MD12G1205700.v1.1

Homeobox protein knotted-1-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr12
OG0013693
Physical Location & Seq
Forward (+)
28622790 .. 28626473
3684 bp
Loading structure...
UTR
Exon/CDS
Intron
MD12G1205700.v1.1.491

Sequence Viewer

Length: 990 bp
ATGGAGGATTTTCACAGGATGAACGCAGGTGTGATATCTGCAGGCTCAGATGATCATGTGAACGTTCATCAGCAAGTTGAAAATATGGCTACTAGTACTAGCAGCGCCAATTGTGGTGGGTTTCATGGCAGTGGTCATGTGGTGGATGATCATAACATGCTGTTATTTGCGACGGAGGGTTTGGGATCCGATCATATGTCTGATCTGATAAAGTCCCAGATAGCCAGTCATCCTCGTTTCCCTGATTTAGTTGCTGCATACCTTGAATGCCAAAAGGTTGGAGCACCAGCGGAGATGAAAAATCTGCTTGAAGAAATTGGAAGGGTAAGCCACCCCATGAGCACTTGCAGTGAGATAGGAGCTGATCCAGAACTTGACGAGTTCATGGAATCATATATTGAGGTTCTCCATAGATACAAGGAGGAGCTATCTAAACCATTCGATGAAGCAACCACATTCTTGACCAACATTCAAACTCAACTTAGCAACCTCTGTAAAGGGACATTCTCAAAAACCTGGGACTATCACTCTGATGAAGGGGTCGGCAGTTCAGAGGAGGAACTTAGCTGTGGGGAGGTGGAAGCAGCAGAGGGTCAAGACACTGGTGGTGCTCGTTCTAGTGGTGATCGGGAACTGAAAGATATGCTGCTGAATAAGTACAGTGGCTACCTTAGCAGTTTGAGGAAGGAGTTCTTAAAGAAAAGAAAGAAAGGGAAACTACCAAAGGATGCCAGGAGTACCCTATCGGACTGGTGGATTACTCACTATAGGTGGCCATATCCTACGGAAGAGGAGAAACTCCAGCTGTCTGAGATGACTGGATTGGACCAAAAGCAGATTAACAACTGGTTCATAAACCAGAGGAAGAGGCATTGGAAACCATCTGAGGACATGAGGTTTGCTCTCAAGGAAGGCGTCGGCGGGAGCATCGGAGGACCTATGATGTTTGACACTGGTGTTGGAACTGGAAATATTCACGATGATATGTGA
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
ELK Homeobox_KN KNOX1 KNOX2

Protein Analysis

330

Amino Acids

36.82

Weight (kDa)

5.14

Isoelectric Point (pI)

41.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
KNOX1 PF03790 70 - 110 1.4e-17 KNOX1 domain
KNOX2 PF03791 118 - 165 2.7e-24 KNOX2 domain
ELK PF03789 211 - 232 2.2e-10 ELK domain
Homeobox_KN PF05920 251 - 290 1.1e-18 Homeobox KN domain
Homeodomain PF00046 259 - 291 6.9e-07 Homeodomain
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: OG0013693)

Species Orthologous Gene IDs
fragaria_vesca FvH4_6g07460 FvH4_6g07460 FvH4_6g07460
malus_domestica MD04G1215500.v1.1 MD12G1205700.v1.1
prunus_persica Prupe.6G312900_v2.0.a1
pyrus_communis pycom04g17070 pycom12g19370
rosa_chinensis RchiOBHm_Chr3g0457121
rosa_laevigata RLG00000025247
rosa_multiflora Rmu_sc0000488.1_g000009
rosa_roxburghii Rroxscaffold_6G00422170
rosa_rugosa Rorug03G0018800
rosa_samantha Rh3AG078700 Rh3BG080500 Rh3CG080500 Rh3DG082300
rosa_wichuraiana Rw3G006760

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 17
Acc36I ACCTGC 1 cut(s) 17
AciI CCGC 2 cut(s) 290, 921
AclI AACGTT 1 cut(s) 63
AclWI GGATC 3 cut(s) 180, 193, 359
AcoI YGGCCR 1 cut(s) 773
AcyI GRCGYC 1 cut(s) 915
AfaI GTAC 3 cut(s) 97, 659, 739
AgsI TTSAA 4 cut(s) 80, 266, 311, 473
AhlI ACTAGT 1 cut(s) 92
AjnI CCWGG 2 cut(s) 515, 731
AluBI AGCT 4 cut(s) 362, 427, 567, 805
AluI AGCT 4 cut(s) 362, 427, 567, 805
Alw21I GWGCWC 3 cut(s) 286, 344, 613
AlwI GGATC 3 cut(s) 180, 193, 359
AoxI GGCC 1 cut(s) 773
ApeKI GCWGC 4 cut(s) 102, 254, 584, 646
ArsI GACNNNNNNTTYG 4 cut(s) 163, 195, 881, 913
Asp700I GAANNNNTTC 1 cut(s) 689
AspLEI GCGC 1 cut(s) 107
AspS9I GGNCC 2 cut(s) 826, 935
AsuHPI GGTGA 1 cut(s) 635
AvaII GGWCC 2 cut(s) 826, 935
BalI TGGCCA 1 cut(s) 775
BamHI GGATCC 1 cut(s) 185
Bbv12I GWGCWC 3 cut(s) 286, 344, 613
BbvI GCAGC 4 cut(s) 114, 241, 596, 633
BccI CCATC 1 cut(s) 889
BciT130I CCWGG 2 cut(s) 517, 733
BclI TGATCA 2 cut(s) 52, 148
BcuI ACTAGT 1 cut(s) 92
BfaI CTAG 3 cut(s) 93, 99, 618
BfmI CTRYAG 2 cut(s) 39, 766
BfoI RGCGCY 1 cut(s) 108
BfuAI ACCTGC 1 cut(s) 17
BisI GCNGC 4 cut(s) 103, 255, 585, 647
BlsI GCNGC 4 cut(s) 104, 256, 586, 648
BmcAI AGTACT 1 cut(s) 97
Bme1390I CCNGG 2 cut(s) 517, 733
Bme18I GGWCC 2 cut(s) 826, 935
BmgT120I GGNCC 2 cut(s) 826, 935
BmiI GGNNCC 1 cut(s) 187
BmrFI CCNGG 2 cut(s) 517, 733
BmsI GCATC 2 cut(s) 718, 936
BplI GAGNNNNNCTC 2 cut(s) 886, 918
BpmI CTGGAG 1 cut(s) 785
Bpu10I CCTNAGC 1 cut(s) 671
BpuEI CTTGAG 1 cut(s) 890
BsaHI GRCGYC 1 cut(s) 915
BsaJI CCNNGG 1 cut(s) 516
Bse1I ACTGG 7 cut(s) 225, 607, 755, 823, 851, 958, 970
BseBI CCWGG 2 cut(s) 517, 733
BseDI CCNNGG 1 cut(s) 516
BseGI GGATG 4 cut(s) 24, 151, 229, 733
BseMII CTCAG 3 cut(s) 60, 801, 876
BseNI ACTGG 7 cut(s) 225, 607, 755, 823, 851, 958, 970
BseRI GAGGAG 3 cut(s) 437, 569, 806
BseXI GCAGC 4 cut(s) 114, 241, 596, 633
BshFI GGCC 1 cut(s) 775
BsiHKAI GWGCWC 3 cut(s) 286, 344, 613
BslFI GGGAC 3 cut(s) 199, 514, 533
BsmFI GGGAC 3 cut(s) 199, 514, 533
BsmI GAATGC 1 cut(s) 272
BsnI GGCC 1 cut(s) 775
Bsp1286I GDGCHC 3 cut(s) 286, 344, 613
Bsp143I GATC 7 cut(s) 52, 148, 185, 190, 202, 364, 625
BspACI CCGC 2 cut(s) 290, 921
BspANI GGCC 1 cut(s) 775
BspCNI CTCAG 3 cut(s) 59, 802, 877
BspLI GGNNCC 1 cut(s) 187
BspMAI CTGCAG 1 cut(s) 43
BspMI ACCTGC 1 cut(s) 17
BspPI GGATC 3 cut(s) 180, 193, 359
BsrI ACTGG 7 cut(s) 225, 607, 755, 823, 851, 958, 970
BssECI CCNNGG 1 cut(s) 516
BssMI GATC 7 cut(s) 52, 148, 185, 190, 202, 364, 625
BssNI GRCGYC 1 cut(s) 915
Bst2UI CCWGG 2 cut(s) 517, 733
Bst4CI ACNGT 1 cut(s) 662
Bst6I CTCTTC 2 cut(s) 783, 860
BstACI GRCGYC 1 cut(s) 915
BstC8I GCNNGC 1 cut(s) 43
BstDEI CTNAG 6 cut(s) 46, 482, 563, 671, 810, 885
BstF5I GGATG 4 cut(s) 24, 151, 229, 733
BstH2I RGCGCY 1 cut(s) 108
BstHHI GCGC 1 cut(s) 107
BstKTI GATC 7 cut(s) 55, 151, 188, 193, 205, 367, 628
BstMBI GATC 7 cut(s) 52, 148, 185, 190, 202, 364, 625
BstMWI GCNNNNNNNGC 1 cut(s) 672
BstNI CCWGG 2 cut(s) 517, 733
BstNSI RCATGY 1 cut(s) 160
BstSCI CCNGG 2 cut(s) 515, 731
BstSFI CTRYAG 2 cut(s) 39, 766
BstV1I GCAGC 4 cut(s) 114, 241, 596, 633
BstX2I RGATCY 1 cut(s) 185
BstXI CCANNNNNNTGG 1 cut(s) 278
BstYI RGATCY 1 cut(s) 185
BsuRI GGCC 1 cut(s) 775
BtsCI GGATG 4 cut(s) 24, 151, 229, 733
BtsI GCAGTG 2 cut(s) 136, 355
BtsIMutI CAGTG 5 cut(s) 136, 355, 600, 667, 951
BveI ACCTGC 1 cut(s) 17
Cac8I GCNNGC 1 cut(s) 43
CfoI GCGC 1 cut(s) 107
Cfr13I GGNCC 2 cut(s) 826, 935
CseI GACGC 1 cut(s) 904
Csp6I GTAC 3 cut(s) 96, 658, 738
CspCI CAANNNNNGTGG 2 cut(s) 97, 132
CviAII CATG 7 cut(s) 56, 125, 137, 157, 337, 385, 892
CviQI GTAC 3 cut(s) 96, 658, 738
DdeI CTNAG 6 cut(s) 46, 482, 563, 671, 810, 885
DpnI GATC 7 cut(s) 54, 150, 187, 192, 204, 366, 627
DpnII GATC 7 cut(s) 52, 148, 185, 190, 202, 364, 625
EaeI YGGCCR 1 cut(s) 773
Eam1104I CTCTTC 2 cut(s) 783, 860
EarI CTCTTC 2 cut(s) 783, 860
Eco32I GATATC 1 cut(s) 36
Eco47I GGWCC 2 cut(s) 826, 935
EcoO109I RGGNCCY 1 cut(s) 935
EcoRII CCWGG 2 cut(s) 515, 731
EcoRV GATATC 1 cut(s) 36
FaeI CATG 7 cut(s) 59, 128, 140, 160, 340, 388, 895
FalI AAGNNNNNCTT 2 cut(s) 677, 709
FaqI GGGAC 3 cut(s) 199, 514, 533
FatI CATG 7 cut(s) 55, 124, 136, 156, 336, 384, 891
FauI CCCGC 1 cut(s) 914
FauNDI CATATG 1 cut(s) 195
FbaI TGATCA 2 cut(s) 52, 148
Fnu4HI GCNGC 4 cut(s) 103, 255, 585, 647
FokI GGATG 4 cut(s) 31, 158, 216, 740
Fsp4HI GCNGC 4 cut(s) 103, 255, 585, 647
FspBI CTAG 3 cut(s) 93, 99, 618
GlaI GCGC 1 cut(s) 106
GluI GCNGC 4 cut(s) 103, 255, 585, 647
GsuI CTGGAG 1 cut(s) 785
HaeII RGCGCY 1 cut(s) 108
HaeIII GGCC 1 cut(s) 775
HgaI GACGC 1 cut(s) 904
HhaI GCGC 1 cut(s) 107
Hin1I GRCGYC 1 cut(s) 915
Hin1II CATG 7 cut(s) 59, 128, 140, 160, 340, 388, 895
Hin6I GCGC 1 cut(s) 105
HinP1I GCGC 1 cut(s) 105
HinfI GANTC 1 cut(s) 389
HphI GGTGA 1 cut(s) 635
Hpy166II GTNNAC 1 cut(s) 61
Hpy188III TCNNGA 5 cut(s) 368, 460, 596, 629, 977
Hpy8I GTNNAC 1 cut(s) 61
Hpy99I CGWCG 2 cut(s) 175, 920
HpyAV CCTTC 4 cut(s) 315, 530, 679, 905
HpyCH4III ACNGT 1 cut(s) 662
HpyCH4IV ACGT 1 cut(s) 63
HpyCH4V TGCA 3 cut(s) 41, 257, 348
HpyF10VI GCNNNNNNNGC 1 cut(s) 672
HpyF3I CTNAG 6 cut(s) 46, 482, 563, 671, 810, 885
HpySE526I ACGT 1 cut(s) 63
Hsp92I GRCGYC 1 cut(s) 915
Hsp92II CATG 7 cut(s) 59, 128, 140, 160, 340, 388, 895
HspAI GCGC 1 cut(s) 105
Ksp22I TGATCA 2 cut(s) 52, 148
Kzo9I GATC 7 cut(s) 52, 148, 185, 190, 202, 364, 625
LmnI GCTCC 4 cut(s) 281, 359, 424, 924
Lsp1109I GCAGC 4 cut(s) 114, 241, 596, 633
LweI GCATC 2 cut(s) 718, 936
MaeI CTAG 3 cut(s) 93, 99, 618
MaeII ACGT 1 cut(s) 63
MalI GATC 7 cut(s) 54, 150, 187, 192, 204, 366, 627
MboI GATC 7 cut(s) 52, 148, 185, 190, 202, 364, 625
MboII GAAGA 3 cut(s) 323, 800, 877
MfeI CAATTG 1 cut(s) 109
MflI RGATCY 1 cut(s) 185
MhlI GDGCHC 3 cut(s) 286, 344, 613
MlsI TGGCCA 1 cut(s) 775
MluCI AATT 2 cut(s) 109, 315
MluNI TGGCCA 1 cut(s) 775
MmeI TCCRAC 2 cut(s) 259, 940
Mox20I TGGCCA 1 cut(s) 775
MroXI GAANNNNTTC 1 cut(s) 689
MscI TGGCCA 1 cut(s) 775
MseI TTAA 2 cut(s) 695, 840
MslI CAYNNNNRTG 2 cut(s) 129, 531
Msp20I TGGCCA 1 cut(s) 775
MspA1I CMGCKG 2 cut(s) 290, 805
MspR9I CCNGG 2 cut(s) 517, 733
MunI CAATTG 1 cut(s) 109
Mva1269I GAATGC 1 cut(s) 272
MvaI CCWGG 2 cut(s) 517, 733
MwoI GCNNNNNNNGC 1 cut(s) 672
NdeI CATATG 1 cut(s) 195
NdeII GATC 7 cut(s) 52, 148, 185, 190, 202, 364, 625
NlaIII CATG 7 cut(s) 59, 128, 140, 160, 340, 388, 895
NlaIV GGNNCC 1 cut(s) 187
NspI RCATGY 1 cut(s) 160
PaqCI CACCTGC 1 cut(s) 17
PctI GAATGC 1 cut(s) 272
PdmI GAANNNNTTC 1 cut(s) 689
PfeI GAWTC 1 cut(s) 389
PkrI GCNGC 4 cut(s) 104, 256, 586, 648
PpuMI RGGWCCY 1 cut(s) 935
Psp1406I AACGTT 1 cut(s) 63
Psp5II RGGWCCY 1 cut(s) 935
Psp6I CCWGG 2 cut(s) 515, 731
PspGI CCWGG 2 cut(s) 515, 731
PspN4I GGNNCC 1 cut(s) 187
PspPI GGNCC 2 cut(s) 826, 935
PspPPI RGGWCCY 1 cut(s) 935
PstI CTGCAG 1 cut(s) 43
PsuI RGATCY 1 cut(s) 185
PvuII CAGCTG 1 cut(s) 805
RsaI GTAC 3 cut(s) 97, 659, 739
RsaNI GTAC 3 cut(s) 96, 658, 738
RseI CAYNNNNRTG 2 cut(s) 129, 531
SaqAI TTAA 2 cut(s) 695, 840
SatI GCNGC 4 cut(s) 103, 255, 585, 647
Sau3AI GATC 7 cut(s) 52, 148, 185, 190, 202, 364, 625
Sau96I GGNCC 2 cut(s) 826, 935
ScaI AGTACT 1 cut(s) 97
ScrFI CCNGG 2 cut(s) 517, 733
SduI GDGCHC 3 cut(s) 286, 344, 613
SfaNI GCATC 2 cut(s) 718, 936
SfcI CTRYAG 2 cut(s) 39, 766
SinI GGWCC 2 cut(s) 826, 935
SmiMI CAYNNNNRTG 2 cut(s) 129, 531
SmlI CTYRAG 1 cut(s) 905
SmoI CTYRAG 1 cut(s) 905
SpeI ACTAGT 1 cut(s) 92
Sse9I AATT 2 cut(s) 109, 315
SsiI CCGC 2 cut(s) 290, 921
SspI AATATT 1 cut(s) 973
SspMI CTAG 3 cut(s) 93, 99, 618
StyD4I CCNGG 2 cut(s) 515, 731
TaaI ACNGT 1 cut(s) 662
TaiI ACGT 1 cut(s) 66
TaqI TCGA 1 cut(s) 441
TasI AATT 2 cut(s) 109, 315
TatI WGTACW 2 cut(s) 95, 657
TfiI GAWTC 1 cut(s) 389
Tru1I TTAA 2 cut(s) 695, 840
Tru9I TTAA 2 cut(s) 695, 840
TscAI CASTG 5 cut(s) 136, 355, 607, 667, 958
TseI GCWGC 4 cut(s) 102, 254, 584, 646
TspDTI ATGAA 8 cut(s) 35, 56, 113, 311, 373, 459, 549, 841
TspGWI ACGGA 2 cut(s) 188, 800
TspRI CASTG 5 cut(s) 136, 355, 607, 667, 958
VpaK11BI GGWCC 2 cut(s) 826, 935
XceI RCATGY 1 cut(s) 160
XmnI GAANNNNTTC 1 cut(s) 689
XspI CTAG 3 cut(s) 93, 99, 618
ZrmI AGTACT 1 cut(s) 97
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.