pycom05g24270

Protein ROOT HAIR DEFECTIVE 3 homolog

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr5
OG0000525
Physical Location & Seq
Forward (+)
25865486 .. 25866919
1434 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom05g24270.4

Sequence Viewer

Length: 708 bp
ATGCAAATACCCTTTATTTTTCAGAAAAAACTTTCTTCGTCTTTAAGCGGTCCTGTAGAGGCTCTACTGGAAACTGGTGCAAATGACACCTGGGCTTCGATACGAAAACTACTTAATCGTGAGACCAAAGTTGCAGTTTCGGAGTTCTCAACTGCAGTTGCCAATTTTGAGTTGGACAATGAAACGGTTGTCAAAATGAAGCAGCATTTGAAGGATTATGCGAGAAATGTGGTGGAGACAAAAGCAAGAGAAGAGGCTGGGAAAATTATAATCCACATGAAGGATCGGTTTGCCGCAGTGTTCAATTATGAGAGCGATTCAATGCCTAGGGTTTGGACTGGGAACGAAGACATTAGAAGTATTACCAAGGATGCACGAACTGCGTCTCTGAAGCTTTTGTCGACCATGGCTGCCATTCGCTTGGATGAGAAGCCTGATAATATTGAAAATGTCCTCGTTTCTTCTCTGGTGGACGGGACTGTTACTGTTTCATCTTCACAAAATAGGAAACTAGGACCTTCTACAGATCCTCTTGCCTCAAGCTCTTGGGAAGAGGTTTCTTCAAAGGATACCTTAATTACCCCAGTACAGTGCAAGTCATTGTGGAGGCAGTTCAAAGCAGAGACCGAATATAGCGTCATTCAAGCTATTGCGGCACAGAGGCTCACAAGCAGAGTAACAACTGGTTACCTCCTCCATGGGCTATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0012505 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
RHD3

Protein Analysis

236

Amino Acids

26.15

Weight (kDa)

7.8

Isoelectric Point (pI)

27.71

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0000525)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G45160
fragaria_vesca FvH4_3g11890
malus_domestica MD00G1023300.v1.1 MD00G1023500.v1.1 MD00G1046300.v1.1 MD00G1046400.v1.1 MD00G1047200.v1.1 MD05G1180600.v1.1 MD05G1256900.v1.1 MD05G1257200.v1.1 MD05G1257300.v1.1 MD05G1257400.v1.1 MD05G1257900.v1.1 MD05G1258000.v1.1 MD10G1213100.v1.1 MD10G1237400.v1.1
prunus_persica Prupe.4G106400_v2.0.a1 Prupe.4G106400_v2.0.a1 Prupe.4G106900_v2.0.a1 Prupe.4G113800_v2.0.a1 Prupe.4G113800_v2.0.a1 Prupe.4G113800_v2.0.a1 Prupe.I001700_v2.0.a1
pyrus_communis pycom05g23620 pycom05g23630 pycom05g23880 pycom05g24090 pycom05g24270 pycom10g19870
rosa_chinensis RchiOBHm_Chr5g0019311 RchiOBHm_Chr5g0019391 RchiOBHm_Chr5g0019401 RchiOBHm_Chr7g0226131 RchiOBHm_Chr7g0226141 RchiOBHm_Chr7g0226161
rosa_laevigata RLG00000001766 RLG00000001767 RLG00000032437 RLG00000032441 RLG00000032445
rosa_multiflora Rmu_sc0001350.1_g000022 Rmu_sc0001350.1_g000031 Rmu_sc0002141.1_g000028 Rmu_sc0002759.1_g000037 Rmu_sc0002759.1_g000039 Rmu_sc0005292.1_g000004 Rmu_sc0005292.1_g000050
rosa_roxburghii Rroxscaffold_1G00058650 Rroxscaffold_1G00058670 Rroxscaffold_1G00074270 Rroxscaffold_2G00108890 Rroxscaffold_2G00125570
rosa_rugosa Rorug05G0050100 Rorug05G0050200 Rorug05G0050300 Rorug05G0050500 Rorug05G0050600 Rorug05G0050700
rosa_samantha Rh5AG140700 Rh5AG141000 Rh5AG141300 Rh5AG390000 Rh5BG139700 Rh5BG139800 Rh5BG139900 Rh5BG140000 Rh5CG151000 Rh5CG151500 Rh5CG151600 Rh5DG140200 Rh5DG140400 Rh5DG140600 Rh7AG368100 Rh7AG381400 Rh7AG381700 Rh7CG386400 Rh7CG400900 Rh7CG401200 Rh7DG380400 Rh7DG380500
rosa_wichuraiana Rw5G012510 Rw5G012530 Rw5G012540 Rw7G031980 Rw7G031990

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 269
AccI GTMKAC 1 cut(s) 401
AciI CCGC 3 cut(s) 48, 294, 653
AclWI GGATC 2 cut(s) 291, 521
AcuI CTGAAG 1 cut(s) 410
AfaI GTAC 1 cut(s) 588
AfiI CCNNNNNNNGG 1 cut(s) 280
AgsI TTSAA 7 cut(s) 211, 304, 321, 446, 564, 616, 644
AjnI CCWGG 1 cut(s) 89
AluBI AGCT 3 cut(s) 394, 543, 647
AluI AGCT 3 cut(s) 394, 543, 647
Alw26I GTCTC 4 cut(s) 116, 230, 390, 617
AlwI GGATC 2 cut(s) 291, 521
ApeKI GCWGC 2 cut(s) 202, 410
ArsI GACNNNNNNTTYG 2 cut(s) 621, 653
AspA2I CCTAGG 1 cut(s) 326
AspS9I GGNCC 2 cut(s) 50, 515
AvaII GGWCC 2 cut(s) 50, 515
AvrII CCTAGG 1 cut(s) 326
BbsI GAAGAC 1 cut(s) 354
BbvI GCAGC 2 cut(s) 214, 397
BciT130I CCWGG 1 cut(s) 91
BciVI GTATCC 1 cut(s) 562
BcoDI GTCTC 4 cut(s) 116, 230, 390, 617
BfaI CTAG 2 cut(s) 327, 512
BfmI CTRYAG 3 cut(s) 54, 153, 522
BfuI GTATCC 1 cut(s) 562
BisI GCNGC 4 cut(s) 203, 294, 411, 654
BlnI CCTAGG 1 cut(s) 326
BlsI GCNGC 4 cut(s) 204, 295, 412, 655
Bme1390I CCNGG 1 cut(s) 91
Bme18I GGWCC 2 cut(s) 50, 515
BmgT120I GGNCC 2 cut(s) 50, 515
BmrFI CCNGG 1 cut(s) 91
BmrI ACTGGG 2 cut(s) 348, 578
BmsI GCATC 1 cut(s) 361
BmuI ACTGGG 2 cut(s) 348, 578
BpiI GAAGAC 1 cut(s) 354
BpuEI CTTGAG 1 cut(s) 523
BsaI GGTCTC 2 cut(s) 116, 617
BsaJI CCNNGG 5 cut(s) 90, 326, 366, 405, 697
Bsc4I CCNNNNNNNGG 1 cut(s) 280
Bse1I ACTGG 5 cut(s) 72, 79, 343, 584, 688
BseBI CCWGG 1 cut(s) 91
BseDI CCNNGG 5 cut(s) 90, 326, 366, 405, 697
BseGI GGATG 2 cut(s) 376, 430
BseLI CCNNNNNNNGG 1 cut(s) 280
BseNI ACTGG 5 cut(s) 72, 79, 343, 584, 688
BseRI GAGGAG 1 cut(s) 683
BseXI GCAGC 2 cut(s) 214, 397
BseYI CCCAGC 1 cut(s) 257
BslFI GGGAC 1 cut(s) 490
BslI CCNNNNNNNGG 1 cut(s) 280
BsmAI GTCTC 4 cut(s) 116, 230, 390, 617
BsmBI CGTCTC 1 cut(s) 390
BsmFI GGGAC 1 cut(s) 490
Bso31I GGTCTC 2 cut(s) 116, 617
Bsp143I GATC 2 cut(s) 283, 526
Bsp19I CCATGG 2 cut(s) 405, 697
BspACI CCGC 3 cut(s) 48, 294, 653
BspMAI CTGCAG 1 cut(s) 157
BspPI GGATC 2 cut(s) 291, 521
BspTNI GGTCTC 2 cut(s) 116, 617
BsrI ACTGG 5 cut(s) 72, 79, 343, 584, 688
BssECI CCNNGG 5 cut(s) 90, 326, 366, 405, 697
BssMI GATC 2 cut(s) 283, 526
BssT1I CCWWGG 4 cut(s) 326, 366, 405, 697
Bst2UI CCWGG 1 cut(s) 91
Bst4CI ACNGT 4 cut(s) 187, 481, 487, 591
Bst6I CTCTTC 2 cut(s) 246, 546
BstAPI GCANNNNNTGC 1 cut(s) 380
BstDSI CCRYGG 2 cut(s) 405, 697
BstEII GGTNACC 1 cut(s) 686
BstF5I GGATG 2 cut(s) 376, 430
BstKTI GATC 2 cut(s) 286, 529
BstMAI GTCTC 4 cut(s) 116, 230, 390, 617
BstMBI GATC 2 cut(s) 283, 526
BstMWI GCNNNNNNNGC 2 cut(s) 380, 653
BstNI CCWGG 1 cut(s) 91
BstPI GGTNACC 1 cut(s) 686
BstSCI CCNGG 1 cut(s) 89
BstSFI CTRYAG 3 cut(s) 54, 153, 522
BstV1I GCAGC 2 cut(s) 214, 397
BstV2I GAAGAC 1 cut(s) 354
BstX2I RGATCY 1 cut(s) 526
BstXI CCANNNNNNTGG 1 cut(s) 421
BstYI RGATCY 1 cut(s) 526
BsuI GTATCC 1 cut(s) 562
BtgI CCRYGG 2 cut(s) 405, 697
BtsCI GGATG 2 cut(s) 376, 430
BtsI GCAGTG 1 cut(s) 303
BtsIMutI CAGTG 2 cut(s) 303, 596
Cfr13I GGNCC 2 cut(s) 50, 515
CseI GACGC 2 cut(s) 372, 625
Csp6I GTAC 1 cut(s) 587
CviAII CATG 3 cut(s) 277, 406, 698
CviQI GTAC 1 cut(s) 587
DpnI GATC 2 cut(s) 285, 528
DpnII GATC 2 cut(s) 283, 526
Eam1104I CTCTTC 2 cut(s) 246, 546
EarI CTCTTC 2 cut(s) 246, 546
Eco130I CCWWGG 4 cut(s) 326, 366, 405, 697
Eco31I GGTCTC 2 cut(s) 116, 617
Eco47I GGWCC 2 cut(s) 50, 515
Eco57I CTGAAG 1 cut(s) 410
Eco91I GGTNACC 1 cut(s) 686
EcoO109I RGGNCCY 1 cut(s) 515
EcoO65I GGTNACC 1 cut(s) 686
EcoRII CCWGG 1 cut(s) 89
EcoT14I CCWWGG 4 cut(s) 326, 366, 405, 697
ErhI CCWWGG 4 cut(s) 326, 366, 405, 697
Esp3I CGTCTC 1 cut(s) 390
FaeI CATG 3 cut(s) 280, 409, 701
FaiI YATR 8 cut(s) 219, 269, 278, 309, 407, 633, 699, 706
FalI AAGNNNNNCTT 2 cut(s) 557, 589
FaqI GGGAC 1 cut(s) 490
FatI CATG 3 cut(s) 276, 405, 697
FblI GTMKAC 1 cut(s) 401
Fnu4HI GCNGC 4 cut(s) 203, 294, 411, 654
FokI GGATG 2 cut(s) 383, 437
Fsp4HI GCNGC 4 cut(s) 203, 294, 411, 654
FspBI CTAG 2 cut(s) 327, 512
GluI GCNGC 4 cut(s) 203, 294, 411, 654
GsaI CCCAGC 1 cut(s) 261
HgaI GACGC 2 cut(s) 372, 625
Hin1II CATG 3 cut(s) 280, 409, 701
HincII GTYRAC 1 cut(s) 402
HindII GTYRAC 1 cut(s) 402
HindIII AAGCTT 1 cut(s) 392
HinfI GANTC 1 cut(s) 317
Hpy166II GTNNAC 2 cut(s) 402, 472
Hpy188I TCNGA 3 cut(s) 24, 142, 390
Hpy188III TCNNGA 1 cut(s) 119
Hpy8I GTNNAC 2 cut(s) 402, 472
HpyAV CCTTC 3 cut(s) 205, 274, 528
HpyCH4III ACNGT 4 cut(s) 187, 481, 487, 591
HpyCH4V TGCA 6 cut(s) 4, 80, 134, 155, 374, 594
HpyF10VI GCNNNNNNNGC 2 cut(s) 380, 653
Hsp92II CATG 3 cut(s) 280, 409, 701
Kzo9I GATC 2 cut(s) 283, 526
Lsp1109I GCAGC 2 cut(s) 214, 397
LweI GCATC 1 cut(s) 361
MaeI CTAG 2 cut(s) 327, 512
MaeIII GTNAC 3 cut(s) 481, 676, 686
MalI GATC 2 cut(s) 285, 528
MboI GATC 2 cut(s) 283, 526
MboII GAAGA 7 cut(s) 27, 263, 359, 453, 486, 552, 563
MflI RGATCY 1 cut(s) 526
MluCI AATT 4 cut(s) 163, 264, 304, 576
MmeI TCCRAC 1 cut(s) 153
MseI TTAA 3 cut(s) 44, 114, 575
MspR9I CCNGG 1 cut(s) 91
MvaI CCWGG 1 cut(s) 91
MwoI GCNNNNNNNGC 2 cut(s) 380, 653
NcoI CCATGG 2 cut(s) 405, 697
NdeII GATC 2 cut(s) 283, 526
NlaIII CATG 3 cut(s) 280, 409, 701
PfeI GAWTC 1 cut(s) 317
PkrI GCNGC 4 cut(s) 204, 295, 412, 655
PpuMI RGGWCCY 1 cut(s) 515
PsiI TTATAA 1 cut(s) 269
Psp5II RGGWCCY 1 cut(s) 515
Psp6I CCWGG 1 cut(s) 89
PspEI GGTNACC 1 cut(s) 686
PspFI CCCAGC 1 cut(s) 257
PspGI CCWGG 1 cut(s) 89
PspPI GGNCC 2 cut(s) 50, 515
PspPPI RGGWCCY 1 cut(s) 515
PstI CTGCAG 1 cut(s) 157
PsuI RGATCY 1 cut(s) 526
RsaI GTAC 1 cut(s) 588
RsaNI GTAC 1 cut(s) 587
SalI GTCGAC 1 cut(s) 400
SaqAI TTAA 3 cut(s) 44, 114, 575
SatI GCNGC 4 cut(s) 203, 294, 411, 654
Sau3AI GATC 2 cut(s) 283, 526
Sau96I GGNCC 2 cut(s) 50, 515
ScrFI CCNGG 1 cut(s) 91
SetI ASST 8 cut(s) 92, 396, 520, 545, 558, 575, 649, 693
SfaNI GCATC 1 cut(s) 361
SfcI CTRYAG 3 cut(s) 54, 153, 522
SinI GGWCC 2 cut(s) 50, 515
SmlI CTYRAG 1 cut(s) 538
SmoI CTYRAG 1 cut(s) 538
Sse9I AATT 4 cut(s) 163, 264, 304, 576
SsiI CCGC 3 cut(s) 48, 294, 653
SspI AATATT 1 cut(s) 442
SspMI CTAG 2 cut(s) 327, 512
StyD4I CCNGG 1 cut(s) 89
StyI CCWWGG 4 cut(s) 326, 366, 405, 697
TaaI ACNGT 4 cut(s) 187, 481, 487, 591
TaqI TCGA 2 cut(s) 98, 401
TaqII GACCGA 1 cut(s) 641
TasI AATT 4 cut(s) 163, 264, 304, 576
TatI WGTACW 1 cut(s) 586
TauI GCSGC 2 cut(s) 296, 656
TfiI GAWTC 1 cut(s) 317
Tru1I TTAA 3 cut(s) 44, 114, 575
Tru9I TTAA 3 cut(s) 44, 114, 575
TscAI CASTG 2 cut(s) 303, 596
TseI GCWGC 2 cut(s) 202, 410
TspDTI ATGAA 4 cut(s) 195, 212, 293, 480
TspRI CASTG 2 cut(s) 303, 596
VpaK11BI GGWCC 2 cut(s) 50, 515
XcmI CCANNNNNNNNNTGG 1 cut(s) 169
XmaJI CCTAGG 1 cut(s) 326
XmiI GTMKAC 1 cut(s) 401
XspI CTAG 2 cut(s) 327, 512
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.