MD15G1434200.v1.1

Protein ROOT PRIMORDIUM DEFECTIVE 1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr15
OG0022124
Physical Location & Seq
Reverse (-)
53444657 .. 53447772
3116 bp
Loading structure...
UTR
Exon/CDS
Intron
MD15G1434200.v1.1.491

Sequence Viewer

Length: 1137 bp
ATGTCTCTGATTAGGAAACTCCCCCATCGGTTCAACACCATCAGGACCTTTGTGAACGCCAAGGTAAAATGGGTCCGAGATCCATATTTGGACTACGTAGTTGAACGAGAGAAAGACCTTAAACAATCCATTTCTTTGAAGAACCAAATCCTCTCCAATCCTTCTCAGTCCCTCCCTCTCTCTGCAGCTTCTTTGCTCAAACCCCACCTTGACCTCCCCACTACATCCTCCAAATTTTTCCATAAATATCCTTCCTTCTTCTCCATATTCCAGCCCTCCCCTGGCCTCCCTCCCCATGTCAAGCTCACCCCACAAATCCTCTCACTCCATAAAGAAGAGTCAGCCATTCATACCTTCATGCCTAACAAATACAACGCCATTGAACGACTTTCTAAGGTTTTGATGCTCACCAGAGGGACCAAGTTGCCCATGCACCTGATTAACAGATTGAAATGGGATTTGGGTCTACCTCATGATATTGTGGGTACCCTTCTTGCTGATTTCCCAGATTATTTTCAGGTTTGTGAGGTTGAGGATGCAGTAACTGGGAAACTAGAGCTTGCGTTGGGGCTTGTTTGTTGGAGAAAGGAGCTTGCTTTATCTCAATTGGAGAAAAGGGCAATAATGGTTGACCTGAGTGAGAAGATGTTGAAGCACATTGCATTTCCAATGAACTTTCCAAAAGGGTTTGATTTGGATAAGAGGGTGAAAGATTGGGTTGAGGAATGGCAGAGATTGCCATATATTTCACCATACGAAAATGCAGCCCATCTTTCAGCAAATAGCGATCAGGCAGAGAAGTGGACGGTGGCAGTGCTTCATGAAGTTCTTTGGCTTATGGTTTCCAAGAAGACCGAGAGGGAAAATTTGTATGTTTTGGGAGAGTATTTGGGGTTCGAAAGGTCTAGGTTGAAAAAGGCTGTGGTGCATCACCCAGGAATCTTTTATGTTTCAAATAAAATTAGGACACAGACTGTGGTACTAAGGGAGGCATATAGGAAGAACTTCTTGATTGAGAAACACCCATTAATGGGTATTCGGTATCGGTACATTCATCTCATGAATAAGATACCAAGAAGGCATAATTCGAATCTTGTTTTGGCCTCTGATGGTAGAAGACTGATTTCTGTCAGCTGA
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
PORR

Protein Analysis

379

Amino Acids

43.98

Weight (kDa)

9.75

Isoelectric Point (pI)

40.34

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 25 - 356 2.8e-110 Plant organelle RNA recognition 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: OG0022124)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G24320
malus_domestica MD15G1434200.v1.1
prunus_persica Prupe.1G577900_v2.0.a1
pyrus_communis pycom15g38340

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 485
AccB1I GGYRCC 1 cut(s) 485
AccI GTMKAC 1 cut(s) 466
AclWI GGATC 1 cut(s) 74
AcsI RAATTY 2 cut(s) 233, 865
AfaI GTAC 3 cut(s) 487, 981, 1049
AfiI CCNNNNNNNGG 3 cut(s) 281, 1030, 1031
AgsI TTSAA 8 cut(s) 34, 104, 139, 383, 451, 652, 913, 954
AjnI CCWGG 2 cut(s) 280, 934
AjuI GAANNNNNNNTTGG 4 cut(s) 443, 475, 1082, 1114
AluBI AGCT 5 cut(s) 188, 304, 559, 592, 1134
AluI AGCT 5 cut(s) 188, 304, 559, 592, 1134
Alw26I GTCTC 1 cut(s) 9
AlwI GGATC 1 cut(s) 74
AlwNI CAGNNNCTG 1 cut(s) 545
AoxI GGCC 2 cut(s) 283, 1101
ApeKI GCWGC 2 cut(s) 185, 764
ApoI RAATTY 2 cut(s) 233, 865
AseI ATTAAT 1 cut(s) 1028
Asp700I GAANNNNTTC 1 cut(s) 1004
Asp718I GGTACC 1 cut(s) 485
AspS9I GGNCC 3 cut(s) 45, 73, 417
AsuHPI GGTGA 5 cut(s) 298, 400, 718, 741, 923
AsuII TTCGAA 2 cut(s) 897, 1088
AvaII GGWCC 3 cut(s) 45, 73, 417
BanI GGYRCC 1 cut(s) 485
BbsI GAAGAC 2 cut(s) 857, 1123
BbvI GCAGC 2 cut(s) 197, 776
BccI CCATC 4 cut(s) 33, 47, 777, 1103
BciT130I CCWGG 2 cut(s) 282, 936
BcoDI GTCTC 1 cut(s) 9
BfaI CTAG 2 cut(s) 554, 906
BfmI CTRYAG 1 cut(s) 183
BisI GCNGC 2 cut(s) 186, 765
BlsI GCNGC 2 cut(s) 187, 766
Bme1390I CCNGG 2 cut(s) 282, 936
Bme18I GGWCC 3 cut(s) 45, 73, 417
BmgT120I GGNCC 3 cut(s) 45, 73, 417
BmiI GGNNCC 3 cut(s) 74, 418, 487
BmrFI CCNGG 2 cut(s) 282, 936
BmrI ACTGGG 1 cut(s) 555
BmsI GCATC 3 cut(s) 393, 526, 937
BmuI ACTGGG 1 cut(s) 555
BpiI GAAGAC 2 cut(s) 857, 1123
Bpu14I TTCGAA 2 cut(s) 897, 1088
BsaAI YACGTR 1 cut(s) 97
BsaJI CCNNGG 3 cut(s) 60, 280, 934
Bsc4I CCNNNNNNNGG 3 cut(s) 281, 1030, 1031
Bse1I ACTGG 1 cut(s) 550
Bse3DI GCAATG 1 cut(s) 657
BseBI CCWGG 2 cut(s) 282, 936
BseDI CCNNGG 3 cut(s) 60, 280, 934
BseGI GGATG 2 cut(s) 224, 541
BseLI CCNNNNNNNGG 3 cut(s) 281, 1030, 1031
BseMI GCAATG 1 cut(s) 657
BseMII CTCAG 2 cut(s) 179, 626
BseNI ACTGG 1 cut(s) 550
BseXI GCAGC 2 cut(s) 197, 776
BshFI GGCC 2 cut(s) 285, 1103
BshNI GGYRCC 1 cut(s) 485
BslFI GGGAC 2 cut(s) 154, 430
BslI CCNNNNNNNGG 3 cut(s) 281, 1030, 1031
BsmAI GTCTC 1 cut(s) 9
BsmFI GGGAC 2 cut(s) 154, 430
BsnI GGCC 2 cut(s) 285, 1103
Bsp119I TTCGAA 2 cut(s) 897, 1088
Bsp143I GATC 2 cut(s) 79, 787
BspANI GGCC 2 cut(s) 285, 1103
BspCNI CTCAG 2 cut(s) 178, 627
BspHI TCATGA 3 cut(s) 472, 820, 1059
BspLI GGNNCC 3 cut(s) 74, 418, 487
BspMAI CTGCAG 1 cut(s) 187
BspPI GGATC 1 cut(s) 74
BspT104I TTCGAA 2 cut(s) 897, 1088
BspT107I GGYRCC 1 cut(s) 485
BsrDI GCAATG 1 cut(s) 657
BsrI ACTGG 1 cut(s) 550
BssECI CCNNGG 3 cut(s) 60, 280, 934
BssMI GATC 2 cut(s) 79, 787
BssT1I CCWWGG 1 cut(s) 60
Bst2UI CCWGG 2 cut(s) 282, 936
Bst4CI ACNGT 2 cut(s) 808, 976
Bst6I CTCTTC 1 cut(s) 330
BstAPI GCANNNNNTGC 1 cut(s) 736
BstBAI YACGTR 1 cut(s) 97
BstBI TTCGAA 2 cut(s) 897, 1088
BstC8I GCNNGC 2 cut(s) 561, 594
BstDEI CTNAG 4 cut(s) 165, 393, 635, 983
BstF5I GGATG 2 cut(s) 224, 541
BstKTI GATC 2 cut(s) 82, 790
BstMAI GTCTC 1 cut(s) 9
BstMBI GATC 2 cut(s) 79, 787
BstMWI GCNNNNNNNGC 1 cut(s) 736
BstNI CCWGG 2 cut(s) 282, 936
BstSCI CCNGG 2 cut(s) 280, 934
BstSFI CTRYAG 1 cut(s) 183
BstSNI TACGTA 1 cut(s) 97
BstV1I GCAGC 2 cut(s) 197, 776
BstV2I GAAGAC 2 cut(s) 857, 1123
BstX2I RGATCY 1 cut(s) 79
BstYI RGATCY 1 cut(s) 79
BsuRI GGCC 2 cut(s) 285, 1103
BtsCI GGATG 2 cut(s) 224, 541
BtsI GCAGTG 1 cut(s) 819
BtsIMutI CAGTG 1 cut(s) 819
Cac8I GCNNGC 2 cut(s) 561, 594
CaiI CAGNNNCTG 1 cut(s) 545
CciI TCATGA 3 cut(s) 472, 820, 1059
Cfr13I GGNCC 3 cut(s) 45, 73, 417
Csp6I GTAC 3 cut(s) 486, 980, 1048
CviAII CATG 6 cut(s) 296, 358, 430, 473, 821, 1060
CviQI GTAC 3 cut(s) 486, 980, 1048
DdeI CTNAG 4 cut(s) 165, 393, 635, 983
DpnI GATC 2 cut(s) 81, 789
DpnII GATC 2 cut(s) 79, 787
Eam1104I CTCTTC 1 cut(s) 330
EarI CTCTTC 1 cut(s) 330
Eco105I TACGTA 1 cut(s) 97
Eco130I CCWWGG 1 cut(s) 60
Eco47I GGWCC 3 cut(s) 45, 73, 417
EcoO109I RGGNCCY 1 cut(s) 45
EcoRII CCWGG 2 cut(s) 280, 934
EcoT14I CCWWGG 1 cut(s) 60
ErhI CCWWGG 1 cut(s) 60
FaeI CATG 6 cut(s) 299, 361, 433, 476, 824, 1063
FalI AAGNNNNNCTT 2 cut(s) 992, 1024
FaqI GGGAC 2 cut(s) 154, 430
FatI CATG 6 cut(s) 295, 357, 429, 472, 820, 1059
FblI GTMKAC 1 cut(s) 466
Fnu4HI GCNGC 2 cut(s) 186, 765
FokI GGATG 2 cut(s) 211, 548
Fsp4HI GCNGC 2 cut(s) 186, 765
FspBI CTAG 2 cut(s) 554, 906
GluI GCNGC 2 cut(s) 186, 765
HaeIII GGCC 2 cut(s) 285, 1103
Hin1II CATG 6 cut(s) 299, 361, 433, 476, 824, 1063
HincII GTYRAC 1 cut(s) 631
HindII GTYRAC 1 cut(s) 631
HinfI GANTC 3 cut(s) 338, 939, 1090
HphI GGTGA 5 cut(s) 298, 400, 718, 741, 923
Hpy166II GTNNAC 4 cut(s) 55, 467, 631, 804
Hpy188I TCNGA 3 cut(s) 9, 77, 1108
Hpy188III TCNNGA 5 cut(s) 43, 473, 821, 1009, 1060
Hpy8I GTNNAC 4 cut(s) 55, 467, 631, 804
HpyAV CCTTC 6 cut(s) 171, 261, 265, 364, 500, 1071
HpyCH4III ACNGT 2 cut(s) 808, 976
HpyCH4IV ACGT 1 cut(s) 96
HpyCH4V TGCA 6 cut(s) 185, 433, 539, 662, 764, 928
HpyF10VI GCNNNNNNNGC 1 cut(s) 736
HpyF3I CTNAG 4 cut(s) 165, 393, 635, 983
HpySE526I ACGT 1 cut(s) 96
Hsp92II CATG 6 cut(s) 299, 361, 433, 476, 824, 1063
KpnI GGTACC 1 cut(s) 489
Kzo9I GATC 2 cut(s) 79, 787
LmnI GCTCC 1 cut(s) 589
Lsp1109I GCAGC 2 cut(s) 197, 776
LweI GCATC 3 cut(s) 393, 526, 937
MaeI CTAG 2 cut(s) 554, 906
MaeII ACGT 1 cut(s) 96
MaeIII GTNAC 1 cut(s) 541
MalI GATC 2 cut(s) 81, 789
MboI GATC 2 cut(s) 79, 787
MboII GAAGA 7 cut(s) 151, 250, 347, 655, 862, 1012, 1128
MfeI CAATTG 1 cut(s) 605
MflI RGATCY 1 cut(s) 79
MluCI AATT 5 cut(s) 233, 605, 865, 960, 1084
MlyI GAGTC 1 cut(s) 347
MmeI TCCRAC 1 cut(s) 560
MroXI GAANNNNTTC 1 cut(s) 1004
MseI TTAA 3 cut(s) 120, 441, 1028
MspA1I CMGCKG 1 cut(s) 1134
MspR9I CCNGG 2 cut(s) 282, 936
MunI CAATTG 1 cut(s) 605
MvaI CCWGG 2 cut(s) 282, 936
MwoI GCNNNNNNNGC 1 cut(s) 736
NdeII GATC 2 cut(s) 79, 787
NlaIII CATG 6 cut(s) 299, 361, 433, 476, 824, 1063
NlaIV GGNNCC 3 cut(s) 74, 418, 487
NspV TTCGAA 2 cut(s) 897, 1088
PagI TCATGA 3 cut(s) 472, 820, 1059
PdmI GAANNNNTTC 1 cut(s) 1004
PfeI GAWTC 2 cut(s) 939, 1090
PkrI GCNGC 2 cut(s) 187, 766
PleI GAGTC 1 cut(s) 346
PpsI GAGTC 1 cut(s) 346
Ppu21I YACGTR 1 cut(s) 97
PpuMI RGGWCCY 1 cut(s) 45
PshBI ATTAAT 1 cut(s) 1028
Psp5II RGGWCCY 1 cut(s) 45
Psp6I CCWGG 2 cut(s) 280, 934
PspGI CCWGG 2 cut(s) 280, 934
PspN4I GGNNCC 3 cut(s) 74, 418, 487
PspPI GGNCC 3 cut(s) 45, 73, 417
PspPPI RGGWCCY 1 cut(s) 45
PsrI GAACNNNNNNTAC 2 cut(s) 878, 910
PstI CTGCAG 1 cut(s) 187
PstNI CAGNNNCTG 1 cut(s) 545
PsuI RGATCY 1 cut(s) 79
PvuII CAGCTG 1 cut(s) 1134
RsaI GTAC 3 cut(s) 487, 981, 1049
RsaNI GTAC 3 cut(s) 486, 980, 1048
SaqAI TTAA 3 cut(s) 120, 441, 1028
SatI GCNGC 2 cut(s) 186, 765
Sau3AI GATC 2 cut(s) 79, 787
Sau96I GGNCC 3 cut(s) 45, 73, 417
SchI GAGTC 1 cut(s) 347
ScrFI CCNGG 2 cut(s) 282, 936
SfaNI GCATC 3 cut(s) 393, 526, 937
SfcI CTRYAG 1 cut(s) 183
SfuI TTCGAA 2 cut(s) 897, 1088
SinI GGWCC 3 cut(s) 45, 73, 417
SnaBI TACGTA 1 cut(s) 97
Sse9I AATT 5 cut(s) 233, 605, 865, 960, 1084
SspMI CTAG 2 cut(s) 554, 906
StyD4I CCNGG 2 cut(s) 280, 934
StyI CCWWGG 1 cut(s) 60
TaaI ACNGT 2 cut(s) 808, 976
TaiI ACGT 1 cut(s) 99
TaqI TCGA 2 cut(s) 897, 1088
TaqII GACCGA 1 cut(s) 869
TasI AATT 5 cut(s) 233, 605, 865, 960, 1084
TfiI GAWTC 2 cut(s) 939, 1090
Tru1I TTAA 3 cut(s) 120, 441, 1028
Tru9I TTAA 3 cut(s) 120, 441, 1028
TscAI CASTG 1 cut(s) 819
TseI GCWGC 2 cut(s) 185, 764
TspDTI ATGAA 7 cut(s) 338, 346, 686, 809, 837, 1043, 1076
TspRI CASTG 1 cut(s) 819
VpaK11BI GGWCC 3 cut(s) 45, 73, 417
VspI ATTAAT 1 cut(s) 1028
XapI RAATTY 2 cut(s) 233, 865
XcmI CCANNNNNNNNNTGG 1 cut(s) 278
XmiI GTMKAC 1 cut(s) 466
XmnI GAANNNNTTC 1 cut(s) 1004
XspI CTAG 2 cut(s) 554, 906
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.