pycom05g24160

Protein ROOT HAIR DEFECTIVE 3 homolog

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr5
OG0003949
Physical Location & Seq
Forward (+)
25754087 .. 25755866
1780 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 642 bp
ATGGTGGAGCAAAAAGCAAGAGACAATATTGTTGCTGATAAAGTTCTGATCCAGATGAAACAGAGGTTTGCTAGCGTCTTCTGGAACGATAGCAATTCACAGCCTAGGGTTTGGAAAAGGAAGCAGCAAATCACAGATGCTATAAAGCAAGCCCGCTCTGCTGTAATCGTTTCTTCGAAGGATACCCTATTCACACCGATGCAGTGCCAACAGTTGTGGGACGAATTCAAAAAGAAGACTCGGAAACATATCGTCAAAGCTACTTCAGACGTGGAAGATGAAGAGTCTGTTGAGAGTTGTCCCACATTGGTGAGGGACAAGGTTTGCTATGTGCTTATATGGTCTTGGGCTACTCCCCATATTGCCAATTGGTTTTATGGTGGAACCTCAATTTCATCATGGTATCAGAGCGGGTTGTCCTCGTGTGAAGCCAAACGGCCACACGCGCTCCACGTCACCCAGTTGTTGTCCACGTGTAGGCTTGAAAATCCGCCACACGTGCGGGGGCGTGTTGAGAGTTGTCCCACATTGGTGAGGGACAAGGTTTGCTATGTGCTTATATGGTCTTGGGCTACTCCCCATATTGCCAATTGGTTTTATGGTGGAACCTCAATTTCATCAGAGTCTACCTGCTTTTATTAA
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

214

Amino Acids

24.55

Weight (kDa)

9.01

Isoelectric Point (pI)

47.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Sey1_3HB PF20428 2 - 54 5.5e-11 Sey1 three-helix bundle domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 638
AccBSI CCGCTC 2 cut(s) 156, 411
AccI GTMKAC 1 cut(s) 626
AccII CGCG 1 cut(s) 446
AciI CCGC 4 cut(s) 154, 411, 491, 502
AclWI GGATC 1 cut(s) 43
AcoI YGGCCR 1 cut(s) 437
AcsI RAATTY 1 cut(s) 224
AcuI CTGAAG 1 cut(s) 249
AcvI CACGTG 2 cut(s) 474, 499
AfiI CCNNNNNNNGG 1 cut(s) 477
AflIII ACRYGT 2 cut(s) 473, 496
AgsI TTSAA 2 cut(s) 229, 485
AjiI CACGTC 2 cut(s) 271, 454
AleI CACNNNNGTG 2 cut(s) 308, 530
AluBI AGCT 1 cut(s) 260
AluI AGCT 1 cut(s) 260
Alw26I GTCTC 1 cut(s) 15
AlwI GGATC 1 cut(s) 43
AoxI GGCC 1 cut(s) 437
ApeKI GCWGC 1 cut(s) 124
ApoI RAATTY 1 cut(s) 224
AspA2I CCTAGG 1 cut(s) 104
AspLEI GCGC 1 cut(s) 448
AsuHPI GGTGA 3 cut(s) 322, 448, 544
AsuII TTCGAA 1 cut(s) 176
AsuNHI GCTAGC 1 cut(s) 71
AvrII CCTAGG 1 cut(s) 104
BauI CACGAG 1 cut(s) 421
BbrPI CACGTG 2 cut(s) 474, 499
BbsI GAAGAC 2 cut(s) 70, 242
BbvI GCAGC 1 cut(s) 136
BceAI ACGGC 1 cut(s) 452
BciVI GTATCC 1 cut(s) 175
BcoDI GTCTC 1 cut(s) 15
BfaI CTAG 2 cut(s) 72, 105
BfuAI ACCTGC 1 cut(s) 638
BfuI GTATCC 1 cut(s) 175
BisI GCNGC 1 cut(s) 125
BlnI CCTAGG 1 cut(s) 104
BlsI GCNGC 1 cut(s) 126
BmgBI CACGTC 2 cut(s) 271, 454
BmiI GGNNCC 2 cut(s) 385, 607
BmrI ACTGGG 1 cut(s) 454
BmsI GCATC 2 cut(s) 127, 189
BmtI GCTAGC 1 cut(s) 75
BmuI ACTGGG 1 cut(s) 454
BpiI GAAGAC 2 cut(s) 70, 242
Bpu14I TTCGAA 1 cut(s) 176
BsaAI YACGTR 2 cut(s) 474, 499
BsaJI CCNNGG 1 cut(s) 104
BsaXI ACNNNNNCTCC 2 cut(s) 432, 462
Bsc4I CCNNNNNNNGG 1 cut(s) 477
Bse1I ACTGG 1 cut(s) 460
BseDI CCNNGG 1 cut(s) 104
BseLI CCNNNNNNNGG 1 cut(s) 477
BseNI ACTGG 1 cut(s) 460
BseXI GCAGC 1 cut(s) 136
Bsh1236I CGCG 1 cut(s) 446
BshFI GGCC 1 cut(s) 439
BslFI GGGAC 5 cut(s) 233, 285, 329, 507, 551
BslI CCNNNNNNNGG 1 cut(s) 477
BsmAI GTCTC 1 cut(s) 15
BsmFI GGGAC 5 cut(s) 233, 285, 329, 507, 551
BsnI GGCC 1 cut(s) 439
Bsp119I TTCGAA 1 cut(s) 176
Bsp143I GATC 1 cut(s) 48
BspACI CCGC 4 cut(s) 154, 411, 491, 502
BspANI GGCC 1 cut(s) 439
BspFNI CGCG 1 cut(s) 446
BspLI GGNNCC 2 cut(s) 385, 607
BspMI ACCTGC 1 cut(s) 638
BspOI GCTAGC 1 cut(s) 75
BspPI GGATC 1 cut(s) 43
BspT104I TTCGAA 1 cut(s) 176
BsrBI CCGCTC 2 cut(s) 156, 411
BsrI ACTGG 1 cut(s) 460
BssECI CCNNGG 1 cut(s) 104
BssMI GATC 1 cut(s) 48
BssSI CACGAG 1 cut(s) 421
BssT1I CCWWGG 1 cut(s) 104
Bst2BI CACGAG 1 cut(s) 421
Bst4CI ACNGT 1 cut(s) 213
Bst6I CTCTTC 1 cut(s) 276
BstBAI YACGTR 2 cut(s) 474, 499
BstBI TTCGAA 1 cut(s) 176
BstC8I GCNNGC 3 cut(s) 73, 150, 154
BstFNI CGCG 1 cut(s) 446
BstHHI GCGC 1 cut(s) 448
BstKTI GATC 1 cut(s) 51
BstMAI GTCTC 1 cut(s) 15
BstMBI GATC 1 cut(s) 48
BstMWI GCNNNNNNNGC 3 cut(s) 158, 445, 499
BstUI CGCG 1 cut(s) 446
BstV1I GCAGC 1 cut(s) 136
BstV2I GAAGAC 2 cut(s) 70, 242
BsuI GTATCC 1 cut(s) 175
BsuRI GGCC 1 cut(s) 439
BtrI CACGTC 2 cut(s) 271, 454
BtsI GCAGTG 1 cut(s) 209
BtsIMutI CAGTG 1 cut(s) 209
BveI ACCTGC 1 cut(s) 638
Cac8I GCNNGC 3 cut(s) 73, 150, 154
CfoI GCGC 1 cut(s) 448
CseI GACGC 1 cut(s) 64
CspCI CAANNNNNGTGG 2 cut(s) 197, 232
CviAII CATG 1 cut(s) 399
CviJI RGCY 8 cut(s) 103, 152, 260, 350, 431, 439, 481, 572
CviKI_1 RGCY 8 cut(s) 103, 152, 260, 350, 431, 439, 481, 572
DpnI GATC 1 cut(s) 50
DpnII GATC 1 cut(s) 48
EaeI YGGCCR 1 cut(s) 437
Eam1104I CTCTTC 1 cut(s) 276
EarI CTCTTC 1 cut(s) 276
EciI GGCGGA 1 cut(s) 480
Eco130I CCWWGG 1 cut(s) 104
Eco57I CTGAAG 1 cut(s) 249
Eco72I CACGTG 2 cut(s) 474, 499
EcoRI GAATTC 1 cut(s) 224
EcoT14I CCWWGG 1 cut(s) 104
ErhI CCWWGG 1 cut(s) 104
FaeI CATG 1 cut(s) 402
FaqI GGGAC 5 cut(s) 233, 285, 329, 507, 551
FatI CATG 1 cut(s) 398
FauI CCCGC 3 cut(s) 161, 404, 495
FblI GTMKAC 1 cut(s) 626
Fnu4HI GCNGC 1 cut(s) 125
Fsp4HI GCNGC 1 cut(s) 125
FspBI CTAG 2 cut(s) 72, 105
GlaI GCGC 1 cut(s) 447
GluI GCNGC 1 cut(s) 125
HaeIII GGCC 1 cut(s) 439
HgaI GACGC 1 cut(s) 64
HhaI GCGC 1 cut(s) 448
Hin1II CATG 1 cut(s) 402
Hin6I GCGC 1 cut(s) 446
HinP1I GCGC 1 cut(s) 446
HinfI GANTC 3 cut(s) 238, 284, 623
HphI GGTGA 3 cut(s) 322, 448, 544
Hpy166II GTNNAC 2 cut(s) 471, 627
Hpy188I TCNGA 5 cut(s) 48, 243, 268, 408, 622
Hpy188III TCNNGA 2 cut(s) 52, 82
Hpy8I GTNNAC 2 cut(s) 471, 627
HpyAV CCTTC 1 cut(s) 172
HpyCH4III ACNGT 1 cut(s) 213
HpyCH4IV ACGT 4 cut(s) 270, 453, 473, 498
HpyCH4V TGCA 1 cut(s) 202
HpyF10VI GCNNNNNNNGC 3 cut(s) 158, 445, 499
HpySE526I ACGT 4 cut(s) 270, 453, 473, 498
Hsp92II CATG 1 cut(s) 402
HspAI GCGC 1 cut(s) 446
Kzo9I GATC 1 cut(s) 48
LmnI GCTCC 2 cut(s) 7, 453
LpnPI CCDG 3 cut(s) 65, 67, 473
Lsp1109I GCAGC 1 cut(s) 136
LweI GCATC 2 cut(s) 127, 189
MaeI CTAG 2 cut(s) 72, 105
MaeII ACGT 4 cut(s) 270, 453, 473, 498
MaeIII GTNAC 1 cut(s) 454
MalI GATC 1 cut(s) 50
MbiI CCGCTC 2 cut(s) 156, 411
MboI GATC 1 cut(s) 48
MboII GAAGA 5 cut(s) 70, 165, 247, 287, 293
MfeI CAATTG 2 cut(s) 367, 589
MluCI AATT 6 cut(s) 94, 224, 367, 390, 589, 612
MlyI GAGTC 3 cut(s) 232, 293, 632
MnlI CCTC 6 cut(s) 57, 306, 397, 430, 528, 619
MseI TTAA 1 cut(s) 640
MslI CAYNNNNRTG 3 cut(s) 197, 308, 530
MunI CAATTG 2 cut(s) 367, 589
MvnI CGCG 1 cut(s) 446
MwoI GCNNNNNNNGC 3 cut(s) 158, 445, 499
NdeII GATC 1 cut(s) 48
NheI GCTAGC 1 cut(s) 71
NlaIII CATG 1 cut(s) 402
NlaIV GGNNCC 2 cut(s) 385, 607
NmuCI GTSAC 1 cut(s) 454
NspV TTCGAA 1 cut(s) 176
OliI CACNNNNGTG 2 cut(s) 308, 530
PcsI WCGNNNNNNNCGW 1 cut(s) 450
PkrI GCNGC 1 cut(s) 126
PleI GAGTC 3 cut(s) 232, 292, 631
PmaCI CACGTG 2 cut(s) 474, 499
PmlI CACGTG 2 cut(s) 474, 499
PpsI GAGTC 3 cut(s) 232, 292, 631
Ppu21I YACGTR 2 cut(s) 474, 499
PspCI CACGTG 2 cut(s) 474, 499
PspN4I GGNNCC 2 cut(s) 385, 607
RseI CAYNNNNRTG 3 cut(s) 197, 308, 530
SaqAI TTAA 1 cut(s) 640
SatI GCNGC 1 cut(s) 125
Sau3AI GATC 1 cut(s) 48
SchI GAGTC 3 cut(s) 232, 293, 632
SfaNI GCATC 2 cut(s) 127, 189
SfuI TTCGAA 1 cut(s) 176
SmiMI CAYNNNNRTG 3 cut(s) 197, 308, 530
Sse9I AATT 6 cut(s) 94, 224, 367, 390, 589, 612
SsiI CCGC 4 cut(s) 154, 411, 491, 502
SspI AATATT 1 cut(s) 28
SspMI CTAG 2 cut(s) 72, 105
StyI CCWWGG 1 cut(s) 104
TaaI ACNGT 1 cut(s) 213
TaiI ACGT 4 cut(s) 273, 456, 476, 501
TaqI TCGA 1 cut(s) 176
TasI AATT 6 cut(s) 94, 224, 367, 390, 589, 612
Tru1I TTAA 1 cut(s) 640
Tru9I TTAA 1 cut(s) 640
TscAI CASTG 1 cut(s) 209
TseFI GTSAC 1 cut(s) 454
TseI GCWGC 1 cut(s) 124
Tsp45I GTSAC 1 cut(s) 454
TspDTI ATGAA 4 cut(s) 71, 294, 384, 606
TspRI CASTG 1 cut(s) 209
XapI RAATTY 1 cut(s) 224
XmaJI CCTAGG 1 cut(s) 104
XmiI GTMKAC 1 cut(s) 626
XspI CTAG 2 cut(s) 72, 105
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.