MD01G1107600.v1.1

Belongs to the NPH3 family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr01
OG0014617
Physical Location & Seq
Reverse (-)
22035713 .. 22037890
2178 bp
Loading structure...
UTR
Exon/CDS
Intron
MD01G1107600.v1.1.491

Sequence Viewer

Length: 963 bp
ATGTCATTTGTAGTCACCTCTTCCTCCATTGCCACCTCCTCGTACTTTAACCGCCATAGCGTTTCTAAATTAAAATCCTGTGAGAATACTACGAAACATTCATGTGTTCCGTTTGTTCATTGCAAAAGCTCATTTTGCATTACAGAAAATATCCCTACAACTTCGACAAGAAACCCAAATGGCATTTTGAGGTCTACTGTAATGAGCTGCACAAAGCCTGATTATCAGTCTTTTGCTGGAGAAGACGCGGTTTTTCTTGACTTGGGGGATAATGAAGACACAGAGTCGCCCTGGGAAGGGGCAGTAATTTACAAGAGAAACGCTTCGATATCACATGTTGAGTATTGCACAACGTTGGAGAGGCTTGGATTGGAGAACCTTTCAACAGAGGTCTCGAAATCTAGGGCTTCAGTTATGGGATTACGGGTCACCAAAGCTGTGAAGGATTATCCACAGGGCACACCGGTTCAGATCTCCATTGACATAACTAGGAAGAAGCAAAAGCTGAGGCTTGATGGGATCATTAAAACTGTTATCACGCTGACTTGCAGCAGGTGTGGAGAGCCAGCGGCGGAGTGCATTTTCTCCAACTTCGCCCTTCTCCTAACTGATGAACCCATTGAAGAACCTGATATCATCAATCTGGGAGTGATGTATGGGGACAATTCCAAAACTTATACCGAATTTGCTGACCAAGAGGAGGAAGATGATGAAGCCGCAATTGACTTCGAGGATCAGCTGTATTTTCGCCCCGATGAAAAAGAAATAGACATTTCAAAGCACATAAGAGACGCCGTGCATCTGGAGATTACAATCGCGGCAGTATGTGATCCGAGTTGCAAGGGTTTGTGTCTCGGTTGTGGTAGGAATTTGAACACTAGCAGTTGTACTTGCAGTAAAAAGGATGTAAAGAAGGGTCTTGGACCTCTTGGAAACTTAAAGAAGCAAATGCAGCAAAAATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0016020
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
BTB NPH3

Protein Analysis

321

Amino Acids

35.4

Weight (kDa)

5.41

Isoelectric Point (pI)

51.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
YceD PF02620 225 - 314 2.6e-16 Large ribosomal RNA subunit accumulation protein YceD
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: OG0014617)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G19810 AT3G19810
fragaria_vesca FvH4_7g19250
malus_domestica MD01G1107600.v1.1
prunus_persica Prupe.2G212300_v2.0.a1
pyrus_communis pycom01g13450
rosa_chinensis RchiOBHm_Chr1g0363071
rosa_laevigata RLG00000027596
rosa_multiflora Rmu_sc0014047.1_g000001
rosa_roxburghii Rroxscaffold_4G00293490
rosa_rugosa Rorug01G0304300 Rorug01G0304400
rosa_samantha Rh1AG313400 Rh1BG276500 Rh1CG293300 Rh1DG307200
rosa_wichuraiana Rw1G027760

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 543
Acc36I ACCTGC 1 cut(s) 543
AccI GTMKAC 1 cut(s) 194
AccII CGCG 2 cut(s) 248, 818
AciI CCGC 6 cut(s) 52, 248, 569, 572, 717, 818
AclI AACGTT 1 cut(s) 353
AclWI GGATC 3 cut(s) 527, 741, 824
AcsI RAATTY 2 cut(s) 683, 868
AcuI CTGAAG 1 cut(s) 393
AcyI GRCGYC 1 cut(s) 792
AfaI GTAC 2 cut(s) 44, 889
AfiI CCNNNNNNNGG 3 cut(s) 296, 297, 700
AflIII ACRYGT 1 cut(s) 334
AgeI ACCGGT 1 cut(s) 463
AgsI TTSAA 4 cut(s) 384, 623, 777, 874
AhdI GACNNNNNGTC 1 cut(s) 283
AjnI CCWGG 1 cut(s) 290
AluBI AGCT 5 cut(s) 129, 207, 437, 505, 739
AluI AGCT 5 cut(s) 129, 207, 437, 505, 739
Alw26I GTCTC 3 cut(s) 397, 783, 857
AlwI GGATC 3 cut(s) 527, 741, 824
ApeKI GCWGC 3 cut(s) 207, 549, 952
ApoI RAATTY 2 cut(s) 683, 868
AsiGI ACCGGT 1 cut(s) 463
Asp700I GAANNNNTTC 1 cut(s) 322
AspS9I GGNCC 1 cut(s) 923
AsuHPI GGTGA 2 cut(s) 7, 421
AvaII GGWCC 1 cut(s) 923
BaeGI GKGCMC 1 cut(s) 461
BbsI GAAGAC 2 cut(s) 249, 282
BbvCI CCTCAGC 1 cut(s) 506
BbvI GCAGC 2 cut(s) 194, 561
BccI CCATC 1 cut(s) 509
BceAI ACGGC 1 cut(s) 779
BciT130I CCWGG 1 cut(s) 292
BcoDI GTCTC 3 cut(s) 397, 783, 857
BfaI CTAG 3 cut(s) 402, 489, 879
BfuAI ACCTGC 1 cut(s) 543
BglII AGATCT 1 cut(s) 471
BisI GCNGC 6 cut(s) 208, 550, 570, 717, 819, 953
BlsI GCNGC 6 cut(s) 209, 551, 571, 718, 820, 954
Bme1390I CCNGG 1 cut(s) 292
Bme18I GGWCC 1 cut(s) 923
BmeRI GACNNNNNGTC 1 cut(s) 283
BmgT120I GGNCC 1 cut(s) 923
BmrFI CCNGG 1 cut(s) 292
BmsI GCATC 1 cut(s) 808
BpiI GAAGAC 2 cut(s) 249, 282
BpmI CTGGAG 2 cut(s) 258, 824
Bpu10I CCTNAGC 1 cut(s) 506
BsaBI GATNNNNATC 1 cut(s) 812
BsaHI GRCGYC 1 cut(s) 792
BsaI GGTCTC 1 cut(s) 397
BsaJI CCNNGG 2 cut(s) 290, 291
BsaWI WCCGGW 1 cut(s) 463
Bsc4I CCNNNNNNNGG 3 cut(s) 296, 297, 700
Bse118I RCCGGY 1 cut(s) 463
Bse3DI GCAATG 2 cut(s) 27, 118
Bse8I GATNNNNATC 1 cut(s) 812
BseBI CCWGG 1 cut(s) 292
BseDI CCNNGG 2 cut(s) 290, 291
BseGI GGATG 1 cut(s) 910
BseJI GATNNNNATC 1 cut(s) 812
BseLI CCNNNNNNNGG 3 cut(s) 296, 297, 700
BseMI GCAATG 2 cut(s) 27, 118
BseMII CTCAG 1 cut(s) 497
BseRI GAGGAG 2 cut(s) 28, 713
BseSI GKGCMC 1 cut(s) 461
BseXI GCAGC 2 cut(s) 194, 561
BsgI GTGCAG 1 cut(s) 193
Bsh1236I CGCG 2 cut(s) 248, 818
BshTI ACCGGT 1 cut(s) 463
BsiSI CCGG 1 cut(s) 464
BslFI GGGAC 1 cut(s) 674
BslI CCNNNNNNNGG 3 cut(s) 296, 297, 700
BsmAI GTCTC 3 cut(s) 397, 783, 857
BsmBI CGTCTC 1 cut(s) 783
BsmFI GGGAC 1 cut(s) 674
Bso31I GGTCTC 1 cut(s) 397
Bsp1286I GDGCHC 1 cut(s) 461
Bsp143I GATC 4 cut(s) 471, 519, 733, 829
BspACI CCGC 6 cut(s) 52, 248, 569, 572, 717, 818
BspCNI CTCAG 1 cut(s) 498
BspFNI CGCG 2 cut(s) 248, 818
BspMI ACCTGC 1 cut(s) 543
BspPI GGATC 3 cut(s) 527, 741, 824
BspTNI GGTCTC 1 cut(s) 397
BsrDI GCAATG 2 cut(s) 27, 118
BsrFI RCCGGY 1 cut(s) 463
BssAI RCCGGY 1 cut(s) 463
BssECI CCNNGG 2 cut(s) 290, 291
BssMI GATC 4 cut(s) 471, 519, 733, 829
BssNI GRCGYC 1 cut(s) 792
Bst2UI CCWGG 1 cut(s) 292
Bst4CI ACNGT 2 cut(s) 199, 532
Bst6I CTCTTC 1 cut(s) 25
BstACI GRCGYC 1 cut(s) 792
BstC8I GCNNGC 1 cut(s) 567
BstDEI CTNAG 1 cut(s) 506
BstEII GGTNACC 1 cut(s) 427
BstF5I GGATG 1 cut(s) 910
BstFNI CGCG 2 cut(s) 248, 818
BstKTI GATC 4 cut(s) 474, 522, 736, 832
BstMAI GTCTC 3 cut(s) 397, 783, 857
BstMBI GATC 4 cut(s) 471, 519, 733, 829
BstMWI GCNNNNNNNGC 2 cut(s) 135, 952
BstNI CCWGG 1 cut(s) 292
BstNSI RCATGY 1 cut(s) 338
BstPI GGTNACC 1 cut(s) 427
BstSCI CCNGG 1 cut(s) 290
BstSLI GKGCMC 1 cut(s) 461
BstUI CGCG 2 cut(s) 248, 818
BstV1I GCAGC 2 cut(s) 194, 561
BstV2I GAAGAC 2 cut(s) 249, 282
BstX2I RGATCY 1 cut(s) 471
BstYI RGATCY 1 cut(s) 471
BtsCI GGATG 1 cut(s) 910
BveI ACCTGC 1 cut(s) 543
Cac8I GCNNGC 1 cut(s) 567
Cfr10I RCCGGY 1 cut(s) 463
Cfr13I GGNCC 1 cut(s) 923
CseI GACGC 2 cut(s) 254, 800
Csp6I GTAC 2 cut(s) 43, 888
CspAI ACCGGT 1 cut(s) 463
CviAII CATG 2 cut(s) 102, 335
CviQI GTAC 2 cut(s) 43, 888
DdeI CTNAG 1 cut(s) 506
DpnI GATC 4 cut(s) 473, 521, 735, 831
DpnII GATC 4 cut(s) 471, 519, 733, 829
DriI GACNNNNNGTC 1 cut(s) 283
Eam1104I CTCTTC 1 cut(s) 25
Eam1105I GACNNNNNGTC 1 cut(s) 283
EarI CTCTTC 1 cut(s) 25
EciI GGCGGA 1 cut(s) 587
Eco31I GGTCTC 1 cut(s) 397
Eco32I GATATC 2 cut(s) 330, 634
Eco47I GGWCC 1 cut(s) 923
Eco57I CTGAAG 1 cut(s) 393
Eco91I GGTNACC 1 cut(s) 427
EcoO65I GGTNACC 1 cut(s) 427
EcoRII CCWGG 1 cut(s) 290
EcoRV GATATC 2 cut(s) 330, 634
Esp3I CGTCTC 1 cut(s) 783
FaeI CATG 2 cut(s) 105, 338
FaiI YATR 9 cut(s) 57, 103, 336, 416, 485, 657, 678, 785, 826
FaqI GGGAC 1 cut(s) 674
FatI CATG 2 cut(s) 101, 334
FblI GTMKAC 1 cut(s) 194
Fnu4HI GCNGC 6 cut(s) 208, 550, 570, 717, 819, 953
FokI GGATG 1 cut(s) 917
Fsp4HI GCNGC 6 cut(s) 208, 550, 570, 717, 819, 953
FspBI CTAG 3 cut(s) 402, 489, 879
GluI GCNGC 6 cut(s) 208, 550, 570, 717, 819, 953
GsuI CTGGAG 2 cut(s) 258, 824
HapII CCGG 1 cut(s) 464
HgaI GACGC 2 cut(s) 254, 800
Hin1I GRCGYC 1 cut(s) 792
Hin1II CATG 2 cut(s) 105, 338
HinfI GANTC 1 cut(s) 284
HpaII CCGG 1 cut(s) 464
HphI GGTGA 2 cut(s) 7, 421
Hpy166II GTNNAC 1 cut(s) 195
Hpy188I TCNGA 2 cut(s) 471, 834
Hpy188III TCNNGA 3 cut(s) 257, 394, 803
Hpy8I GTNNAC 1 cut(s) 195
HpyAV CCTTC 4 cut(s) 290, 436, 608, 907
HpyCH4III ACNGT 2 cut(s) 199, 532
HpyCH4IV ACGT 1 cut(s) 353
HpyF10VI GCNNNNNNNGC 2 cut(s) 135, 952
HpyF3I CTNAG 1 cut(s) 506
HpySE526I ACGT 1 cut(s) 353
Hsp92I GRCGYC 1 cut(s) 792
Hsp92II CATG 2 cut(s) 105, 338
Kzo9I GATC 4 cut(s) 471, 519, 733, 829
Lsp1109I GCAGC 2 cut(s) 194, 561
LweI GCATC 1 cut(s) 808
MaeI CTAG 3 cut(s) 402, 489, 879
MaeII ACGT 1 cut(s) 353
MaeIII GTNAC 2 cut(s) 13, 427
MalI GATC 4 cut(s) 473, 521, 735, 831
MboI GATC 4 cut(s) 471, 519, 733, 829
MboII GAAGA 6 cut(s) 12, 254, 287, 505, 635, 716
MfeI CAATTG 1 cut(s) 720
MflI RGATCY 1 cut(s) 471
MhlI GDGCHC 1 cut(s) 461
MluCI AATT 6 cut(s) 68, 306, 664, 683, 720, 868
MlyI GAGTC 1 cut(s) 293
MmeI TCCRAC 2 cut(s) 336, 612
MroXI GAANNNNTTC 1 cut(s) 322
MseI TTAA 4 cut(s) 48, 71, 525, 938
MslI CAYNNNNRTG 1 cut(s) 102
MspA1I CMGCKG 2 cut(s) 569, 739
MspI CCGG 1 cut(s) 464
MspR9I CCNGG 1 cut(s) 292
MunI CAATTG 1 cut(s) 720
MvaI CCWGG 1 cut(s) 292
MvnI CGCG 2 cut(s) 248, 818
MwoI GCNNNNNNNGC 2 cut(s) 135, 952
NdeII GATC 4 cut(s) 471, 519, 733, 829
NlaIII CATG 2 cut(s) 105, 338
NmuCI GTSAC 2 cut(s) 13, 427
NspI RCATGY 1 cut(s) 338
PaqCI CACCTGC 1 cut(s) 543
PasI CCCWGGG 1 cut(s) 291
PciI ACATGT 1 cut(s) 334
PdmI GAANNNNTTC 1 cut(s) 322
PinAI ACCGGT 1 cut(s) 463
PkrI GCNGC 6 cut(s) 209, 551, 571, 718, 820, 954
PleI GAGTC 1 cut(s) 292
PpsI GAGTC 1 cut(s) 292
PscI ACATGT 1 cut(s) 334
Psp1406I AACGTT 1 cut(s) 353
Psp6I CCWGG 1 cut(s) 290
PspEI GGTNACC 1 cut(s) 427
PspGI CCWGG 1 cut(s) 290
PspPI GGNCC 1 cut(s) 923
PsuI RGATCY 1 cut(s) 471
PvuII CAGCTG 1 cut(s) 739
RsaI GTAC 2 cut(s) 44, 889
RsaNI GTAC 2 cut(s) 43, 888
RseI CAYNNNNRTG 1 cut(s) 102
SaqAI TTAA 4 cut(s) 48, 71, 525, 938
SatI GCNGC 6 cut(s) 208, 550, 570, 717, 819, 953
Sau3AI GATC 4 cut(s) 471, 519, 733, 829
Sau96I GGNCC 1 cut(s) 923
SchI GAGTC 1 cut(s) 293
ScrFI CCNGG 1 cut(s) 292
SduI GDGCHC 1 cut(s) 461
SfaNI GCATC 1 cut(s) 808
SinI GGWCC 1 cut(s) 923
SmiMI CAYNNNNRTG 1 cut(s) 102
Sse9I AATT 6 cut(s) 68, 306, 664, 683, 720, 868
SsiI CCGC 6 cut(s) 52, 248, 569, 572, 717, 818
SspMI CTAG 3 cut(s) 402, 489, 879
StyD4I CCNGG 1 cut(s) 290
TaaI ACNGT 2 cut(s) 199, 532
TaiI ACGT 1 cut(s) 356
TaqI TCGA 4 cut(s) 164, 326, 395, 729
TasI AATT 6 cut(s) 68, 306, 664, 683, 720, 868
TatI WGTACW 1 cut(s) 887
TauI GCSGC 3 cut(s) 572, 719, 821
Tru1I TTAA 4 cut(s) 48, 71, 525, 938
Tru9I TTAA 4 cut(s) 48, 71, 525, 938
TseFI GTSAC 2 cut(s) 13, 427
TseI GCWGC 3 cut(s) 207, 549, 952
Tsp45I GTSAC 2 cut(s) 13, 427
TspDTI ATGAA 6 cut(s) 90, 107, 288, 627, 726, 771
TspGWI ACGGA 1 cut(s) 99
VpaK11BI GGWCC 1 cut(s) 923
XapI RAATTY 2 cut(s) 683, 868
XceI RCATGY 1 cut(s) 338
XmiI GTMKAC 1 cut(s) 194
XmnI GAANNNNTTC 1 cut(s) 322
XspI CTAG 3 cut(s) 402, 489, 879
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.