pycom13g28700

HD domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr13
OG0011001
Physical Location & Seq
Reverse (-)
24711675 .. 24714198
2524 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 900 bp
ATGAAGTGGACGGCAAAAGAGAGAAAAGATGAAGTCGGGATGGCAAGAAGGCTTAAGAGTTTTTTTTATCGGAAAGTAGAGGAGGACGCAACAAAATTTGACCGAAAATTGTGTGACAAAAAAAAAGAAAAGAAAAAATCGATAACAAAATTAATCAAAATGAGCCGACTGTTGTTCTCTAAATCGCTCCTCCCAGCACCCTCCTCTCTTGCTTCCGCCCCCCTTCGAGGAACACCATTCAAGTTTTCTTCGTCGCCCACTCCGACTTCTAGAGTTCCTCATCGTATGGCCACCGACGCTTCGTCGTCCCCGCCATCCGCCACCGGCGGTGACGCCACCGACCGTCCCGTTTCCAATGCAGGCCACGAACCGACCACCTCCCCTTCTTCTTCTTCTTCTTCGTCGACTCCAGCTTCCTCTGCCATTGATTTTCTCTCGCTCTGCCACCGCCTCAAGACGACGAAAAGAGCTGGATGGGTGAAGAGAGATGTGAAGGATCCAGAGTCGATAGCTGACCATATGTACCGGATGGGATTAATGGCTCTGATTGCTTCTGATATCCCCGGTGTCGATCGAGACAAGTGTATTAAAATCGCCATTGTTCATGATATTGCTGAAGCCATTGTTGGGGACATAACCCCCTCGGATGGGATTCCAAAGGCGGAGAAGAGTAGAAGAGAGCAAGAGGCGTTAGACCGCATGTGCAAATTACTCGGTGGAGGCTCAATAGCTAAAGAAGTAGGTGAACTGTGGATGGAGTATGAGGGGAATTCCTCGCCAGAAGCTAAAATTGTTAAGGACCTCGATAAGGTGGAGATGATACTTCAAGCCTTGGAATATGAAAAGGAACAAGGGAAGGATTTAGAAGAGTTTTTTCAGTCAACTGCTGTTTCAGACTGA
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

300

Amino Acids

32.93

Weight (kDa)

8.97

Isoelectric Point (pI)

50.21

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
YfbR-like PF12917 144 - 287 2.9e-06 5'-deoxynucleotidase YfbR-like
HD_3 PF13023 149 - 293 2.6e-48 HD domain
HD PF01966 171 - 273 9.5e-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
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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 1 cut(s) 404
AciI CCGC 7 cut(s) 216, 311, 318, 327, 448, 662, 697
AclWI GGATC 2 cut(s) 491, 504
AcoI YGGCCR 1 cut(s) 288
AcsI RAATTY 2 cut(s) 95, 769
AcuI CTGAAG 1 cut(s) 636
AcyI GRCGYC 1 cut(s) 333
AfaI GTAC 1 cut(s) 524
AfiI CCNNNNNNNGG 5 cut(s) 227, 627, 647, 648, 808
AflII CTTAAG 1 cut(s) 53
AgsI TTSAA 2 cut(s) 241, 827
AhdI GACNNNNNGTC 1 cut(s) 301
AjuI GAANNNNNNNTTGG 2 cut(s) 609, 641
AluBI AGCT 5 cut(s) 413, 470, 512, 731, 785
AluI AGCT 5 cut(s) 413, 470, 512, 731, 785
Alw26I GTCTC 1 cut(s) 570
AlwI GGATC 2 cut(s) 491, 504
AoxI GGCC 2 cut(s) 288, 361
ApoI RAATTY 2 cut(s) 95, 769
AseI ATTAAT 2 cut(s) 152, 536
AspS9I GGNCC 1 cut(s) 799
AsuC2I CCSGG 1 cut(s) 564
AsuHPI GGTGA 3 cut(s) 341, 490, 755
AvaII GGWCC 1 cut(s) 799
BalI TGGCCA 1 cut(s) 290
BamHI GGATCC 1 cut(s) 496
BccI CCATC 6 cut(s) 34, 322, 468, 523, 641, 748
BceAI ACGGC 1 cut(s) 27
BcgI CGANNNNNNTGC 2 cut(s) 694, 728
BcnI CCSGG 1 cut(s) 564
BcoDI GTCTC 1 cut(s) 570
BfaI CTAG 1 cut(s) 270
BfrI CTTAAG 1 cut(s) 53
Bme1390I CCNGG 1 cut(s) 564
Bme18I GGWCC 1 cut(s) 799
BmeRI GACNNNNNGTC 1 cut(s) 301
BmgT120I GGNCC 1 cut(s) 799
BmiI GGNNCC 1 cut(s) 498
BmrFI CCNGG 1 cut(s) 564
BpmI CTGGAG 1 cut(s) 393
BpuEI CTTGAG 1 cut(s) 437
BpuMI CCSGG 1 cut(s) 564
Bsa29I ATCGAT 1 cut(s) 140
BsaHI GRCGYC 1 cut(s) 333
BsaJI CCNNGG 3 cut(s) 562, 642, 831
BsaWI WCCGGW 1 cut(s) 525
Bsc4I CCNNNNNNNGG 5 cut(s) 227, 627, 647, 648, 808
Bse118I RCCGGY 1 cut(s) 323
BseCI ATCGAT 1 cut(s) 140
BseDI CCNNGG 3 cut(s) 562, 642, 831
BseGI GGATG 6 cut(s) 45, 314, 479, 534, 652, 759
BseLI CCNNNNNNNGG 5 cut(s) 227, 627, 647, 648, 808
BseRI GAGGAG 3 cut(s) 95, 179, 193
BseYI CCCAGC 1 cut(s) 193
Bsh1285I CGRYCG 2 cut(s) 343, 574
BshFI GGCC 2 cut(s) 290, 363
BshVI ATCGAT 1 cut(s) 140
BsiEI CGRYCG 2 cut(s) 343, 574
BsiSI CCGG 3 cut(s) 324, 526, 564
BslFI GGGAC 3 cut(s) 292, 330, 644
BslI CCNNNNNNNGG 5 cut(s) 227, 627, 647, 648, 808
BsmAI GTCTC 1 cut(s) 570
BsmFI GGGAC 3 cut(s) 292, 330, 644
BsnI GGCC 2 cut(s) 290, 363
Bsp143I GATC 2 cut(s) 496, 571
BspACI CCGC 7 cut(s) 216, 311, 318, 327, 448, 662, 697
BspANI GGCC 2 cut(s) 290, 363
BspDI ATCGAT 1 cut(s) 140
BspHI TCATGA 1 cut(s) 604
BspLI GGNNCC 1 cut(s) 498
BspPI GGATC 2 cut(s) 491, 504
BspTI CTTAAG 1 cut(s) 53
BsrFI RCCGGY 1 cut(s) 323
BssAI RCCGGY 1 cut(s) 323
BssECI CCNNGG 3 cut(s) 562, 642, 831
BssMI GATC 2 cut(s) 496, 571
BssNI GRCGYC 1 cut(s) 333
BssT1I CCWWGG 1 cut(s) 831
Bst4CI ACNGT 3 cut(s) 171, 344, 750
Bst6I CTCTTC 4 cut(s) 476, 662, 670, 861
BstACI GRCGYC 1 cut(s) 333
BstAFI CTTAAG 1 cut(s) 53
BstC8I GCNNGC 1 cut(s) 361
BstENI CCTNNNNNAGG 1 cut(s) 806
BstF5I GGATG 6 cut(s) 45, 314, 479, 534, 652, 759
BstKTI GATC 2 cut(s) 499, 574
BstMAI GTCTC 1 cut(s) 570
BstMBI GATC 2 cut(s) 496, 571
BstMCI CGRYCG 2 cut(s) 343, 574
BstMWI GCNNNNNNNGC 3 cut(s) 296, 419, 548
BstNSI RCATGY 1 cut(s) 703
BstSCI CCNGG 1 cut(s) 562
BstX2I RGATCY 1 cut(s) 496
BstYI RGATCY 1 cut(s) 496
Bsu15I ATCGAT 1 cut(s) 140
BsuRI GGCC 2 cut(s) 290, 363
BsuTUI ATCGAT 1 cut(s) 140
BtsCI GGATG 6 cut(s) 45, 314, 479, 534, 652, 759
Cac8I GCNNGC 1 cut(s) 361
CciI TCATGA 1 cut(s) 604
Cfr10I RCCGGY 1 cut(s) 323
Cfr13I GGNCC 1 cut(s) 799
ClaI ATCGAT 1 cut(s) 140
CseI GACGC 3 cut(s) 95, 305, 341
Csp6I GTAC 1 cut(s) 523
CviAII CATG 2 cut(s) 605, 700
CviQI GTAC 1 cut(s) 523
DpnI GATC 2 cut(s) 498, 573
DpnII GATC 2 cut(s) 496, 571
DriI GACNNNNNGTC 1 cut(s) 301
EaeI YGGCCR 1 cut(s) 288
Eam1104I CTCTTC 4 cut(s) 476, 662, 670, 861
Eam1105I GACNNNNNGTC 1 cut(s) 301
EarI CTCTTC 4 cut(s) 476, 662, 670, 861
EciI GGCGGA 3 cut(s) 205, 307, 677
Eco130I CCWWGG 1 cut(s) 831
Eco32I GATATC 1 cut(s) 559
Eco47I GGWCC 1 cut(s) 799
Eco57I CTGAAG 1 cut(s) 636
EcoNI CCTNNNNNAGG 1 cut(s) 806
EcoO109I RGGNCCY 1 cut(s) 799
EcoRI GAATTC 1 cut(s) 769
EcoRV GATATC 1 cut(s) 559
EcoT14I CCWWGG 1 cut(s) 831
ErhI CCWWGG 1 cut(s) 831
FaeI CATG 2 cut(s) 608, 703
FaiI YATR 8 cut(s) 287, 519, 521, 606, 635, 701, 762, 840
FaqI GGGAC 3 cut(s) 292, 330, 644
FatI CATG 2 cut(s) 604, 699
FauI CCCGC 1 cut(s) 318
FauNDI CATATG 1 cut(s) 519
FblI GTMKAC 1 cut(s) 404
FokI GGATG 6 cut(s) 52, 301, 486, 541, 659, 766
FspBI CTAG 1 cut(s) 270
GsaI CCCAGC 1 cut(s) 197
GsuI CTGGAG 1 cut(s) 393
HaeIII GGCC 2 cut(s) 290, 363
HapII CCGG 3 cut(s) 324, 526, 564
HgaI GACGC 3 cut(s) 95, 305, 341
Hin1I GRCGYC 1 cut(s) 333
Hin1II CATG 2 cut(s) 608, 703
HincII GTYRAC 2 cut(s) 405, 882
HindII GTYRAC 2 cut(s) 405, 882
HinfI GANTC 3 cut(s) 406, 503, 652
HpaII CCGG 3 cut(s) 324, 526, 564
HphI GGTGA 3 cut(s) 341, 490, 755
Hpy166II GTNNAC 4 cut(s) 9, 405, 746, 882
Hpy188I TCNGA 6 cut(s) 72, 264, 546, 556, 646, 895
Hpy188III TCNNGA 6 cut(s) 37, 270, 454, 500, 575, 605
Hpy8I GTNNAC 4 cut(s) 9, 405, 746, 882
Hpy99I CGWCG 5 cut(s) 256, 299, 307, 406, 463
HpyAV CCTTC 5 cut(s) 42, 233, 393, 487, 850
HpyCH4III ACNGT 3 cut(s) 171, 344, 750
HpyCH4V TGCA 2 cut(s) 359, 705
HpyF10VI GCNNNNNNNGC 3 cut(s) 296, 419, 548
Hsp92I GRCGYC 1 cut(s) 333
Hsp92II CATG 2 cut(s) 608, 703
Kzo9I GATC 2 cut(s) 496, 571
LmnI GCTCC 1 cut(s) 192
LpnPI CCDG 9 cut(s) 207, 337, 345, 423, 456, 513, 539, 577, 792
MaeI CTAG 1 cut(s) 270
MaeIII GTNAC 2 cut(s) 113, 329
MalI GATC 2 cut(s) 498, 573
MboI GATC 2 cut(s) 496, 571
MflI RGATCY 1 cut(s) 496
MlsI TGGCCA 1 cut(s) 290
MluCI AATT 6 cut(s) 95, 107, 149, 707, 769, 789
MluNI TGGCCA 1 cut(s) 290
MlyI GAGTC 2 cut(s) 400, 512
MmeI TCCRAC 1 cut(s) 287
Mox20I TGGCCA 1 cut(s) 290
MscI TGGCCA 1 cut(s) 290
MseI TTAA 5 cut(s) 54, 152, 536, 588, 795
Msp20I TGGCCA 1 cut(s) 290
MspCI CTTAAG 1 cut(s) 53
MspI CCGG 3 cut(s) 324, 526, 564
MspR9I CCNGG 1 cut(s) 564
MwoI GCNNNNNNNGC 3 cut(s) 296, 419, 548
NciI CCSGG 1 cut(s) 564
NdeI CATATG 1 cut(s) 519
NdeII GATC 2 cut(s) 496, 571
NlaIII CATG 2 cut(s) 608, 703
NlaIV GGNNCC 1 cut(s) 498
NmuCI GTSAC 2 cut(s) 113, 329
NspI RCATGY 1 cut(s) 703
PagI TCATGA 1 cut(s) 604
PcsI WCGNNNNNNNCGW 1 cut(s) 260
PfeI GAWTC 1 cut(s) 652
Ple19I CGATCG 1 cut(s) 574
PleI GAGTC 2 cut(s) 400, 511
PpsI GAGTC 2 cut(s) 400, 511
PpuMI RGGWCCY 1 cut(s) 799
PshBI ATTAAT 2 cut(s) 152, 536
Psp5II RGGWCCY 1 cut(s) 799
PspFI CCCAGC 1 cut(s) 193
PspN4I GGNNCC 1 cut(s) 498
PspPI GGNCC 1 cut(s) 799
PspPPI RGGWCCY 1 cut(s) 799
PsuI RGATCY 1 cut(s) 496
PvuI CGATCG 1 cut(s) 574
RsaI GTAC 1 cut(s) 524
RsaNI GTAC 1 cut(s) 523
SalI GTCGAC 1 cut(s) 403
SaqAI TTAA 5 cut(s) 54, 152, 536, 588, 795
Sau3AI GATC 2 cut(s) 496, 571
Sau96I GGNCC 1 cut(s) 799
SchI GAGTC 2 cut(s) 400, 512
ScrFI CCNGG 1 cut(s) 564
SetI ASST 9 cut(s) 380, 415, 472, 514, 733, 745, 787, 804, 813
SgrAI CRCCGGYG 1 cut(s) 323
SinI GGWCC 1 cut(s) 799
SmlI CTYRAG 2 cut(s) 53, 452
SmoI CTYRAG 2 cut(s) 53, 452
Sse9I AATT 6 cut(s) 95, 107, 149, 707, 769, 789
SsiI CCGC 7 cut(s) 216, 311, 318, 327, 448, 662, 697
SspMI CTAG 1 cut(s) 270
StyD4I CCNGG 1 cut(s) 562
StyI CCWWGG 1 cut(s) 831
TaaI ACNGT 3 cut(s) 171, 344, 750
TaqI TCGA 7 cut(s) 140, 226, 404, 506, 570, 574, 804
TaqII GACCGA 1 cut(s) 117
TasI AATT 6 cut(s) 95, 107, 149, 707, 769, 789
TfiI GAWTC 1 cut(s) 652
Tru1I TTAA 5 cut(s) 54, 152, 536, 588, 795
Tru9I TTAA 5 cut(s) 54, 152, 536, 588, 795
TseFI GTSAC 2 cut(s) 113, 329
Tsp45I GTSAC 2 cut(s) 113, 329
TspDTI ATGAA 4 cut(s) 17, 45, 593, 855
Vha464I CTTAAG 1 cut(s) 53
VpaK11BI GGWCC 1 cut(s) 799
VspI ATTAAT 2 cut(s) 152, 536
XagI CCTNNNNNAGG 1 cut(s) 806
XapI RAATTY 2 cut(s) 95, 769
XbaI TCTAGA 1 cut(s) 269
XceI RCATGY 1 cut(s) 703
XmiI GTMKAC 1 cut(s) 404
XspI CTAG 1 cut(s) 270
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.