MD00G1046300.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
Reverse (-)
8710988 .. 8721169
10182 bp
Loading structure...
UTR
Exon/CDS
Intron
MD00G1046300.v1.1.491

Sequence Viewer

Length: 663 bp
ATGAAGGATCGGTTTGACGTAGTCTTCAATTATTACAGCGATTCAATGCCTAGGGTTTGGACTGGGAATGAAGACATTAGAAGTATTACCAAGGATGCACGAACTGCGTCTCTGAAGCTTTTGTTGACCATGGCTGCTATTCGCTTGGATGAGAAGCCAGATAATATTGAAAATGTCCTAGTTTCTTCTCTGGTGGACAGGACTGTTACTGTTTCATCTTCACAAAATAGGAAACTAGGACCTCCTACAGATCCTCTTGCCTCAAGCTCTTGGGAAGAGGTTTCTTCAAAGGATACCTTAATTACCCCAGTACAGTGCAAGTCATTGTCAAGGCAGTTCAAAGCAGAGACCGAATATAGAGTCACTCAAGCTATTTCGGCACAGGAGGCTCACAAGCGGAGTAACAACTGGTTACCTCCTCCATGGGCTATAATGGCGATGATCGTTCTTGGTTTTAACGAATTTATGATGCTTTTAAAGAACCCTCTCTACCTCATGGTTCTATTTGTTGCATTTTTACTTTCAAAGGCCTTATGGGTACAGATGGACATTACAGGACAGTTCCAGCATGACAAGCACGCAGACAAAACTTTGGTGTCACCGGCTTCGACAAAAATAATTGGACGCAAATGCCCTCGGCCAAAAAAAATTCAAAGAGGCTAA
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

221

Amino Acids

24.97

Weight (kDa)

9.54

Isoelectric Point (pI)

32.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Sey1_3HB PF20428 1 - 184 2.4e-64 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 1 cut(s) 397
AclWI GGATC 2 cut(s) 15, 245
AcoI YGGCCR 1 cut(s) 638
AcsI RAATTY 2 cut(s) 461, 648
AcuI CTGAAG 1 cut(s) 134
AfaI GTAC 2 cut(s) 312, 540
AgsI TTSAA 7 cut(s) 28, 45, 170, 288, 340, 525, 653
AluBI AGCT 3 cut(s) 118, 267, 371
AluI AGCT 3 cut(s) 118, 267, 371
Alw26I GTCTC 2 cut(s) 114, 341
AlwI GGATC 2 cut(s) 15, 245
AoxI GGCC 2 cut(s) 528, 638
ApeKI GCWGC 1 cut(s) 134
ApoI RAATTY 2 cut(s) 461, 648
ArsI GACNNNNNNTTYG 2 cut(s) 345, 377
AspA2I CCTAGG 1 cut(s) 50
AspS9I GGNCC 1 cut(s) 239
AsuHPI GGTGA 1 cut(s) 591
AvaII GGWCC 1 cut(s) 239
AvrII CCTAGG 1 cut(s) 50
BbsI GAAGAC 2 cut(s) 16, 78
BbvI GCAGC 1 cut(s) 121
BccI CCATC 1 cut(s) 538
BciVI GTATCC 1 cut(s) 286
BcoDI GTCTC 2 cut(s) 114, 341
BfaI CTAG 3 cut(s) 51, 179, 236
BfmI CTRYAG 1 cut(s) 246
BfuI GTATCC 1 cut(s) 286
BisI GCNGC 1 cut(s) 135
BlnI CCTAGG 1 cut(s) 50
BlsI GCNGC 1 cut(s) 136
Bme18I GGWCC 1 cut(s) 239
BmgT120I GGNCC 1 cut(s) 239
BmrI ACTGGG 2 cut(s) 72, 302
BmsI GCATC 2 cut(s) 85, 459
BmuI ACTGGG 2 cut(s) 72, 302
BpiI GAAGAC 2 cut(s) 16, 78
BpuEI CTTGAG 2 cut(s) 247, 351
BsaI GGTCTC 1 cut(s) 341
BsaJI CCNNGG 5 cut(s) 50, 90, 129, 422, 635
Bse118I RCCGGY 1 cut(s) 601
Bse1I ACTGG 3 cut(s) 67, 308, 413
BseDI CCNNGG 5 cut(s) 50, 90, 129, 422, 635
BseGI GGATG 2 cut(s) 100, 154
BseNI ACTGG 3 cut(s) 67, 308, 413
BseRI GAGGAG 1 cut(s) 408
BseXI GCAGC 1 cut(s) 121
BshFI GGCC 2 cut(s) 530, 640
BsiSI CCGG 1 cut(s) 602
BsmAI GTCTC 2 cut(s) 114, 341
BsmBI CGTCTC 1 cut(s) 114
BsnI GGCC 2 cut(s) 530, 640
Bso31I GGTCTC 1 cut(s) 341
Bsp143I GATC 3 cut(s) 7, 250, 441
Bsp19I CCATGG 2 cut(s) 129, 422
BspACI CCGC 1 cut(s) 397
BspANI GGCC 2 cut(s) 530, 640
BspPI GGATC 2 cut(s) 15, 245
BspTNI GGTCTC 1 cut(s) 341
BsrFI RCCGGY 1 cut(s) 601
BsrI ACTGG 3 cut(s) 67, 308, 413
BssAI RCCGGY 1 cut(s) 601
BssECI CCNNGG 5 cut(s) 50, 90, 129, 422, 635
BssMI GATC 3 cut(s) 7, 250, 441
BssT1I CCWWGG 4 cut(s) 50, 90, 129, 422
Bst4CI ACNGT 4 cut(s) 205, 211, 315, 561
Bst6I CTCTTC 1 cut(s) 270
BstAPI GCANNNNNTGC 1 cut(s) 104
BstC8I GCNNGC 1 cut(s) 579
BstDSI CCRYGG 2 cut(s) 129, 422
BstEII GGTNACC 1 cut(s) 411
BstF5I GGATG 2 cut(s) 100, 154
BstKTI GATC 3 cut(s) 10, 253, 444
BstMAI GTCTC 2 cut(s) 114, 341
BstMBI GATC 3 cut(s) 7, 250, 441
BstMWI GCNNNNNNNGC 5 cut(s) 104, 377, 386, 434, 574
BstPI GGTNACC 1 cut(s) 411
BstSFI CTRYAG 1 cut(s) 246
BstV1I GCAGC 1 cut(s) 121
BstV2I GAAGAC 2 cut(s) 16, 78
BstX2I RGATCY 1 cut(s) 250
BstYI RGATCY 1 cut(s) 250
BsuI GTATCC 1 cut(s) 286
BsuRI GGCC 2 cut(s) 530, 640
BtgI CCRYGG 2 cut(s) 129, 422
BtgZI GCGATG 1 cut(s) 452
BtsCI GGATG 2 cut(s) 100, 154
BtsIMutI CAGTG 1 cut(s) 320
Cac8I GCNNGC 1 cut(s) 579
Cfr10I RCCGGY 1 cut(s) 601
Cfr13I GGNCC 1 cut(s) 239
CseI GACGC 2 cut(s) 96, 633
Csp6I GTAC 2 cut(s) 311, 539
CviAII CATG 4 cut(s) 130, 423, 496, 569
CviQI GTAC 2 cut(s) 311, 539
DpnI GATC 3 cut(s) 9, 252, 443
DpnII GATC 3 cut(s) 7, 250, 441
DraI TTTAAA 1 cut(s) 477
EaeI YGGCCR 1 cut(s) 638
Eam1104I CTCTTC 1 cut(s) 270
EarI CTCTTC 1 cut(s) 270
Eco130I CCWWGG 4 cut(s) 50, 90, 129, 422
Eco147I AGGCCT 1 cut(s) 530
Eco31I GGTCTC 1 cut(s) 341
Eco47I GGWCC 1 cut(s) 239
Eco57I CTGAAG 1 cut(s) 134
Eco91I GGTNACC 1 cut(s) 411
EcoO109I RGGNCCY 1 cut(s) 239
EcoO65I GGTNACC 1 cut(s) 411
EcoT14I CCWWGG 4 cut(s) 50, 90, 129, 422
ErhI CCWWGG 4 cut(s) 50, 90, 129, 422
Esp3I CGTCTC 1 cut(s) 114
FaeI CATG 4 cut(s) 133, 426, 499, 572
FaiI YATR 8 cut(s) 131, 357, 424, 431, 467, 497, 535, 570
FalI AAGNNNNNCTT 2 cut(s) 281, 313
FatI CATG 4 cut(s) 129, 422, 495, 568
Fnu4HI GCNGC 1 cut(s) 135
FokI GGATG 2 cut(s) 107, 161
Fsp4HI GCNGC 1 cut(s) 135
FspBI CTAG 3 cut(s) 51, 179, 236
GluI GCNGC 1 cut(s) 135
HaeIII GGCC 2 cut(s) 530, 640
HapII CCGG 1 cut(s) 602
HgaI GACGC 2 cut(s) 96, 633
Hin1II CATG 4 cut(s) 133, 426, 499, 572
HincII GTYRAC 1 cut(s) 126
HindII GTYRAC 1 cut(s) 126
HindIII AAGCTT 1 cut(s) 116
HinfI GANTC 2 cut(s) 41, 360
HpaII CCGG 1 cut(s) 602
HphI GGTGA 1 cut(s) 591
Hpy166II GTNNAC 2 cut(s) 126, 196
Hpy188I TCNGA 1 cut(s) 114
Hpy8I GTNNAC 2 cut(s) 126, 196
HpyCH4III ACNGT 4 cut(s) 205, 211, 315, 561
HpyCH4IV ACGT 1 cut(s) 18
HpyCH4V TGCA 3 cut(s) 98, 318, 512
HpyF10VI GCNNNNNNNGC 5 cut(s) 104, 377, 386, 434, 574
HpySE526I ACGT 1 cut(s) 18
Hsp92II CATG 4 cut(s) 133, 426, 499, 572
Kzo9I GATC 3 cut(s) 7, 250, 441
Lsp1109I GCAGC 1 cut(s) 121
LweI GCATC 2 cut(s) 85, 459
MaeI CTAG 3 cut(s) 51, 179, 236
MaeII ACGT 1 cut(s) 18
MaeIII GTNAC 5 cut(s) 205, 361, 401, 411, 597
MalI GATC 3 cut(s) 9, 252, 443
MboI GATC 3 cut(s) 7, 250, 441
MboII GAAGA 6 cut(s) 16, 83, 177, 210, 276, 287
MflI RGATCY 1 cut(s) 250
MluCI AATT 5 cut(s) 28, 300, 461, 618, 648
MlyI GAGTC 1 cut(s) 369
MseI TTAA 3 cut(s) 299, 456, 476
MspI CCGG 1 cut(s) 602
MwoI GCNNNNNNNGC 5 cut(s) 104, 377, 386, 434, 574
NcoI CCATGG 2 cut(s) 129, 422
NdeII GATC 3 cut(s) 7, 250, 441
NlaIII CATG 4 cut(s) 133, 426, 499, 572
NmeAIII GCCGAG 1 cut(s) 616
NmuCI GTSAC 2 cut(s) 361, 597
PceI AGGCCT 1 cut(s) 530
PfeI GAWTC 1 cut(s) 41
PflFI GACNNNGTC 1 cut(s) 20
PkrI GCNGC 1 cut(s) 136
PleI GAGTC 1 cut(s) 368
PpsI GAGTC 1 cut(s) 368
PpuMI RGGWCCY 1 cut(s) 239
Psp5II RGGWCCY 1 cut(s) 239
PspEI GGTNACC 1 cut(s) 411
PspPI GGNCC 1 cut(s) 239
PspPPI RGGWCCY 1 cut(s) 239
PsrI GAACNNNNNNTAC 2 cut(s) 473, 505
PsuI RGATCY 1 cut(s) 250
PsyI GACNNNGTC 1 cut(s) 20
RsaI GTAC 2 cut(s) 312, 540
RsaNI GTAC 2 cut(s) 311, 539
SaqAI TTAA 3 cut(s) 299, 456, 476
SatI GCNGC 1 cut(s) 135
Sau3AI GATC 3 cut(s) 7, 250, 441
Sau96I GGNCC 1 cut(s) 239
SchI GAGTC 1 cut(s) 369
SetI ASST 9 cut(s) 21, 120, 244, 269, 282, 299, 373, 418, 495
SfaNI GCATC 2 cut(s) 85, 459
SfcI CTRYAG 1 cut(s) 246
SinI GGWCC 1 cut(s) 239
SmlI CTYRAG 2 cut(s) 262, 366
SmoI CTYRAG 2 cut(s) 262, 366
Sse9I AATT 5 cut(s) 28, 300, 461, 618, 648
SseBI AGGCCT 1 cut(s) 530
SsiI CCGC 1 cut(s) 397
SspI AATATT 1 cut(s) 166
SspMI CTAG 3 cut(s) 51, 179, 236
StuI AGGCCT 1 cut(s) 530
StyI CCWWGG 4 cut(s) 50, 90, 129, 422
TaaI ACNGT 4 cut(s) 205, 211, 315, 561
TaiI ACGT 1 cut(s) 21
TaqI TCGA 1 cut(s) 608
TaqII GACCGA 1 cut(s) 365
TasI AATT 5 cut(s) 28, 300, 461, 618, 648
TatI WGTACW 1 cut(s) 310
TfiI GAWTC 1 cut(s) 41
Tru1I TTAA 3 cut(s) 299, 456, 476
Tru9I TTAA 3 cut(s) 299, 456, 476
TscAI CASTG 1 cut(s) 320
TseFI GTSAC 2 cut(s) 361, 597
TseI GCWGC 1 cut(s) 134
Tsp45I GTSAC 2 cut(s) 361, 597
TspDTI ATGAA 3 cut(s) 17, 84, 204
TspRI CASTG 1 cut(s) 320
Tth111I GACNNNGTC 1 cut(s) 20
VpaK11BI GGWCC 1 cut(s) 239
XapI RAATTY 2 cut(s) 461, 648
XmaJI CCTAGG 1 cut(s) 50
XspI CTAG 3 cut(s) 51, 179, 236
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.