Rorug06G0418500

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0005619
Physical Location & Seq
Reverse (-)
55735989 .. 55740380
4392 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0418500.1

Sequence Viewer

Length: 987 bp
ATGATGGGGTCTTTGCAAGGGCCAGTGATTTGCCCCACTGTCAGCGCAAAGCAAGCTGGTTCTTACAATCTGCCCATGGTAGGCCCTCTATTGAAGGTCAGGCATCTGAGAAGTGAGCTATGGGGATTGAAGGGAATCAGTGGTTGCATCACTAAGGCAGGCTTTGCTGCTCGCCCGCAAAATGCACGAAAATGCACAAGAGTGCATTGTACTTTCAGTTCTTCGTCAAATGGGAATGGAAGCATGGCAGAGAATTTCAATGAAAATGATGAAGACTATGTTAATTCTAGTGTGCTTGAGGCCGTTGAGGTGAAGAGTGGAGCTGATGGGTTCATGATCAAAATGAGGGATGGCAGGCACATGAGGTGTGTCCATAACAACCCTCAGGGTGGCCATCTGCCAGACTATGCTCCACATCCCGCAATTGTACTGAAGATGGAAGATGGGACTGGCCTTCTTCTCCCAATTATTGTTTTGGAAATGCCTAGTGTGTTGCTCATGGCAGCAGTGCGCAATGTTCCTATTGCTAGGCCAACTATGTATCAAGTGGTGAGGGAAATGATTGACAAGATGGGCTATGAGGTCCAACTTGTTAGAGTCACTAAGAGAGTGCATGAAGCATATTTTGCTCAGTTATACCTCAGAAAGGCGGGTAGTGAAACAGAGTTTGTCAGCTTTGACCTTCGGCCTTCAGATGCCATCAACATTGCTGTAAGATGCAAGGTTCCCATACAAGTTAACAAGTACCTGGCATACAGTGATGGGATGAGAGTTATTGAATCTGGAAAGCTCTCTACACATACCCCTGCTTCAGATGGCTTATTGTTTACTGAACTGGATCGGCCAAATGGTAAGCCATGTGTTGAGACAAAGGAGTTTAATCTTGTGCGCAACATGCTTATTGCTGCTGTTGAAGAACGCTACAGAGATGCTGCTCAATGGAGGGACAAGCTCCTCCAACTTCGTGCTAAAAAGAACTTGGCGTAG

Protein Analysis

328

Amino Acids

36.43

Weight (kDa)

9.18

Isoelectric Point (pI)

39.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
BFN_dom PF02577 142 - 254 3.3e-21 Bifunctional nuclease domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 2 cut(s) 512, 890
AciI CCGC 3 cut(s) 176, 420, 650
AclWI GGATC 1 cut(s) 846
AcoI YGGCCR 2 cut(s) 391, 842
AcsI RAATTY 1 cut(s) 253
AcuI CTGAAG 3 cut(s) 452, 675, 795
AfaI GTAC 3 cut(s) 211, 429, 746
AfiI CCNNNNNNNGG 3 cut(s) 80, 389, 646
AgsI TTSAA 5 cut(s) 94, 130, 259, 779, 914
AjnI CCWGG 1 cut(s) 747
AleI CACNNNNGTG 1 cut(s) 200
AluBI AGCT 6 cut(s) 56, 118, 323, 675, 790, 952
AluI AGCT 6 cut(s) 56, 118, 323, 675, 790, 952
Alw26I GTCTC 1 cut(s) 860
AlwI GGATC 1 cut(s) 846
AoxI GGCC 8 cut(s) 20, 82, 300, 391, 451, 530, 686, 842
ApeKI GCWGC 4 cut(s) 167, 503, 905, 932
ApoI RAATTY 1 cut(s) 253
AspLEI GCGC 3 cut(s) 47, 513, 891
AspS9I GGNCC 3 cut(s) 20, 83, 583
AsuHPI GGTGA 2 cut(s) 322, 562
AvaII GGWCC 1 cut(s) 583
AxyI CCTNAGG 1 cut(s) 384
BalI TGGCCA 1 cut(s) 393
BbsI GAAGAC 1 cut(s) 279
BbvI GCAGC 4 cut(s) 154, 515, 892, 919
BccI CCATC 9 cut(s) 320, 344, 402, 430, 437, 565, 707, 755, 809
BceAI ACGGC 1 cut(s) 287
BciT130I CCWGG 1 cut(s) 749
BclI TGATCA 1 cut(s) 336
BcoDI GTCTC 1 cut(s) 860
BfaI CTAG 3 cut(s) 288, 486, 528
BfmI CTRYAG 1 cut(s) 922
BisI GCNGC 4 cut(s) 168, 504, 906, 933
BlsI GCNGC 4 cut(s) 169, 505, 907, 934
Bme1390I CCNGG 1 cut(s) 749
Bme18I GGWCC 1 cut(s) 583
BmgT120I GGNCC 3 cut(s) 20, 83, 583
BmiI GGNNCC 1 cut(s) 726
BmrFI CCNGG 1 cut(s) 749
BmsI GCATC 5 cut(s) 112, 156, 685, 707, 919
BpiI GAAGAC 1 cut(s) 279
BpuEI CTTGAG 1 cut(s) 317
BsaJI CCNNGG 1 cut(s) 75
Bsc4I CCNNNNNNNGG 3 cut(s) 80, 389, 646
Bse1I ACTGG 3 cut(s) 23, 454, 840
Bse21I CCTNAGG 1 cut(s) 384
Bse3DI GCAATG 2 cut(s) 520, 705
BseBI CCWGG 1 cut(s) 749
BseDI CCNNGG 1 cut(s) 75
BseGI GGATG 3 cut(s) 355, 415, 771
BseLI CCNNNNNNNGG 3 cut(s) 80, 389, 646
BseMI GCAATG 2 cut(s) 520, 705
BseMII CTCAG 4 cut(s) 98, 398, 644, 655
BseNI ACTGG 3 cut(s) 23, 454, 840
BseRI GAGGAG 1 cut(s) 944
BseXI GCAGC 4 cut(s) 154, 515, 892, 919
BshFI GGCC 8 cut(s) 22, 84, 302, 393, 453, 532, 688, 844
BslFI GGGAC 2 cut(s) 460, 959
BslI CCNNNNNNNGG 3 cut(s) 80, 389, 646
BsmAI GTCTC 1 cut(s) 860
BsmFI GGGAC 2 cut(s) 460, 959
BsnI GGCC 8 cut(s) 22, 84, 302, 393, 453, 532, 688, 844
Bsp143I GATC 2 cut(s) 336, 838
Bsp19I CCATGG 1 cut(s) 75
BspACI CCGC 3 cut(s) 176, 420, 650
BspANI GGCC 8 cut(s) 22, 84, 302, 393, 453, 532, 688, 844
BspCNI CTCAG 4 cut(s) 99, 397, 643, 654
BspHI TCATGA 1 cut(s) 333
BspLI GGNNCC 1 cut(s) 726
BspPI GGATC 1 cut(s) 846
BsrDI GCAATG 2 cut(s) 520, 705
BsrI ACTGG 3 cut(s) 23, 454, 840
BssECI CCNNGG 1 cut(s) 75
BssMI GATC 2 cut(s) 336, 838
BssT1I CCWWGG 1 cut(s) 75
Bst2UI CCWGG 1 cut(s) 749
Bst4CI ACNGT 2 cut(s) 40, 758
Bst6I CTCTTC 1 cut(s) 308
BstAPI GCANNNNNTGC 2 cut(s) 164, 626
BstC8I GCNNGC 5 cut(s) 54, 160, 172, 176, 356
BstDEI CTNAG 6 cut(s) 107, 153, 384, 603, 630, 641
BstDSI CCRYGG 1 cut(s) 75
BstENI CCTNNNNNAGG 1 cut(s) 644
BstF5I GGATG 3 cut(s) 355, 415, 771
BstHHI GCGC 3 cut(s) 47, 513, 891
BstKTI GATC 2 cut(s) 339, 841
BstMAI GTCTC 1 cut(s) 860
BstMBI GATC 2 cut(s) 336, 838
BstMWI GCNNNNNNNGC 4 cut(s) 53, 164, 626, 895
BstNI CCWGG 1 cut(s) 749
BstNSI RCATGY 1 cut(s) 898
BstSCI CCNGG 1 cut(s) 747
BstSFI CTRYAG 1 cut(s) 922
BstV1I GCAGC 4 cut(s) 154, 515, 892, 919
BstV2I GAAGAC 1 cut(s) 279
Bsu36I CCTNAGG 1 cut(s) 384
BsuRI GGCC 8 cut(s) 22, 84, 302, 393, 453, 532, 688, 844
BtgI CCRYGG 1 cut(s) 75
BtsCI GGATG 3 cut(s) 355, 415, 771
BtsI GCAGTG 1 cut(s) 513
BtsIMutI CAGTG 5 cut(s) 30, 36, 145, 513, 763
Cac8I GCNNGC 5 cut(s) 54, 160, 172, 176, 356
CciI TCATGA 1 cut(s) 333
CfoI GCGC 3 cut(s) 47, 513, 891
Cfr13I GGNCC 3 cut(s) 20, 83, 583
Csp6I GTAC 3 cut(s) 210, 428, 745
CviAII CATG 8 cut(s) 76, 244, 334, 361, 499, 614, 858, 895
CviQI GTAC 3 cut(s) 210, 428, 745
DdeI CTNAG 6 cut(s) 107, 153, 384, 603, 630, 641
DpnI GATC 2 cut(s) 338, 840
DpnII GATC 2 cut(s) 336, 838
EaeI YGGCCR 2 cut(s) 391, 842
Eam1104I CTCTTC 1 cut(s) 308
EarI CTCTTC 1 cut(s) 308
Eco130I CCWWGG 1 cut(s) 75
Eco47I GGWCC 1 cut(s) 583
Eco57I CTGAAG 3 cut(s) 452, 675, 795
Eco81I CCTNAGG 1 cut(s) 384
EcoNI CCTNNNNNAGG 1 cut(s) 644
EcoO109I RGGNCCY 1 cut(s) 83
EcoRII CCWGG 1 cut(s) 747
EcoT14I CCWWGG 1 cut(s) 75
ErhI CCWWGG 1 cut(s) 75
FaeI CATG 8 cut(s) 79, 247, 337, 364, 502, 617, 861, 898
FalI AAGNNNNNCTT 2 cut(s) 146, 178
FaqI GGGAC 2 cut(s) 460, 959
FatI CATG 8 cut(s) 75, 243, 333, 360, 498, 613, 857, 894
FauI CCCGC 3 cut(s) 183, 427, 643
FbaI TGATCA 1 cut(s) 336
Fnu4HI GCNGC 4 cut(s) 168, 504, 906, 933
FokI GGATG 3 cut(s) 362, 402, 778
Fsp4HI GCNGC 4 cut(s) 168, 504, 906, 933
FspBI CTAG 3 cut(s) 288, 486, 528
FspI TGCGCA 2 cut(s) 512, 890
GlaI GCGC 3 cut(s) 46, 512, 890
GluI GCNGC 4 cut(s) 168, 504, 906, 933
HaeIII GGCC 8 cut(s) 22, 84, 302, 393, 453, 532, 688, 844
HhaI GCGC 3 cut(s) 47, 513, 891
Hin1II CATG 8 cut(s) 79, 247, 337, 364, 502, 617, 861, 898
Hin6I GCGC 3 cut(s) 45, 511, 889
HinP1I GCGC 3 cut(s) 45, 511, 889
HincII GTYRAC 1 cut(s) 739
HindII GTYRAC 1 cut(s) 739
HinfI GANTC 3 cut(s) 135, 597, 779
HpaI GTTAAC 1 cut(s) 739
HphI GGTGA 2 cut(s) 322, 562
Hpy166II GTNNAC 2 cut(s) 739, 828
Hpy188I TCNGA 4 cut(s) 108, 644, 694, 814
Hpy188III TCNNGA 2 cut(s) 334, 783
Hpy8I GTNNAC 2 cut(s) 739, 828
HpyAV CCTTC 5 cut(s) 88, 124, 464, 692, 699
HpyCH4III ACNGT 2 cut(s) 40, 758
HpyCH4V TGCA 7 cut(s) 16, 147, 185, 195, 205, 613, 720
HpyF10VI GCNNNNNNNGC 4 cut(s) 53, 164, 626, 895
HpyF3I CTNAG 6 cut(s) 107, 153, 384, 603, 630, 641
Hsp92II CATG 8 cut(s) 79, 247, 337, 364, 502, 617, 861, 898
HspAI GCGC 3 cut(s) 45, 511, 889
Ksp22I TGATCA 1 cut(s) 336
KspAI GTTAAC 1 cut(s) 739
Kzo9I GATC 2 cut(s) 336, 838
LmnI GCTCC 3 cut(s) 320, 415, 957
Lsp1109I GCAGC 4 cut(s) 154, 515, 892, 919
LweI GCATC 5 cut(s) 112, 156, 685, 707, 919
MaeI CTAG 3 cut(s) 288, 486, 528
MaeIII GTNAC 1 cut(s) 598
MalI GATC 2 cut(s) 338, 840
MboI GATC 2 cut(s) 336, 838
MboII GAAGA 7 cut(s) 213, 284, 325, 445, 449, 452, 926
MfeI CAATTG 1 cut(s) 423
MlsI TGGCCA 1 cut(s) 393
MluCI AATT 4 cut(s) 253, 283, 423, 465
MluNI TGGCCA 1 cut(s) 393
MlyI GAGTC 1 cut(s) 606
MmeI TCCRAC 2 cut(s) 610, 982
Mox20I TGGCCA 1 cut(s) 393
MscI TGGCCA 1 cut(s) 393
MseI TTAA 3 cut(s) 282, 738, 879
MslI CAYNNNNRTG 2 cut(s) 190, 200
Msp20I TGGCCA 1 cut(s) 393
MspR9I CCNGG 1 cut(s) 749
MunI CAATTG 1 cut(s) 423
MvaI CCWGG 1 cut(s) 749
MwoI GCNNNNNNNGC 4 cut(s) 53, 164, 626, 895
NcoI CCATGG 1 cut(s) 75
NdeII GATC 2 cut(s) 336, 838
NlaIII CATG 8 cut(s) 79, 247, 337, 364, 502, 617, 861, 898
NlaIV GGNNCC 1 cut(s) 726
NmuCI GTSAC 1 cut(s) 598
NsbI TGCGCA 2 cut(s) 512, 890
NspI RCATGY 1 cut(s) 898
OliI CACNNNNGTG 1 cut(s) 200
PagI TCATGA 1 cut(s) 333
PfeI GAWTC 2 cut(s) 135, 779
PkrI GCNGC 4 cut(s) 169, 505, 907, 934
PleI GAGTC 1 cut(s) 605
PpsI GAGTC 1 cut(s) 605
Psp6I CCWGG 1 cut(s) 747
PspGI CCWGG 1 cut(s) 747
PspN4I GGNNCC 1 cut(s) 726
PspPI GGNCC 3 cut(s) 20, 83, 583
PsrI GAACNNNNNNTAC 2 cut(s) 202, 234
RsaI GTAC 3 cut(s) 211, 429, 746
RsaNI GTAC 3 cut(s) 210, 428, 745
RseI CAYNNNNRTG 2 cut(s) 190, 200
SaqAI TTAA 3 cut(s) 282, 738, 879
SatI GCNGC 4 cut(s) 168, 504, 906, 933
Sau3AI GATC 2 cut(s) 336, 838
Sau96I GGNCC 3 cut(s) 20, 83, 583
SchI GAGTC 1 cut(s) 606
ScrFI CCNGG 1 cut(s) 749
SfaNI GCATC 5 cut(s) 112, 156, 685, 707, 919
SfcI CTRYAG 1 cut(s) 922
SinI GGWCC 1 cut(s) 583
SmiMI CAYNNNNRTG 2 cut(s) 190, 200
SmlI CTYRAG 1 cut(s) 296
SmoI CTYRAG 1 cut(s) 296
Sse9I AATT 4 cut(s) 253, 283, 423, 465
SsiI CCGC 3 cut(s) 176, 420, 650
SspMI CTAG 3 cut(s) 288, 486, 528
StyD4I CCNGG 1 cut(s) 747
StyI CCWWGG 1 cut(s) 75
TaaI ACNGT 2 cut(s) 40, 758
TasI AATT 4 cut(s) 253, 283, 423, 465
TatI WGTACW 2 cut(s) 209, 427
TfiI GAWTC 2 cut(s) 135, 779
Tru1I TTAA 3 cut(s) 282, 738, 879
Tru9I TTAA 3 cut(s) 282, 738, 879
TscAI CASTG 5 cut(s) 30, 43, 145, 513, 763
TseFI GTSAC 1 cut(s) 598
TseI GCWGC 4 cut(s) 167, 503, 905, 932
Tsp45I GTSAC 1 cut(s) 598
TspDTI ATGAA 4 cut(s) 276, 285, 322, 630
TspRI CASTG 5 cut(s) 30, 43, 145, 513, 763
VpaK11BI GGWCC 1 cut(s) 583
XagI CCTNNNNNAGG 1 cut(s) 644
XapI RAATTY 1 cut(s) 253
XceI RCATGY 1 cut(s) 898
XspI CTAG 3 cut(s) 288, 486, 528
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.