MD00G1023500.v1.1

Protein ROOT HAIR DEFECTIVE 3 homolog

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr00
OG0000525
Physical Location & Seq
Forward (+)
3917178 .. 3919056
1879 bp
Loading structure...
UTR
Exon/CDS
Intron
MD00G1023500.v1.1.491

Sequence Viewer

Length: 585 bp
ATGAGGATATCCGAGGTTTCTTCAAAGGATACCTTAATTACCCCAGTACAGTGCAAGTCATTGTGGAGGCAGTTCAAAGCAGAGACCGAATATAGCATCACTCAAGCTATTTCGGCACAGGAGGCTCACAAGCGGAGTAACAACTGGTTACCTCCTCCATGGGCTATAATGGCAATGATTGTTCTTGGTTTTAACGAATTTATGATGCTTTTAAAGAACCCTCTCTACCTCATGGTTCTATTTGTTGCATTTTTACTGTCAAAGGCCTTATGGGTACAGATGGACATTACGGGACAGTTCCAGCATGGCGCTCTGTCAGGAATACTGTCTATCTCATCAAGGTTTCTTCCAACCGTCATGAATCTTCTAAGAAAACTCGCAGAAGAAGCTCAGGGGAATCAAACACCGGAAGCACAAAGGCGGCCAGTTTCTCTTGCTTCTCAGAGTTATAGAAATGAAACACCTCAGCCAAATCCAGTAACAAGCTCATTCCCGGAGTCCTCAGTGTCATCCAATATCTCGTCATCAGATACCGGCATGGAATACTCAAGCCCTCCTTTAAGACAAAGGCACGGCAAACGTTGA
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

195

Amino Acids

21.83

Weight (kDa)

9.56

Isoelectric Point (pI)

52.38

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Sey1_3HB PF20428 5 - 129 3.7e-35 Sey1 three-helix bundle 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: 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)
AciI CCGC 2 cut(s) 133, 421
AclI AACGTT 1 cut(s) 580
AcoI YGGCCR 1 cut(s) 422
AcsI RAATTY 1 cut(s) 197
AfaI GTAC 2 cut(s) 48, 276
AgsI TTSAA 2 cut(s) 24, 76
AluBI AGCT 3 cut(s) 107, 389, 486
AluI AGCT 3 cut(s) 107, 389, 486
Alw26I GTCTC 1 cut(s) 77
AoxI GGCC 2 cut(s) 264, 422
ApoI RAATTY 1 cut(s) 197
AspLEI GCGC 1 cut(s) 311
AsuC2I CCSGG 1 cut(s) 494
BbvCI CCTCAGC 1 cut(s) 465
BccI CCATC 1 cut(s) 274
BciVI GTATCC 1 cut(s) 22
BcnI CCSGG 1 cut(s) 494
BcoDI GTCTC 1 cut(s) 77
BfoI RGCGCY 1 cut(s) 312
BfuI GTATCC 1 cut(s) 22
BisI GCNGC 1 cut(s) 422
BlsI GCNGC 1 cut(s) 423
Bme1390I CCNGG 1 cut(s) 494
BmrFI CCNGG 1 cut(s) 494
BmrI ACTGGG 1 cut(s) 38
BmsI GCATC 2 cut(s) 105, 195
BmuI ACTGGG 1 cut(s) 38
Bpu10I CCTNAGC 2 cut(s) 390, 465
BpuEI CTTGAG 2 cut(s) 87, 532
BpuMI CCSGG 1 cut(s) 494
BsaI GGTCTC 1 cut(s) 77
BsaJI CCNNGG 2 cut(s) 12, 158
BsaWI WCCGGW 1 cut(s) 406
Bse118I RCCGGY 1 cut(s) 533
Bse1I ACTGG 4 cut(s) 44, 149, 425, 476
Bse3DI GCAATG 1 cut(s) 180
BseDI CCNNGG 2 cut(s) 12, 158
BseGI GGATG 1 cut(s) 509
BseMI GCAATG 1 cut(s) 180
BseMII CTCAG 4 cut(s) 404, 455, 479, 516
BseNI ACTGG 4 cut(s) 44, 149, 425, 476
BseRI GAGGAG 1 cut(s) 144
BshFI GGCC 2 cut(s) 266, 424
BsiSI CCGG 3 cut(s) 407, 494, 534
BslFI GGGAC 1 cut(s) 306
BsmAI GTCTC 1 cut(s) 77
BsmFI GGGAC 1 cut(s) 306
BsnI GGCC 2 cut(s) 266, 424
Bso31I GGTCTC 1 cut(s) 77
Bsp19I CCATGG 1 cut(s) 158
BspACI CCGC 2 cut(s) 133, 421
BspANI GGCC 2 cut(s) 266, 424
BspCNI CTCAG 4 cut(s) 403, 454, 478, 515
BspHI TCATGA 1 cut(s) 357
BspTNI GGTCTC 1 cut(s) 77
BsrDI GCAATG 1 cut(s) 180
BsrFI RCCGGY 1 cut(s) 533
BsrI ACTGG 4 cut(s) 44, 149, 425, 476
BssAI RCCGGY 1 cut(s) 533
BssECI CCNNGG 2 cut(s) 12, 158
BssT1I CCWWGG 1 cut(s) 158
Bst4CI ACNGT 5 cut(s) 51, 258, 297, 327, 355
BstDEI CTNAG 5 cut(s) 368, 390, 441, 465, 502
BstDSI CCRYGG 1 cut(s) 158
BstEII GGTNACC 1 cut(s) 147
BstF5I GGATG 1 cut(s) 509
BstH2I RGCGCY 1 cut(s) 312
BstHHI GCGC 1 cut(s) 311
BstMAI GTCTC 1 cut(s) 77
BstMWI GCNNNNNNNGC 4 cut(s) 113, 122, 170, 386
BstPI GGTNACC 1 cut(s) 147
BstSCI CCNGG 1 cut(s) 492
BsuI GTATCC 1 cut(s) 22
BsuRI GGCC 2 cut(s) 266, 424
BtgI CCRYGG 1 cut(s) 158
BtsCI GGATG 1 cut(s) 509
BtsIMutI CAGTG 2 cut(s) 56, 510
CciI TCATGA 1 cut(s) 357
CfoI GCGC 1 cut(s) 311
Cfr10I RCCGGY 1 cut(s) 533
Csp6I GTAC 2 cut(s) 47, 275
CviAII CATG 5 cut(s) 159, 232, 305, 358, 538
CviJI RGCY 9 cut(s) 107, 125, 164, 266, 389, 424, 469, 486, 552
CviKI_1 RGCY 9 cut(s) 107, 125, 164, 266, 389, 424, 469, 486, 552
CviQI GTAC 2 cut(s) 47, 275
DdeI CTNAG 5 cut(s) 368, 390, 441, 465, 502
DraI TTTAAA 1 cut(s) 213
EaeI YGGCCR 1 cut(s) 422
Eco130I CCWWGG 1 cut(s) 158
Eco147I AGGCCT 1 cut(s) 266
Eco31I GGTCTC 1 cut(s) 77
Eco32I GATATC 1 cut(s) 9
Eco91I GGTNACC 1 cut(s) 147
EcoO65I GGTNACC 1 cut(s) 147
EcoRV GATATC 1 cut(s) 9
EcoT14I CCWWGG 1 cut(s) 158
ErhI CCWWGG 1 cut(s) 158
FaeI CATG 5 cut(s) 162, 235, 308, 361, 541
FalI AAGNNNNNCTT 4 cut(s) 17, 49, 541, 573
FaqI GGGAC 1 cut(s) 306
FatI CATG 5 cut(s) 158, 231, 304, 357, 537
Fnu4HI GCNGC 1 cut(s) 422
FokI GGATG 1 cut(s) 496
Fsp4HI GCNGC 1 cut(s) 422
GlaI GCGC 1 cut(s) 310
GluI GCNGC 1 cut(s) 422
HaeII RGCGCY 1 cut(s) 312
HaeIII GGCC 2 cut(s) 266, 424
HapII CCGG 3 cut(s) 407, 494, 534
HhaI GCGC 1 cut(s) 311
Hin1II CATG 5 cut(s) 162, 235, 308, 361, 541
Hin6I GCGC 1 cut(s) 309
HinP1I GCGC 1 cut(s) 309
HinfI GANTC 3 cut(s) 361, 397, 497
HpaII CCGG 3 cut(s) 407, 494, 534
Hpy188I TCNGA 3 cut(s) 13, 444, 529
Hpy188III TCNNGA 2 cut(s) 318, 358
HpyCH4III ACNGT 5 cut(s) 51, 258, 297, 327, 355
HpyCH4IV ACGT 1 cut(s) 580
HpyCH4V TGCA 2 cut(s) 54, 248
HpyF10VI GCNNNNNNNGC 4 cut(s) 113, 122, 170, 386
HpyF3I CTNAG 5 cut(s) 368, 390, 441, 465, 502
HpySE526I ACGT 1 cut(s) 580
Hsp92II CATG 5 cut(s) 162, 235, 308, 361, 541
HspAI GCGC 1 cut(s) 309
LweI GCATC 2 cut(s) 105, 195
MaeII ACGT 1 cut(s) 580
MaeIII GTNAC 3 cut(s) 137, 147, 478
MboII GAAGA 4 cut(s) 12, 338, 356, 395
MluCI AATT 2 cut(s) 36, 197
MlyI GAGTC 1 cut(s) 506
MmeI TCCRAC 1 cut(s) 374
MseI TTAA 4 cut(s) 35, 192, 212, 560
MspI CCGG 3 cut(s) 407, 494, 534
MspR9I CCNGG 1 cut(s) 494
MwoI GCNNNNNNNGC 4 cut(s) 113, 122, 170, 386
NciI CCSGG 1 cut(s) 494
NcoI CCATGG 1 cut(s) 158
NlaIII CATG 5 cut(s) 162, 235, 308, 361, 541
PagI TCATGA 1 cut(s) 357
PceI AGGCCT 1 cut(s) 266
PfeI GAWTC 2 cut(s) 361, 397
PfoI TCCNGGA 1 cut(s) 492
PkrI GCNGC 1 cut(s) 423
PleI GAGTC 1 cut(s) 505
PpsI GAGTC 1 cut(s) 505
Psp1406I AACGTT 1 cut(s) 580
PspEI GGTNACC 1 cut(s) 147
PsrI GAACNNNNNNTAC 2 cut(s) 209, 241
RsaI GTAC 2 cut(s) 48, 276
RsaNI GTAC 2 cut(s) 47, 275
SaqAI TTAA 4 cut(s) 35, 192, 212, 560
SatI GCNGC 1 cut(s) 422
SchI GAGTC 1 cut(s) 506
ScrFI CCNGG 1 cut(s) 494
SfaNI GCATC 2 cut(s) 105, 195
SmlI CTYRAG 2 cut(s) 102, 547
SmoI CTYRAG 2 cut(s) 102, 547
Sse9I AATT 2 cut(s) 36, 197
SseBI AGGCCT 1 cut(s) 266
SsiI CCGC 2 cut(s) 133, 421
StuI AGGCCT 1 cut(s) 266
StyD4I CCNGG 1 cut(s) 492
StyI CCWWGG 1 cut(s) 158
TaaI ACNGT 5 cut(s) 51, 258, 297, 327, 355
TaiI ACGT 1 cut(s) 583
TaqII GACCGA 1 cut(s) 101
TasI AATT 2 cut(s) 36, 197
TatI WGTACW 1 cut(s) 46
TauI GCSGC 1 cut(s) 424
TfiI GAWTC 2 cut(s) 361, 397
Tru1I TTAA 4 cut(s) 35, 192, 212, 560
Tru9I TTAA 4 cut(s) 35, 192, 212, 560
TscAI CASTG 2 cut(s) 56, 510
TspDTI ATGAA 2 cut(s) 374, 471
TspRI CASTG 2 cut(s) 56, 510
XapI RAATTY 1 cut(s) 197
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.