MD13G1274800.v1.1

HD domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr13
OG0011001
Physical Location & Seq
Forward (+)
37434627 .. 37437376
2750 bp
Loading structure...
UTR
Exon/CDS
Intron
MD13G1274800.v1.1.491

Sequence Viewer

Length: 792 bp
ATGAGCCGACTGTTGTTCTCTAAATCGCTCCTCCTAGCCCCCTCCTCTCTTGCTTCCGCCCCCCTTCGAGGAACACCATTCAAGTTCTCTTCGTCGCCCACTCCAACTTCTAGAGTTCCTCATCGTATGGCCACCGACGCTTCGTCGTCCCCGCCATCCGCCACCGGCGGTGACGCCACCGACCGTCCCGTTTCCAATGCAGGCCACGAACCGACCACCTCCCCTTCTTCTTCTTCTTCGTCGACTCCAGCTTCCTCTGCCATTGATTTTCTCTCGCTCTGCCACCGCCTCAAGACGACGAAAAGAGCTGGATGGGTGAAGAGAGATGTGAAGGATCCAGAGTCGATAGCTGACCATATGTACCGGATGGGATTAATGGCTTTGATTGCTTCTGATATCCCCGGTGTCGATAGAGACAAGTGTATTAAAATCGCCATTGTTCATGATATTGCTGAAGCCATTGTTGGGGACATAACGCCCTCGGATGGGATTCCAAAGGCGGAGAAAAGTAGAAGAGAGCAAGAGGCATTAGACCACATGTGCAAATTACTCGGTGGAGGCTCAATAGCTAAAGAAGTAGGTGAACTGTGGATGGAGTACGAGGGGAATTCCTCGCCAGAAGCTAAAATTGTTAAGGACCTCGATAAGGTGGAGATGATACTTCAAGCCTTGGAATATGAAAAGGAACAAGGGAAGGATTTAGAAGAGTTTTTTCAGTCGACTGCTGGGAAGTTTCAGACTGATTTGGGAAAAGCATGGGCATTAGAGATCGCGTCAAGAAGAAAAAAATAA
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
HD_3

Protein Analysis

264

Amino Acids

28.44

Weight (kDa)

6.61

Isoelectric Point (pI)

51.69

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
YfbR-like PF12917 90 - 241 1.1e-06 5'-deoxynucleotidase YfbR-like
HD_3 PF13023 95 - 252 3.9e-49 HD domain
HD PF01966 117 - 219 4.6e-11 HD 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0011001)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G23820 AT2G23820
fragaria_vesca FvH4_4g08640 FvH4_4g08640
malus_domestica MD13G1274800.v1.1
prunus_persica Prupe.1G099200_v2.0.a1 Prupe.1G099200_v2.0.a1
pyrus_communis pycom13g28700
rosa_chinensis RchiOBHm_Chr4g0405131
rosa_laevigata RLG00000008870
rosa_multiflora Rmu_sc0002480.1_g000031 Rmu_ssc0000255.1_g000040
rosa_roxburghii Rroxscaffold_5G00349360
rosa_rugosa Rorug04G0053800 Rorug04G0053900
rosa_samantha Rh4AG129100 Rh4BG122400 Rh4CG136200 Rh4DG122600
rosa_wichuraiana Rw4G010420

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 2 cut(s) 242, 719
AccII CGCG 1 cut(s) 773
AciI CCGC 6 cut(s) 57, 152, 159, 168, 286, 500
AclWI GGATC 2 cut(s) 329, 342
AcoI YGGCCR 1 cut(s) 129
AcsI RAATTY 1 cut(s) 607
AcuI CTGAAG 1 cut(s) 474
AcyI GRCGYC 1 cut(s) 174
AfaI GTAC 2 cut(s) 362, 599
AfiI CCNNNNNNNGG 5 cut(s) 68, 465, 485, 486, 646
AflIII ACRYGT 1 cut(s) 537
AgsI TTSAA 2 cut(s) 82, 665
AhdI GACNNNNNGTC 1 cut(s) 142
AjuI GAANNNNNNNTTGG 2 cut(s) 447, 479
AluBI AGCT 5 cut(s) 251, 308, 350, 569, 623
AluI AGCT 5 cut(s) 251, 308, 350, 569, 623
Alw26I GTCTC 1 cut(s) 408
AlwI GGATC 2 cut(s) 329, 342
AoxI GGCC 2 cut(s) 129, 202
ApoI RAATTY 1 cut(s) 607
AseI ATTAAT 1 cut(s) 374
AspS9I GGNCC 1 cut(s) 637
AsuC2I CCSGG 1 cut(s) 402
AsuHPI GGTGA 3 cut(s) 182, 328, 593
AvaII GGWCC 1 cut(s) 637
BalI TGGCCA 1 cut(s) 131
BamHI GGATCC 1 cut(s) 334
BccI CCATC 5 cut(s) 163, 306, 361, 479, 586
BcgI CGANNNNNNTGC 2 cut(s) 532, 566
BcnI CCSGG 1 cut(s) 402
BcoDI GTCTC 1 cut(s) 408
BfaI CTAG 2 cut(s) 35, 111
Bme1390I CCNGG 1 cut(s) 402
Bme18I GGWCC 1 cut(s) 637
BmeRI GACNNNNNGTC 1 cut(s) 142
BmgT120I GGNCC 1 cut(s) 637
BmiI GGNNCC 1 cut(s) 336
BmrFI CCNGG 1 cut(s) 402
BpmI CTGGAG 1 cut(s) 231
BpuEI CTTGAG 1 cut(s) 275
BpuMI CCSGG 1 cut(s) 402
BsaHI GRCGYC 1 cut(s) 174
BsaJI CCNNGG 3 cut(s) 400, 480, 669
BsaWI WCCGGW 1 cut(s) 363
Bsc4I CCNNNNNNNGG 5 cut(s) 68, 465, 485, 486, 646
Bse118I RCCGGY 1 cut(s) 164
BseDI CCNNGG 3 cut(s) 400, 480, 669
BseGI GGATG 5 cut(s) 155, 317, 372, 490, 597
BseLI CCNNNNNNNGG 5 cut(s) 68, 465, 485, 486, 646
BseRI GAGGAG 2 cut(s) 20, 34
BseYI CCCAGC 1 cut(s) 725
Bsh1236I CGCG 1 cut(s) 773
Bsh1285I CGRYCG 1 cut(s) 184
BshFI GGCC 2 cut(s) 131, 204
BsiEI CGRYCG 1 cut(s) 184
BsiSI CCGG 3 cut(s) 165, 364, 402
BslFI GGGAC 3 cut(s) 133, 171, 482
BslI CCNNNNNNNGG 5 cut(s) 68, 465, 485, 486, 646
BsmAI GTCTC 1 cut(s) 408
BsmFI GGGAC 3 cut(s) 133, 171, 482
BsnI GGCC 2 cut(s) 131, 204
Bsp143I GATC 2 cut(s) 334, 768
BspACI CCGC 6 cut(s) 57, 152, 159, 168, 286, 500
BspANI GGCC 2 cut(s) 131, 204
BspFNI CGCG 1 cut(s) 773
BspHI TCATGA 1 cut(s) 442
BspLI GGNNCC 1 cut(s) 336
BspPI GGATC 2 cut(s) 329, 342
BsrFI RCCGGY 1 cut(s) 164
BssAI RCCGGY 1 cut(s) 164
BssECI CCNNGG 3 cut(s) 400, 480, 669
BssMI GATC 2 cut(s) 334, 768
BssNI GRCGYC 1 cut(s) 174
BssT1I CCWWGG 1 cut(s) 669
Bst4CI ACNGT 3 cut(s) 12, 185, 588
Bst6I CTCTTC 4 cut(s) 94, 314, 508, 699
BstACI GRCGYC 1 cut(s) 174
BstC8I GCNNGC 1 cut(s) 202
BstENI CCTNNNNNAGG 1 cut(s) 644
BstF5I GGATG 5 cut(s) 155, 317, 372, 490, 597
BstFNI CGCG 1 cut(s) 773
BstKTI GATC 2 cut(s) 337, 771
BstMAI GTCTC 1 cut(s) 408
BstMBI GATC 2 cut(s) 334, 768
BstMCI CGRYCG 1 cut(s) 184
BstMWI GCNNNNNNNGC 3 cut(s) 137, 257, 386
BstNSI RCATGY 1 cut(s) 541
BstSCI CCNGG 1 cut(s) 400
BstUI CGCG 1 cut(s) 773
BstX2I RGATCY 1 cut(s) 334
BstYI RGATCY 1 cut(s) 334
BsuRI GGCC 2 cut(s) 131, 204
BtsCI GGATG 5 cut(s) 155, 317, 372, 490, 597
Cac8I GCNNGC 1 cut(s) 202
CciI TCATGA 1 cut(s) 442
Cfr10I RCCGGY 1 cut(s) 164
Cfr13I GGNCC 1 cut(s) 637
CseI GACGC 3 cut(s) 146, 182, 762
Csp6I GTAC 2 cut(s) 361, 598
CviAII CATG 3 cut(s) 443, 538, 756
CviQI GTAC 2 cut(s) 361, 598
DpnI GATC 2 cut(s) 336, 770
DpnII GATC 2 cut(s) 334, 768
DriI GACNNNNNGTC 1 cut(s) 142
EaeI YGGCCR 1 cut(s) 129
Eam1104I CTCTTC 4 cut(s) 94, 314, 508, 699
Eam1105I GACNNNNNGTC 1 cut(s) 142
EarI CTCTTC 4 cut(s) 94, 314, 508, 699
EciI GGCGGA 3 cut(s) 46, 148, 515
Eco130I CCWWGG 1 cut(s) 669
Eco32I GATATC 1 cut(s) 397
Eco47I GGWCC 1 cut(s) 637
Eco57I CTGAAG 1 cut(s) 474
EcoNI CCTNNNNNAGG 1 cut(s) 644
EcoO109I RGGNCCY 1 cut(s) 637
EcoRI GAATTC 1 cut(s) 607
EcoRV GATATC 1 cut(s) 397
EcoT14I CCWWGG 1 cut(s) 669
ErhI CCWWGG 1 cut(s) 669
FaeI CATG 3 cut(s) 446, 541, 759
FaiI YATR 8 cut(s) 128, 357, 359, 444, 473, 539, 678, 757
FaqI GGGAC 3 cut(s) 133, 171, 482
FatI CATG 3 cut(s) 442, 537, 755
FauI CCCGC 1 cut(s) 159
FauNDI CATATG 1 cut(s) 357
FblI GTMKAC 2 cut(s) 242, 719
FokI GGATG 5 cut(s) 142, 324, 379, 497, 604
FspBI CTAG 2 cut(s) 35, 111
GsaI CCCAGC 1 cut(s) 729
GsuI CTGGAG 1 cut(s) 231
HaeIII GGCC 2 cut(s) 131, 204
HapII CCGG 3 cut(s) 165, 364, 402
HgaI GACGC 3 cut(s) 146, 182, 762
Hin1I GRCGYC 1 cut(s) 174
Hin1II CATG 3 cut(s) 446, 541, 759
HincII GTYRAC 2 cut(s) 243, 720
HindII GTYRAC 2 cut(s) 243, 720
HinfI GANTC 3 cut(s) 244, 341, 490
HpaII CCGG 3 cut(s) 165, 364, 402
HphI GGTGA 3 cut(s) 182, 328, 593
Hpy166II GTNNAC 3 cut(s) 243, 584, 720
Hpy188I TCNGA 3 cut(s) 394, 484, 738
Hpy188III TCNNGA 5 cut(s) 111, 292, 338, 443, 777
Hpy8I GTNNAC 3 cut(s) 243, 584, 720
Hpy99I CGWCG 5 cut(s) 97, 140, 148, 244, 301
HpyAV CCTTC 4 cut(s) 74, 234, 325, 688
HpyCH4III ACNGT 3 cut(s) 12, 185, 588
HpyCH4V TGCA 2 cut(s) 200, 543
HpyF10VI GCNNNNNNNGC 3 cut(s) 137, 257, 386
Hsp92I GRCGYC 1 cut(s) 174
Hsp92II CATG 3 cut(s) 446, 541, 759
Kzo9I GATC 2 cut(s) 334, 768
LmnI GCTCC 1 cut(s) 33
LpnPI CCDG 9 cut(s) 178, 186, 261, 294, 351, 377, 415, 630, 711
MaeI CTAG 2 cut(s) 35, 111
MaeIII GTNAC 1 cut(s) 170
MalI GATC 2 cut(s) 336, 770
MboI GATC 2 cut(s) 334, 768
MboII GAAGA 9 cut(s) 81, 219, 222, 225, 228, 331, 525, 716, 792
MflI RGATCY 1 cut(s) 334
MlsI TGGCCA 1 cut(s) 131
MluCI AATT 3 cut(s) 545, 607, 627
MluNI TGGCCA 1 cut(s) 131
MlyI GAGTC 2 cut(s) 238, 350
MmeI TCCRAC 1 cut(s) 128
Mox20I TGGCCA 1 cut(s) 131
MscI TGGCCA 1 cut(s) 131
MseI TTAA 3 cut(s) 374, 426, 633
Msp20I TGGCCA 1 cut(s) 131
MspI CCGG 3 cut(s) 165, 364, 402
MspR9I CCNGG 1 cut(s) 402
MvnI CGCG 1 cut(s) 773
MwoI GCNNNNNNNGC 3 cut(s) 137, 257, 386
NciI CCSGG 1 cut(s) 402
NdeI CATATG 1 cut(s) 357
NdeII GATC 2 cut(s) 334, 768
NlaIII CATG 3 cut(s) 446, 541, 759
NlaIV GGNNCC 1 cut(s) 336
NmuCI GTSAC 1 cut(s) 170
NspI RCATGY 1 cut(s) 541
PagI TCATGA 1 cut(s) 442
PciI ACATGT 1 cut(s) 537
PfeI GAWTC 1 cut(s) 490
PleI GAGTC 2 cut(s) 238, 349
PpsI GAGTC 2 cut(s) 238, 349
PpuMI RGGWCCY 1 cut(s) 637
PscI ACATGT 1 cut(s) 537
PshBI ATTAAT 1 cut(s) 374
Psp5II RGGWCCY 1 cut(s) 637
PspFI CCCAGC 1 cut(s) 725
PspN4I GGNNCC 1 cut(s) 336
PspPI GGNCC 1 cut(s) 637
PspPPI RGGWCCY 1 cut(s) 637
PsuI RGATCY 1 cut(s) 334
RsaI GTAC 2 cut(s) 362, 599
RsaNI GTAC 2 cut(s) 361, 598
SalI GTCGAC 2 cut(s) 241, 718
SaqAI TTAA 3 cut(s) 374, 426, 633
Sau3AI GATC 2 cut(s) 334, 768
Sau96I GGNCC 1 cut(s) 637
SchI GAGTC 2 cut(s) 238, 350
ScrFI CCNGG 1 cut(s) 402
SetI ASST 9 cut(s) 221, 253, 310, 352, 571, 583, 625, 642, 651
SgrAI CRCCGGYG 1 cut(s) 164
SinI GGWCC 1 cut(s) 637
SmlI CTYRAG 1 cut(s) 290
SmoI CTYRAG 1 cut(s) 290
Sse9I AATT 3 cut(s) 545, 607, 627
SsiI CCGC 6 cut(s) 57, 152, 159, 168, 286, 500
SspMI CTAG 2 cut(s) 35, 111
StyD4I CCNGG 1 cut(s) 400
StyI CCWWGG 1 cut(s) 669
TaaI ACNGT 3 cut(s) 12, 185, 588
TaqI TCGA 6 cut(s) 67, 242, 344, 408, 642, 719
TasI AATT 3 cut(s) 545, 607, 627
TfiI GAWTC 1 cut(s) 490
Tru1I TTAA 3 cut(s) 374, 426, 633
Tru9I TTAA 3 cut(s) 374, 426, 633
TseFI GTSAC 1 cut(s) 170
Tsp45I GTSAC 1 cut(s) 170
TspDTI ATGAA 2 cut(s) 431, 693
VpaK11BI GGWCC 1 cut(s) 637
VspI ATTAAT 1 cut(s) 374
XagI CCTNNNNNAGG 1 cut(s) 644
XapI RAATTY 1 cut(s) 607
XbaI TCTAGA 1 cut(s) 110
XceI RCATGY 1 cut(s) 541
XmiI GTMKAC 2 cut(s) 242, 719
XspI CTAG 2 cut(s) 35, 111
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.