 177
Eco147I AGGCCT 1 cut(s) 556
Eco24I GRGCYC 3 cut(s) 54, 97, 179
Eco32I GATATC 3 cut(s) 214, 448, 575
Eco47I GGWCC 1 cut(s) 347
Eco53kI GAGCTC 2 cut(s) 95, 177
Eco88I CYCGRG 1 cut(s) 521
EcoICRI GAGCTC 2 cut(s) 95, 177
EcoO109I RGGNCCY 1 cut(s) 51
EcoRII CCWGG 2 cut(s) 369, 397
EcoRV GATATC 3 cut(s) 214, 448, 575
EcoT22I ATGCAT 1 cut(s) 641
EcoT38I GRGCYC 3 cut(s) 54, 97, 179
FaeI CATG 5 cut(s) 200, 272, 425, 639, 757
FatI CATG 5 cut(s) 196, 268, 421, 635, 753
FauI CCCGC 1 cut(s) 541
FauNDI CATATG 1 cut(s) 352
FbaI TGATCA 1 cut(s) 481
FokI GGATG 1 cut(s) 118
FriOI GRGCYC 3 cut(s) 54, 97, 179
FspBI CTAG 1 cut(s) 570
HaeIII GGCC 2 cut(s) 52, 556
HapII CCGG 2 cut(s) 69, 679
Hin1II CATG 5 cut(s) 200, 272, 425, 639, 757
HinfI GANTC 2 cut(s) 20, 690
HpaII CCGG 2 cut(s) 69, 679
HphI GGTGA 1 cut(s) 38
Hpy188I TCNGA 4 cut(s) 64, 190, 492, 585
Hpy188III TCNNGA 6 cut(s) 203, 236, 479, 521, 570, 734
Hpy99I CGWCG 3 cut(s) 611, 614, 617
HpyAV CCTTC 4 cut(s) 10, 200, 356, 588
HpyCH4III ACNGT 2 cut(s) 39, 106
HpyCH4IV ACGT 2 cut(s) 279, 562
HpyCH4V TGCA 2 cut(s) 455, 639
HpyF10VI GCNNNNNNNGC 2 cut(s) 423, 461
HpyF3I CTNAG 1 cut(s) 582
HpySE526I ACGT 2 cut(s) 279, 562
Hsp92II CATG 5 cut(s) 200, 272, 425, 639, 757
Ksp22I TGATCA 1 cut(s) 481
Kzo9I GATC 3 cut(s) 59, 228, 481
LmnI GCTCC 5 cut(s) 92, 174, 317, 327, 461
MaeI CTAG 1 cut(s) 570
MaeII ACGT 2 cut(s) 279, 562
MaeIII GTNAC 3 cut(s) 3, 200, 341
MalI GATC 3 cut(s) 61, 230, 483
MboI GATC 3 cut(s) 59, 228, 481
MboII GAAGA 1 cut(s) 629
MfeI CAATTG 1 cut(s) 113
MhlI GDGCHC 4 cut(s) 54, 97, 179, 534
MluCI AATT 5 cut(s) 113, 120, 258, 629, 642
MmeI TCCRAC 2 cut(s) 159, 679
MnlI CCTC 7 cut(s) 65, 486, 517, 520, 567, 664, 680
Mph1103I ATGCAT 1 cut(s) 641
MseI TTAA 6 cut(s) 141, 257, 282, 471, 660, 714
MslI CAYNNNNRTG 1 cut(s) 440
MspI CCGG 2 cut(s) 69, 679
MspR9I CCNGG 2 cut(s) 371, 399
MunI CAATTG 1 cut(s) 113
MvaI CCWGG 2 cut(s) 371, 399
MwoI GCNNNNNNNGC 2 cut(s) 423, 461
NdeI CATATG 1 cut(s) 352
NdeII GATC 3 cut(s) 59, 228, 481
NlaIII CATG 5 cut(s) 200, 272, 425, 639, 757
NlaIV GGNNCC 2 cut(s) 52, 296
NmuCI GTSAC 1 cut(s) 200
NsiI ATGCAT 1 cut(s) 641
PaeR7I CTCGAG 1 cut(s) 521
PceI AGGCCT 1 cut(s) 556
PcsI WCGNNNNNNNCGW 1 cut(s) 612
PfeI GAWTC 2 cut(s) 20, 690
Pfl23II CGTACG 1 cut(s) 246
PshBI ATTAAT 1 cut(s) 714
Psp124BI GAGCTC 2 cut(s) 97, 179
Psp6I CCWGG 2 cut(s) 369, 397
PspGI CCWGG 2 cut(s) 369, 397
PspLI CGTACG 1 cut(s) 246
PspN4I GGNNCC 2 cut(s) 52, 296
PspOMI GGGCCC 1 cut(s) 50
PspPI GGNCC 3 cut(s) 50, 51, 347
RsaI GTAC 2 cut(s) 248, 503
RsaNI GTAC 2 cut(s) 247, 502
RseI CAYNNNNRTG 1 cut(s) 440
SacI GAGCTC 2 cut(s) 97, 179
SaqAI TTAA 6 cut(s) 141, 257, 282, 471, 660, 714
Sau3AI GATC 3 cut(s) 59, 228, 481
Sau96I GGNCC 3 cut(s) 50, 51, 347
ScrFI CCNGG 2 cut(s) 371, 399
SduI GDGCHC 4 cut(s) 54, 97, 179, 534
Sfr274I CTCGAG 1 cut(s) 521
SinI GGWCC 1 cut(s) 347
SlaI CTCGAG 1 cut(s) 521
SmiMI CAYNNNNRTG 1 cut(s) 440
SmlI CTYRAG 1 cut(s) 521
SmoI CTYRAG 1 cut(s) 521
Sse9I AATT 5 cut(s) 113, 120, 258, 629, 642
SseBI AGGCCT 1 cut(s) 556
SsiI CCGC 2 cut(s) 292, 534
SspI AATATT 1 cut(s) 254
SspMI CTAG 1 cut(s) 570
SstI GAGCTC 2 cut(s) 97, 179
StuI AGGCCT 1 cut(s) 556
StyD4I CCNGG 2 cut(s) 369, 397
TaaI ACNGT 2 cut(s) 39, 106
TaiI ACGT 2 cut(s) 282, 565
TaqI TCGA 1 cut(s) 522
TasI AATT 5 cut(s) 113, 120, 258, 629, 642
TatI WGTACW 1 cut(s) 501
TfiI GAWTC 2 cut(s) 20, 690
Tru1I TTAA 6 cut(s) 141, 257, 282, 471, 660, 714
Tru9I TTAA 6 cut(s) 141, 257, 282, 471, 660, 714
TseFI GTSAC 1 cut(s) 200
Tsp45I GTSAC 1 cut(s) 200
TspDTI ATGAA 5 cut(s) 120, 257, 375, 410, 510
TspGWI ACGGA 3 cut(s) 234, 360, 440
VpaK11BI GGWCC 1 cut(s) 347
VspI ATTAAT 1 cut(s) 714
XbaI TCTAGA 1 cut(s) 569
XhoI CTCGAG 1 cut(s) 521
XspI CTAG 1 cut(s) 570
Zsp2I ATGCAT 1 cut(s) 641
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.