Rroxscaffold_5G00359960

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000621
Physical Location & Seq
Reverse (-)
40272902 .. 40274233
1332 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00359960.1

Sequence Viewer

Length: 828 bp
ATGGCAATATCCAGGAGGAGACTTTGTCGACTAAACAATATACAAACAAATTTCAAGGTTGGGCCATTTGGATCAGAAACTGGAGGGGAAATTTTTGATGATGGTATTTACTCAACAGTGAGGCAGTTGGTGATACATTATAGATCGTCCAATGTTGATTCCATCAGGATTGAATATGATGACAATGGGAGCTCATTTTGGTCGGACCAACATGGTTCCAGCCTGCTTTCTAGCAAAACAGACACGATCAAGCTTGATTATCCGGACGAATTTTTGACTTCAGTTCATGGACATTATGATAAGCTGTGGTACTTGCCGACCTATGTTTGCTCCCTTACTTTCAAGAGCAACAAGAAGAGTTATGGACCATATGGAAAGGAAGTAGGAAGATTGTTTTCAATTCAAGTGCCTGGGAGTAAGATTGTTGGCTTTCATGGCAGGTCTTCCACTTATATGGAAATTCGGGCAATAGGTGCTCACCTAAAGCCACTTGATCATCACGAGAATGAAAAGTACCTCCAGTCAAAACCTCTCGAGCTTAAAGACTCTTCAGTGGTGCCGGTGGTACAAAATGTGTCGACGCCTCTACTTCTAGATGGATATCCTTCTCAGACCATGCTGATCAAGGAAGATTACGACAAAGTTAACAAACCGATATCATGCGTAATTTCCAATAACCAAGTTCAGGGAAACAAGGGCAACCACTGTGGAACTTACGCTGTTGGAAATACATATAATTTTCATATCAAGCTACACTTGTTCTACATAGATTCTAGTTGGCTCGAATTCCTAACTAGTGTTCTAAAATCCCTCTGGGTGGCGGCCTAG
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

275

Amino Acids

31.12

Weight (kDa)

8.21

Isoelectric Point (pI)

40.43

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Jacalin PF01419 20 - 160 2.5e-37 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)
Acc36I ACCTGC 1 cut(s) 429
AccB1I GGYRCC 1 cut(s) 556
AccI GTMKAC 2 cut(s) 28, 578
AccIII TCCGGA 1 cut(s) 262
AciI CCGC 1 cut(s) 821
AclWI GGATC 1 cut(s) 79
AcsI RAATTY 5 cut(s) 49, 90, 269, 459, 785
AcuI CTGAAG 2 cut(s) 264, 534
AcyI GRCGYC 1 cut(s) 581
AfaI GTAC 3 cut(s) 311, 515, 567
AfiI CCNNNNNNNGG 2 cut(s) 685, 817
AgsI TTSAA 5 cut(s) 55, 173, 343, 399, 404
AhlI ACTAGT 1 cut(s) 794
AjnI CCWGG 2 cut(s) 11, 409
AluBI AGCT 5 cut(s) 192, 253, 304, 538, 751
AluI AGCT 5 cut(s) 192, 253, 304, 538, 751
Alw21I GWGCWC 2 cut(s) 194, 478
Alw26I GTCTC 1 cut(s) 13
AlwI GGATC 1 cut(s) 79
AlwNI CAGNNNCTG 1 cut(s) 80
Ama87I CYCGRG 1 cut(s) 533
Aor13HI TCCGGA 1 cut(s) 262
AoxI GGCC 2 cut(s) 62, 822
ApoI RAATTY 5 cut(s) 49, 90, 269, 459, 785
AspS9I GGNCC 3 cut(s) 62, 205, 365
AsuHPI GGTGA 2 cut(s) 142, 470
AvaI CYCGRG 1 cut(s) 533
AvaII GGWCC 2 cut(s) 205, 365
BanI GGYRCC 1 cut(s) 556
BanII GRGCYC 1 cut(s) 194
BauI CACGAG 1 cut(s) 500
BbsI GAAGAC 1 cut(s) 435
Bbv12I GWGCWC 2 cut(s) 194, 478
BccI CCATC 3 cut(s) 95, 170, 590
BciT130I CCWGG 2 cut(s) 13, 411
BclI TGATCA 2 cut(s) 493, 621
BcoDI GTCTC 1 cut(s) 13
BcuI ACTAGT 1 cut(s) 794
BfaI CTAG 5 cut(s) 231, 593, 774, 795, 826
BfuAI ACCTGC 1 cut(s) 429
BisI GCNGC 1 cut(s) 822
BlsI GCNGC 1 cut(s) 823
Bme1390I CCNGG 2 cut(s) 13, 411
Bme18I GGWCC 2 cut(s) 205, 365
BmeT110I CYCGRG 1 cut(s) 533
BmgT120I GGNCC 3 cut(s) 62, 205, 365
BmiI GGNNCC 2 cut(s) 217, 558
BmrFI CCNGG 2 cut(s) 13, 411
BpiI GAAGAC 1 cut(s) 435
BpmI CTGGAG 2 cut(s) 102, 503
BsaBI GATNNNNATC 1 cut(s) 600
BsaHI GRCGYC 1 cut(s) 581
BsaJI CCNNGG 1 cut(s) 410
BsaWI WCCGGW 1 cut(s) 262
BsaXI ACNNNNNCTCC 2 cut(s) 10, 40
Bsc4I CCNNNNNNNGG 2 cut(s) 685, 817
Bse118I RCCGGY 1 cut(s) 559
Bse1I ACTGG 2 cut(s) 85, 520
Bse8I GATNNNNATC 1 cut(s) 600
BseAI TCCGGA 1 cut(s) 262
BseBI CCWGG 2 cut(s) 13, 411
BseDI CCNNGG 1 cut(s) 410
BseJI GATNNNNATC 1 cut(s) 600
BseLI CCNNNNNNNGG 2 cut(s) 685, 817
BseMII CTCAG 1 cut(s) 623
BseNI ACTGG 2 cut(s) 85, 520
BseRI GAGGAG 1 cut(s) 31
BshFI GGCC 2 cut(s) 64, 824
BshNI GGYRCC 1 cut(s) 556
BsiHKAI GWGCWC 2 cut(s) 194, 478
BsiHKCI CYCGRG 1 cut(s) 533
BsiSI CCGG 2 cut(s) 263, 560
BslI CCNNNNNNNGG 2 cut(s) 685, 817
BsmAI GTCTC 1 cut(s) 13
BsnI GGCC 2 cut(s) 64, 824
BsoBI CYCGRG 1 cut(s) 533
Bsp1286I GDGCHC 2 cut(s) 194, 478
Bsp13I TCCGGA 1 cut(s) 262
Bsp143I GATC 5 cut(s) 71, 143, 246, 493, 621
BspACI CCGC 1 cut(s) 821
BspANI GGCC 2 cut(s) 64, 824
BspCNI CTCAG 1 cut(s) 622
BspEI TCCGGA 1 cut(s) 262
BspLI GGNNCC 2 cut(s) 217, 558
BspMI ACCTGC 1 cut(s) 429
BspPI GGATC 1 cut(s) 79
BspT107I GGYRCC 1 cut(s) 556
BsrFI RCCGGY 1 cut(s) 559
BsrI ACTGG 2 cut(s) 85, 520
BssAI RCCGGY 1 cut(s) 559
BssECI CCNNGG 1 cut(s) 410
BssMI GATC 5 cut(s) 71, 143, 246, 493, 621
BssNI GRCGYC 1 cut(s) 581
BssSI CACGAG 1 cut(s) 500
Bst2BI CACGAG 1 cut(s) 500
Bst2UI CCWGG 2 cut(s) 13, 411
Bst4CI ACNGT 2 cut(s) 118, 707
Bst6I CTCTTC 2 cut(s) 350, 553
BstACI GRCGYC 1 cut(s) 581
BstAPI GCANNNNNTGC 1 cut(s) 473
BstC8I GCNNGC 1 cut(s) 224
BstDEI CTNAG 1 cut(s) 609
BstKTI GATC 5 cut(s) 74, 146, 249, 496, 624
BstMAI GTCTC 1 cut(s) 13
BstMBI GATC 5 cut(s) 71, 143, 246, 493, 621
BstMWI GCNNNNNNNGC 2 cut(s) 435, 473
BstNI CCWGG 2 cut(s) 13, 411
BstSCI CCNGG 2 cut(s) 11, 409
BstV2I GAAGAC 1 cut(s) 435
BstXI CCANNNNNNTGG 1 cut(s) 454
BsuRI GGCC 2 cut(s) 64, 824
BtsIMutI CAGTG 3 cut(s) 123, 558, 703
BveI ACCTGC 1 cut(s) 429
Cac8I GCNNGC 1 cut(s) 224
CaiI CAGNNNCTG 1 cut(s) 80
Cfr10I RCCGGY 1 cut(s) 559
Cfr13I GGNCC 3 cut(s) 62, 205, 365
CseI GACGC 1 cut(s) 589
Csp6I GTAC 3 cut(s) 310, 514, 566
CspCI CAANNNNNGTGG 2 cut(s) 688, 723
CviAII CATG 5 cut(s) 212, 287, 434, 616, 660
CviQI GTAC 3 cut(s) 310, 514, 566
DdeI CTNAG 1 cut(s) 609
DpnI GATC 5 cut(s) 73, 145, 248, 495, 623
DpnII GATC 5 cut(s) 71, 143, 246, 493, 621
Eam1104I CTCTTC 2 cut(s) 350, 553
EarI CTCTTC 2 cut(s) 350, 553
Ecl136II GAGCTC 1 cut(s) 192
Eco24I GRGCYC 1 cut(s) 194
Eco32I GATATC 2 cut(s) 602, 657
Eco47I GGWCC 2 cut(s) 205, 365
Eco53kI GAGCTC 1 cut(s) 192
Eco57I CTGAAG 2 cut(s) 264, 534
Eco88I CYCGRG 1 cut(s) 533
EcoICRI GAGCTC 1 cut(s) 192
EcoRI GAATTC 1 cut(s) 785
EcoRII CCWGG 2 cut(s) 11, 409
EcoRV GATATC 2 cut(s) 602, 657
EcoT38I GRGCYC 1 cut(s) 194
FaeI CATG 5 cut(s) 215, 290, 437, 619, 663
FalI AAGNNNNNCTT 2 cut(s) 740, 772
FatI CATG 5 cut(s) 211, 286, 433, 615, 659
FauNDI CATATG 1 cut(s) 370
FbaI TGATCA 2 cut(s) 493, 621
FblI GTMKAC 2 cut(s) 28, 578
Fnu4HI GCNGC 1 cut(s) 822
FriOI GRGCYC 1 cut(s) 194
Fsp4HI GCNGC 1 cut(s) 822
FspBI CTAG 5 cut(s) 231, 593, 774, 795, 826
GluI GCNGC 1 cut(s) 822
GsuI CTGGAG 2 cut(s) 102, 503
HaeIII GGCC 2 cut(s) 64, 824
HapII CCGG 2 cut(s) 263, 560
HgaI GACGC 1 cut(s) 589
Hin1I GRCGYC 1 cut(s) 581
Hin1II CATG 5 cut(s) 215, 290, 437, 619, 663
HincII GTYRAC 3 cut(s) 29, 579, 646
HindII GTYRAC 3 cut(s) 29, 579, 646
HindIII AAGCTT 1 cut(s) 251
HinfI GANTC 3 cut(s) 158, 545, 770
HpaI GTTAAC 1 cut(s) 646
HpaII CCGG 2 cut(s) 263, 560
HphI GGTGA 2 cut(s) 142, 470
Hpy166II GTNNAC 3 cut(s) 29, 579, 646
Hpy188I TCNGA 3 cut(s) 76, 205, 612
Hpy188III TCNNGA 6 cut(s) 166, 263, 343, 500, 533, 593
Hpy8I GTNNAC 3 cut(s) 29, 579, 646
Hpy99I CGWCG 1 cut(s) 583
HpyAV CCTTC 1 cut(s) 615
HpyCH4III ACNGT 2 cut(s) 118, 707
HpyF10VI GCNNNNNNNGC 2 cut(s) 435, 473
HpyF3I CTNAG 1 cut(s) 609
Hsp92I GRCGYC 1 cut(s) 581
Hsp92II CATG 5 cut(s) 215, 290, 437, 619, 663
Kpn2I TCCGGA 1 cut(s) 262
Ksp22I TGATCA 2 cut(s) 493, 621
KspAI GTTAAC 1 cut(s) 646
Kzo9I GATC 5 cut(s) 71, 143, 246, 493, 621
LmnI GCTCC 2 cut(s) 189, 335
MaeI CTAG 5 cut(s) 231, 593, 774, 795, 826
MalI GATC 5 cut(s) 73, 145, 248, 495, 623
MboI GATC 5 cut(s) 71, 143, 246, 493, 621
MboII GAAGA 5 cut(s) 367, 399, 435, 540, 641
MhlI GDGCHC 2 cut(s) 194, 478
MluCI AATT 8 cut(s) 49, 90, 269, 399, 459, 666, 736, 785
MlyI GAGTC 1 cut(s) 539
MmeI TCCRAC 2 cut(s) 183, 703
MnlI CCTC 7 cut(s) 9, 77, 114, 527, 540, 594, 821
MroI TCCGGA 1 cut(s) 262
MseI TTAA 2 cut(s) 540, 645
MslI CAYNNNNRTG 2 cut(s) 452, 504
MspI CCGG 2 cut(s) 263, 560
MspR9I CCNGG 2 cut(s) 13, 411
MvaI CCWGG 2 cut(s) 13, 411
MwoI GCNNNNNNNGC 2 cut(s) 435, 473
NdeI CATATG 1 cut(s) 370
NdeII GATC 5 cut(s) 71, 143, 246, 493, 621
NlaIII CATG 5 cut(s) 215, 290, 437, 619, 663
NlaIV GGNNCC 2 cut(s) 217, 558
PaeR7I CTCGAG 1 cut(s) 533
PfeI GAWTC 2 cut(s) 158, 770
PflFI GACNNNGTC 1 cut(s) 24
PfoI TCCNGGA 1 cut(s) 11
PkrI GCNGC 1 cut(s) 823
PleI GAGTC 1 cut(s) 539
PpsI GAGTC 1 cut(s) 539
Psp124BI GAGCTC 1 cut(s) 194
Psp6I CCWGG 2 cut(s) 11, 409
PspGI CCWGG 2 cut(s) 11, 409
PspN4I GGNNCC 2 cut(s) 217, 558
PspPI GGNCC 3 cut(s) 62, 205, 365
PstNI CAGNNNCTG 1 cut(s) 80
PsyI GACNNNGTC 1 cut(s) 24
RsaI GTAC 3 cut(s) 311, 515, 567
RsaNI GTAC 3 cut(s) 310, 514, 566
RseI CAYNNNNRTG 2 cut(s) 452, 504
SacI GAGCTC 1 cut(s) 194
SalI GTCGAC 2 cut(s) 27, 577
SaqAI TTAA 2 cut(s) 540, 645
SatI GCNGC 1 cut(s) 822
Sau3AI GATC 5 cut(s) 71, 143, 246, 493, 621
Sau96I GGNCC 3 cut(s) 62, 205, 365
SchI GAGTC 1 cut(s) 539
ScrFI CCNGG 2 cut(s) 13, 411
SduI GDGCHC 2 cut(s) 194, 478
Sfr274I CTCGAG 1 cut(s) 533
SinI GGWCC 2 cut(s) 205, 365
SlaI CTCGAG 1 cut(s) 533
SmiMI CAYNNNNRTG 2 cut(s) 452, 504
SmlI CTYRAG 1 cut(s) 533
SmoI CTYRAG 1 cut(s) 533
SpeI ACTAGT 1 cut(s) 794
Sse9I AATT 8 cut(s) 49, 90, 269, 399, 459, 666, 736, 785
SsiI CCGC 1 cut(s) 821
SspMI CTAG 5 cut(s) 231, 593, 774, 795, 826
SstI GAGCTC 1 cut(s) 194
StyD4I CCNGG 2 cut(s) 11, 409
TaaI ACNGT 2 cut(s) 118, 707
TaqI TCGA 4 cut(s) 28, 534, 578, 783
TasI AATT 8 cut(s) 49, 90, 269, 399, 459, 666, 736, 785
TauI GCSGC 1 cut(s) 824
TfiI GAWTC 2 cut(s) 158, 770
Tru1I TTAA 2 cut(s) 540, 645
Tru9I TTAA 2 cut(s) 540, 645
TscAI CASTG 3 cut(s) 123, 558, 710
TspDTI ATGAA 4 cut(s) 275, 422, 522, 731
TspRI CASTG 3 cut(s) 123, 558, 710
Tth111I GACNNNGTC 1 cut(s) 24
VpaK11BI GGWCC 2 cut(s) 205, 365
XapI RAATTY 5 cut(s) 49, 90, 269, 459, 785
XbaI TCTAGA 1 cut(s) 592
XhoI CTCGAG 1 cut(s) 533
XmiI GTMKAC 2 cut(s) 28, 578
XspI CTAG 5 cut(s) 231, 593, 774, 795, 826
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.