AT5G62990

Protein ROOT PRIMORDIUM DEFECTIVE 1-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0014357
Physical Location & Seq
Forward (+)
25277404 .. 25279474
2071 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G62990.1

Sequence Viewer

Length: 1485 bp
ATGATGATGGCGCTTACTCAACTGGTTCCTTCTTCTCCAGAGAAGCTGTTCTGTTTCTCCAGCTTCTTCCTCCCTTCAATTCCTCTGGAGATTCGTAGAAGTAACGTAACTACGAAAACCAGTTCCAAGAAACTCGGAAGTCTGTCTTTGAACATCTCATGTTCAGCTCACAAGATTGTTCGGAGTCCATCTTTAGACAGACATGTAGTGAAGCAGAACAGAGTTCGCTTTGTGCAGAAGTTGAACACTTTGCTTCTCTCTAAACCAAAGCATTACATTCCAATTGAAATCCTCTATAAATGTCGTTCTTACCTCTGCATCGAAAATCCATTGGCCATTCTCTCAATGATCCGTCGGTATCCTACAATCTTTGAACTTTTTACGACACCTACGCCACATTTGCCTATGAATGCCACTAAGCCGTTATCTCAACTCTGTGTTCGTTTGACATCGGCTGCATCATCCCTTGCAATGCAAGAATTGAATCTGAAGTCTGAGATCTCTGATAAATTGGCTACTAAGCTCCAGAAGCTACTAATGTTGTCATCTCACCGCAGGTTGCTTTTGTCTAAACTGGTTCACATTGCCCCAGATTTTGGCTTCCCTCCTAATTTCAGGTCTCGGCTCTGCAATGACTATCCGGACAAGTTCAAGACTGTGGATACTTCCTATGGAAGAGCACTGGAGCTTGTCTCGTCGGATCCCGAATTGGCGAACCAAATGCCATCTCCTGAAGTTGATAGGGGTTTGATTGTTGATCGTCCTTTGAAGTTCAAGCGCTTGAATCTTCGGAGAGGTTTAAATTTGAAGAGACGGCACCAAGGTTTCTTGATAAAGTTCAGAGAATCACCTGACGTGTGTCCTTACAAAATGTCATCTGACTATCTGGCAAGTGAGTCAATTGAGGCGGAGAAGCGAGCTTGCGCAGTTGTAAGAGAGGTGTTGGGGTTAACGGTTGAGAAAAGGACCTTGATTGATCATTTGACACATTTCAGGAAGGAGTTTTCTTTACCAAATAAGTTAAGAGACTTGATTGTGAGACATCCAGAGCTATTCTATGTGAGTATAAAAGGCATGAGAGACTCTGTGTTTCTCGTTGAAGCATACAATGACAATGGTGATCTTCTAGATAAAGATGAGAGATTGGTGATAAGAGAACGTTTGATAGATCTTATTCAAGAAGGAAAGAGAATTAGACGTGAACGAAGAAGAAAAGGCGCCACACTTGGTGATAAAAGCGTGGAAGAGAAAAGGAAAGATGATGAAACAATTGATGATTATGATAGTGATCTGGATGATGAATATGAAGATGGGTTTGAGAATTTGTTTGACTCAGAAGATTTAGGTGTGGAATATCATTTCGACGAAGAAGATGATGATGATGAGGCAGGGGTTAATGGTGAAAGTGTAGAGTATTGGAGTAGAAAGCTTTCGTCTTCAGGTAGTAGCAGTGATGAAGCAAATAGTGCTGTGGAATCATGGTGA
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

494

Amino Acids

56.79

Weight (kDa)

7.6

Isoelectric Point (pI)

55.37

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 60 - 397 5e-98 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: OG0014357)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G62990
fragaria_vesca FvH4_4g12420
malus_domestica MD04G1026700.v1.1 MD04G1027400.v1.1
prunus_persica Prupe.1G176800_v2.0.a1
pyrus_communis pycom04g02270
rosa_chinensis RchiOBHm_Chr4g0410651
rosa_laevigata RLG00000008409
rosa_multiflora Rmu_co8404567.1_g000001 Rmu_sc0006144.1_g000002
rosa_roxburghii Rroxscaffold_5G00355430
rosa_rugosa Rorug04G0111800
rosa_samantha Rh4AG162100 Rh4BG161100 Rh4CG175100 Rh4DG157900
rosa_wichuraiana Rw4G013520

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 925
Acc36I ACCTGC 1 cut(s) 546
AccB1I GGYRCC 2 cut(s) 816, 1217
AccB7I CCANNNNNTGG 1 cut(s) 596
AccIII TCCGGA 1 cut(s) 640
AciI CCGC 2 cut(s) 553, 908
AclI AACGTT 1 cut(s) 1159
AclWI GGATC 3 cut(s) 343, 695, 708
AcoI YGGCCR 1 cut(s) 333
AcsI RAATTY 2 cut(s) 802, 1321
AcuI CTGAAG 3 cut(s) 509, 753, 1422
AcyI GRCGYC 1 cut(s) 1218
AdeI CACNNNGTG 1 cut(s) 1229
AfeI AGCGCT 1 cut(s) 779
AfiI CCNNNNNNNGG 1 cut(s) 596
AflIII ACRYGT 2 cut(s) 202, 855
AjiI CACGTC 2 cut(s) 856, 1199
AluBI AGCT 9 cut(s) 46, 63, 167, 523, 532, 688, 920, 1051, 1429
AluI AGCT 9 cut(s) 46, 63, 167, 523, 532, 688, 920, 1051, 1429
Alw21I GWGCWC 1 cut(s) 682
Alw26I GTCTC 6 cut(s) 624, 697, 805, 1020, 1033, 1074
AlwI GGATC 3 cut(s) 343, 695, 708
Aor13HI TCCGGA 1 cut(s) 640
Aor51HI AGCGCT 1 cut(s) 779
AoxI GGCC 1 cut(s) 333
ApeKI GCWGC 1 cut(s) 455
ApoI RAATTY 2 cut(s) 802, 1321
Asp700I GAANNNNTTC 2 cut(s) 47, 1429
AspLEI GCGC 4 cut(s) 13, 780, 926, 1220
AspS9I GGNCC 1 cut(s) 966
AsuHPI GGTGA 6 cut(s) 542, 840, 1130, 1159, 1241, 1412
AvaII GGWCC 1 cut(s) 966
BalI TGGCCA 1 cut(s) 335
BamHI GGATCC 1 cut(s) 700
BanI GGYRCC 2 cut(s) 816, 1217
BbsI GAAGAC 1 cut(s) 1428
Bbv12I GWGCWC 1 cut(s) 682
BbvI GCAGC 1 cut(s) 442
BccI CCATC 3 cut(s) 196, 733, 1304
BceAI ACGGC 2 cut(s) 406, 830
BcgI CGANNNNNNTGC 2 cut(s) 703, 737
BciVI GTATCC 2 cut(s) 369, 655
BclI TGATCA 1 cut(s) 976
BcoDI GTCTC 6 cut(s) 624, 697, 805, 1020, 1033, 1074
BfaI CTAG 1 cut(s) 1127
BfoI RGCGCY 3 cut(s) 14, 781, 1221
BfuAI ACCTGC 1 cut(s) 546
BfuI GTATCC 2 cut(s) 369, 655
BglII AGATCT 2 cut(s) 498, 1168
BisI GCNGC 1 cut(s) 456
BlsI GCNGC 1 cut(s) 457
Bme18I GGWCC 1 cut(s) 966
BmgBI CACGTC 2 cut(s) 856, 1199
BmgT120I GGNCC 1 cut(s) 966
BmiI GGNNCC 4 cut(s) 27, 702, 818, 1219
BmsI GCATC 2 cut(s) 327, 467
BoxI GACNNNNGTC 1 cut(s) 858
BpiI GAAGAC 1 cut(s) 1428
BplI GAGNNNNNCTC 2 cut(s) 677, 709
BpmI CTGGAG 5 cut(s) 21, 43, 107, 509, 704
BsaBI GATNNNNATC 1 cut(s) 1287
BsaHI GRCGYC 1 cut(s) 1218
BsaI GGTCTC 1 cut(s) 624
BsaJI CCNNGG 1 cut(s) 820
BsaWI WCCGGW 1 cut(s) 640
Bsc4I CCNNNNNNNGG 1 cut(s) 596
Bse1I ACTGG 4 cut(s) 27, 120, 579, 687
Bse3DI GCAATG 3 cut(s) 477, 582, 637
Bse8I GATNNNNATC 1 cut(s) 1287
BseAI TCCGGA 1 cut(s) 640
BseDI CCNNGG 1 cut(s) 820
BseGI GGATG 3 cut(s) 461, 1042, 1300
BseJI GATNNNNATC 1 cut(s) 1287
BseLI CCNNNNNNNGG 1 cut(s) 596
BseMI GCAATG 3 cut(s) 477, 582, 637
BseMII CTCAG 2 cut(s) 486, 1347
BseNI ACTGG 4 cut(s) 27, 120, 579, 687
BseXI GCAGC 1 cut(s) 442
BsgI GTGCAG 1 cut(s) 254
BshFI GGCC 1 cut(s) 335
BshNI GGYRCC 2 cut(s) 816, 1217
BsiHKAI GWGCWC 1 cut(s) 682
BsiSI CCGG 1 cut(s) 641
BslI CCNNNNNNNGG 1 cut(s) 596
BsmAI GTCTC 6 cut(s) 624, 697, 805, 1020, 1033, 1074
BsmBI CGTCTC 1 cut(s) 805
BsmI GAATGC 1 cut(s) 415
BsnI GGCC 1 cut(s) 335
Bso31I GGTCTC 1 cut(s) 624
Bsp1286I GDGCHC 1 cut(s) 682
Bsp13I TCCGGA 1 cut(s) 640
Bsp143I GATC 8 cut(s) 348, 498, 700, 757, 976, 1120, 1168, 1288
BspACI CCGC 2 cut(s) 553, 908
BspANI GGCC 1 cut(s) 335
BspCNI CTCAG 2 cut(s) 487, 1346
BspEI TCCGGA 1 cut(s) 640
BspLI GGNNCC 4 cut(s) 27, 702, 818, 1219
BspMI ACCTGC 1 cut(s) 546
BspPI GGATC 3 cut(s) 343, 695, 708
BspQI GCTCTTC 1 cut(s) 670
BspT107I GGYRCC 2 cut(s) 816, 1217
BspTNI GGTCTC 1 cut(s) 624
BsrDI GCAATG 3 cut(s) 477, 582, 637
BsrI ACTGG 4 cut(s) 27, 120, 579, 687
BssECI CCNNGG 1 cut(s) 820
BssMI GATC 8 cut(s) 348, 498, 700, 757, 976, 1120, 1168, 1288
BssNI GRCGYC 1 cut(s) 1218
BssT1I CCWWGG 1 cut(s) 820
Bst4CI ACNGT 2 cut(s) 658, 955
Bst6I CTCTTC 3 cut(s) 670, 803, 1239
BstACI GRCGYC 1 cut(s) 1218
BstAPI GCANNNNNTGC 1 cut(s) 1466
BstC8I GCNNGC 2 cut(s) 918, 922
BstDEI CTNAG 4 cut(s) 417, 495, 519, 1333
BstF5I GGATG 3 cut(s) 461, 1042, 1300
BstH2I RGCGCY 3 cut(s) 14, 781, 1221
BstHHI GCGC 4 cut(s) 13, 780, 926, 1220
BstKTI GATC 8 cut(s) 351, 501, 703, 760, 979, 1123, 1171, 1291
BstMAI GTCTC 6 cut(s) 624, 697, 805, 1020, 1033, 1074
BstMBI GATC 8 cut(s) 348, 498, 700, 757, 976, 1120, 1168, 1288
BstMWI GCNNNNNNNGC 3 cut(s) 400, 529, 1466
BstNSI RCATGY 1 cut(s) 206
BstPAI GACNNNNGTC 1 cut(s) 858
BstV1I GCAGC 1 cut(s) 442
BstV2I GAAGAC 1 cut(s) 1428
BstX2I RGATCY 3 cut(s) 498, 700, 1168
BstYI RGATCY 3 cut(s) 498, 700, 1168
BsuI GTATCC 2 cut(s) 369, 655
BsuRI GGCC 1 cut(s) 335
BtrI CACGTC 2 cut(s) 856, 1199
BtsCI GGATG 3 cut(s) 461, 1042, 1300
BtsI GCAGTG 1 cut(s) 1456
BtsIMutI CAGTG 2 cut(s) 680, 1456
BveI ACCTGC 1 cut(s) 546
Cac8I GCNNGC 2 cut(s) 918, 922
CfoI GCGC 4 cut(s) 13, 780, 926, 1220
Cfr13I GGNCC 1 cut(s) 966
CviAII CATG 4 cut(s) 159, 203, 1075, 1479
DdeI CTNAG 4 cut(s) 417, 495, 519, 1333
DinI GGCGCC 1 cut(s) 1219
DpnI GATC 8 cut(s) 350, 500, 702, 759, 978, 1122, 1170, 1290
DpnII GATC 8 cut(s) 348, 498, 700, 757, 976, 1120, 1168, 1288
DraI TTTAAA 1 cut(s) 801
DraIII CACNNNGTG 1 cut(s) 1229
EaeI YGGCCR 1 cut(s) 333
Eam1104I CTCTTC 3 cut(s) 670, 803, 1239
EarI CTCTTC 3 cut(s) 670, 803, 1239
EciI GGCGGA 1 cut(s) 923
Eco130I CCWWGG 1 cut(s) 820
Eco31I GGTCTC 1 cut(s) 624
Eco47I GGWCC 1 cut(s) 966
Eco47III AGCGCT 1 cut(s) 779
Eco57I CTGAAG 3 cut(s) 509, 753, 1422
EcoO109I RGGNCCY 1 cut(s) 966
EcoT14I CCWWGG 1 cut(s) 820
EgeI GGCGCC 1 cut(s) 1219
EheI GGCGCC 1 cut(s) 1219
ErhI CCWWGG 1 cut(s) 820
Esp3I CGTCTC 1 cut(s) 805
FaeI CATG 4 cut(s) 162, 206, 1078, 1482
FalI AAGNNNNNCTT 2 cut(s) 130, 162
FatI CATG 4 cut(s) 158, 202, 1074, 1478
FbaI TGATCA 1 cut(s) 976
Fnu4HI GCNGC 1 cut(s) 456
FokI GGATG 3 cut(s) 448, 1029, 1307
Fsp4HI GCNGC 1 cut(s) 456
FspBI CTAG 1 cut(s) 1127
FspI TGCGCA 1 cut(s) 925
GlaI GCGC 4 cut(s) 12, 779, 925, 1219
GluI GCNGC 1 cut(s) 456
GsuI CTGGAG 5 cut(s) 21, 43, 107, 509, 704
HaeII RGCGCY 3 cut(s) 14, 781, 1221
HaeIII GGCC 1 cut(s) 335
HapII CCGG 1 cut(s) 641
HhaI GCGC 4 cut(s) 13, 780, 926, 1220
Hin1I GRCGYC 1 cut(s) 1218
Hin1II CATG 4 cut(s) 162, 206, 1078, 1482
Hin6I GCGC 4 cut(s) 11, 778, 924, 1218
HinP1I GCGC 4 cut(s) 11, 778, 924, 1218
HincII GTYRAC 1 cut(s) 951
HindII GTYRAC 1 cut(s) 951
HindIII AAGCTT 1 cut(s) 1427
HinfI GANTC 9 cut(s) 91, 184, 484, 784, 845, 896, 1082, 1331, 1475
HpaI GTTAAC 1 cut(s) 951
HpaII CCGG 1 cut(s) 641
HphI GGTGA 6 cut(s) 542, 840, 1130, 1159, 1241, 1412
Hpy166II GTNNAC 3 cut(s) 580, 951, 1202
Hpy8I GTNNAC 3 cut(s) 580, 951, 1202
Hpy99I CGWCG 3 cut(s) 357, 700, 1367
HpyAV CCTTC 4 cut(s) 39, 84, 991, 1175
HpyCH4III ACNGT 2 cut(s) 658, 955
HpyCH4IV ACGT 4 cut(s) 105, 855, 1159, 1198
HpyCH4V TGCA 6 cut(s) 235, 318, 458, 470, 475, 630
HpyF10VI GCNNNNNNNGC 3 cut(s) 400, 529, 1466
HpyF3I CTNAG 4 cut(s) 417, 495, 519, 1333
HpySE526I ACGT 4 cut(s) 105, 855, 1159, 1198
Hsp92I GRCGYC 1 cut(s) 1218
Hsp92II CATG 4 cut(s) 162, 206, 1078, 1482
HspAI GCGC 4 cut(s) 11, 778, 924, 1218
KasI GGCGCC 1 cut(s) 1217
Kpn2I TCCGGA 1 cut(s) 640
Ksp22I TGATCA 1 cut(s) 976
KspAI GTTAAC 1 cut(s) 951
Kzo9I GATC 8 cut(s) 348, 498, 700, 757, 976, 1120, 1168, 1288
LguI GCTCTTC 1 cut(s) 670
LmnI GCTCC 2 cut(s) 528, 685
Lsp1109I GCAGC 1 cut(s) 442
LweI GCATC 2 cut(s) 327, 467
MaeI CTAG 1 cut(s) 1127
MaeII ACGT 4 cut(s) 105, 855, 1159, 1198
MaeIII GTNAC 2 cut(s) 101, 106
MalI GATC 8 cut(s) 350, 500, 702, 759, 978, 1122, 1170, 1290
MboI GATC 8 cut(s) 348, 498, 700, 757, 976, 1120, 1168, 1288
MfeI CAATTG 3 cut(s) 282, 900, 1269
MflI RGATCY 3 cut(s) 498, 700, 1168
MhlI GDGCHC 1 cut(s) 682
MlsI TGGCCA 1 cut(s) 335
MluNI TGGCCA 1 cut(s) 335
Mly113I GGCGCC 1 cut(s) 1218
MlyI GAGTC 4 cut(s) 193, 905, 1076, 1325
MmeI TCCRAC 1 cut(s) 678
MnlI CCTC 9 cut(s) 80, 93, 302, 323, 615, 788, 898, 931, 1378
Mox20I TGGCCA 1 cut(s) 335
MroI TCCGGA 1 cut(s) 640
MroXI GAANNNNTTC 2 cut(s) 47, 1429
MscI TGGCCA 1 cut(s) 335
MseI TTAA 4 cut(s) 800, 950, 1022, 1395
Msp20I TGGCCA 1 cut(s) 335
MspI CCGG 1 cut(s) 641
MunI CAATTG 3 cut(s) 282, 900, 1269
Mva1269I GAATGC 1 cut(s) 415
MwoI GCNNNNNNNGC 3 cut(s) 400, 529, 1466
NarI GGCGCC 1 cut(s) 1218
NdeII GATC 8 cut(s) 348, 498, 700, 757, 976, 1120, 1168, 1288
NlaIII CATG 4 cut(s) 162, 206, 1078, 1482
NlaIV GGNNCC 4 cut(s) 27, 702, 818, 1219
NmeAIII GCCGAG 1 cut(s) 601
NsbI TGCGCA 1 cut(s) 925
NspI RCATGY 1 cut(s) 206
PciI ACATGT 1 cut(s) 202
PciSI GCTCTTC 1 cut(s) 670
PctI GAATGC 1 cut(s) 415
PdmI GAANNNNTTC 2 cut(s) 47, 1429
PfeI GAWTC 5 cut(s) 91, 484, 784, 845, 1475
PflMI CCANNNNNTGG 1 cut(s) 596
PkrI GCNGC 1 cut(s) 457
PleI GAGTC 4 cut(s) 192, 904, 1076, 1325
PluTI GGCGCC 1 cut(s) 1221
PpsI GAGTC 4 cut(s) 192, 904, 1076, 1325
PpuMI RGGWCCY 1 cut(s) 966
PscI ACATGT 1 cut(s) 202
PshAI GACNNNNGTC 1 cut(s) 858
Psp1406I AACGTT 1 cut(s) 1159
Psp5II RGGWCCY 1 cut(s) 966
PspN4I GGNNCC 4 cut(s) 27, 702, 818, 1219
PspPI GGNCC 1 cut(s) 966
PspPPI RGGWCCY 1 cut(s) 966
PsuI RGATCY 3 cut(s) 498, 700, 1168
SapI GCTCTTC 1 cut(s) 670
SaqAI TTAA 4 cut(s) 800, 950, 1022, 1395
SatI GCNGC 1 cut(s) 456
Sau3AI GATC 8 cut(s) 348, 498, 700, 757, 976, 1120, 1168, 1288
Sau96I GGNCC 1 cut(s) 966
SchI GAGTC 4 cut(s) 193, 905, 1076, 1325
SduI GDGCHC 1 cut(s) 682
SfaNI GCATC 2 cut(s) 327, 467
SfoI GGCGCC 1 cut(s) 1219
SinI GGWCC 1 cut(s) 966
SsiI CCGC 2 cut(s) 553, 908
SspDI GGCGCC 1 cut(s) 1217
SspMI CTAG 1 cut(s) 1127
StyI CCWWGG 1 cut(s) 820
TaaI ACNGT 2 cut(s) 658, 955
TaiI ACGT 4 cut(s) 108, 858, 1162, 1201
TaqI TCGA 2 cut(s) 321, 1362
TfiI GAWTC 5 cut(s) 91, 484, 784, 845, 1475
Tru1I TTAA 4 cut(s) 800, 950, 1022, 1395
Tru9I TTAA 4 cut(s) 800, 950, 1022, 1395
TscAI CASTG 2 cut(s) 687, 1456
TseI GCWGC 1 cut(s) 455
TspDTI ATGAA 5 cut(s) 422, 1278, 1314, 1320, 1470
TspGWI ACGGA 1 cut(s) 341
TspRI CASTG 2 cut(s) 687, 1456
Van91I CCANNNNNTGG 1 cut(s) 596
VpaK11BI GGWCC 1 cut(s) 966
XapI RAATTY 2 cut(s) 802, 1321
XbaI TCTAGA 1 cut(s) 1126
XceI RCATGY 1 cut(s) 206
XmnI GAANNNNTTC 2 cut(s) 47, 1429
XspI CTAG 1 cut(s) 1127
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.