MD04G1215500.v1.1

Homeobox protein knotted-1-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr04
OG0013693
Physical Location & Seq
Forward (+)
29846452 .. 29851256
4805 bp
Loading structure...
UTR
Exon/CDS
Intron
MD04G1215500.v1.1.491

Sequence Viewer

Length: 993 bp
ATGGAGGAATTTTACAGGATGATCGCAGGTGTGACATCTGCATGCTCAGATGATCATGTGAATGTTCATCAGCAAGTTGAAAATATGTCTACTAGTACTAGCAGCGCCAGTTGTGGTGGGTTTCATGGCGGTGGTCATGTGGTGGATGATCATAACATGCTGTTATTTGGGACGGAGGGTTTAGAATCCGATCATATGTCTGATCTGATCAAGTCCCAGATAGCCAGTCACCCTCGTTTCTCTAATTTAGTTGCTGCATACCTAGAATGGCAAAAGGTTGGAGCACCAGCAGCGGAGATGAAAAATCTGCTTGAAGAAATTGGAAGGGTAAGCCACCCAATGAGCACCTGCGGTGAGATAGGAGCTGATCCAGAACTTGACGAGTTCATGGAATCATATATTGGGGTTCTCCATAGATTCAAGGAGGAGCTATCTAAGCCATTCGATGAAGCAACAACATTCTTGGTCAACATTCAAACTCAACTTAGCAACCTCTGTAAAGGGACATTCCCAAATACCTGGGACAATCACTCTGATGAAGGGGTCGGCGGTTCAGAGGAGGAACTTAGCTGTGGGGAGGTGGAAGCAGCAGAGAGTCAAGAAATCGGTGGTGCTCATTCTAGTGGTGATCGGGAACTGAAAGGTATGCTGCTGAACAAGTACAGTGGCTACCTTAGCAGTTTAAGGAAGGAGTTCTTAAAGAAAAGAAAGAAAGGGAAGCTACCGAAGGATGCCAGGACTACCCTATTGGATTGGTGGACTATTCACTATAGGTGGCCATATCCTACGGAAGAGGAGAAATTGCAGCTGTCTGAGATGACTGGATTGGACCAAAGGCAGATCAACAACTGGTTCATAAACCAGAGGAAGAGACATTGGAAACCATCTGAGGACATGAGGTTTGCTCTCATGGAAGGCGTCGGTGGGAGCATTGGAGGACCTGTGATATTTGACACTGGTTTTGGAACTGGAAATGTTCATGATGGTATGTGA
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

331

Amino Acids

36.83

Weight (kDa)

5.14

Isoelectric Point (pI)

41.83

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
KNOX1 PF03790 70 - 111 1.5e-12 KNOX1 domain
KNOX2 PF03791 119 - 166 9.9e-23 KNOX2 domain
ELK PF03789 212 - 233 8.2e-10 ELK domain
Homeobox_KN PF05920 252 - 291 1.3e-17 Homeobox KN domain
Homeodomain PF00046 260 - 292 4.3e-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 2 cut(s) 17, 356
Acc36I ACCTGC 2 cut(s) 17, 356
AccI GTMKAC 1 cut(s) 89
AciI CCGC 4 cut(s) 129, 293, 351, 549
AclWI GGATC 1 cut(s) 362
AcoI YGGCCR 1 cut(s) 776
AcsI RAATTY 1 cut(s) 8
AcyI GRCGYC 1 cut(s) 918
AfaI GTAC 2 cut(s) 97, 662
AgsI TTSAA 4 cut(s) 80, 314, 421, 476
AhlI ACTAGT 1 cut(s) 92
AjnI CCWGG 2 cut(s) 518, 734
AjuI GAANNNNNNNTTGG 2 cut(s) 384, 416
AluBI AGCT 5 cut(s) 365, 430, 570, 721, 808
AluI AGCT 5 cut(s) 365, 430, 570, 721, 808
Alw21I GWGCWC 3 cut(s) 286, 347, 616
Alw26I GTCTC 1 cut(s) 865
AlwI GGATC 1 cut(s) 362
AoxI GGCC 1 cut(s) 776
ApeKI GCWGC 6 cut(s) 102, 254, 290, 587, 649, 805
ApoI RAATTY 1 cut(s) 8
ArsI GACNNNNNNTTYG 4 cut(s) 884, 916, 944, 976
Asp700I GAANNNNTTC 1 cut(s) 692
AspLEI GCGC 1 cut(s) 107
AspS9I GGNCC 2 cut(s) 829, 938
AsuHPI GGTGA 3 cut(s) 221, 365, 638
AvaII GGWCC 2 cut(s) 829, 938
BalI TGGCCA 1 cut(s) 778
Bbv12I GWGCWC 3 cut(s) 286, 347, 616
BbvI GCAGC 6 cut(s) 114, 241, 302, 599, 636, 817
BccI CCATC 2 cut(s) 892, 977
BciT130I CCWGG 2 cut(s) 520, 736
BclI TGATCA 3 cut(s) 52, 148, 207
BcoDI GTCTC 1 cut(s) 865
BcuI ACTAGT 1 cut(s) 92
BfaI CTAG 4 cut(s) 93, 99, 263, 621
BfmI CTRYAG 1 cut(s) 769
BfoI RGCGCY 1 cut(s) 108
BfuAI ACCTGC 2 cut(s) 17, 356
BisI GCNGC 6 cut(s) 103, 255, 291, 588, 650, 806
BlsI GCNGC 6 cut(s) 104, 256, 292, 589, 651, 807
BmcAI AGTACT 1 cut(s) 97
Bme1390I CCNGG 2 cut(s) 520, 736
Bme18I GGWCC 2 cut(s) 829, 938
BmgT120I GGNCC 2 cut(s) 829, 938
BmrFI CCNGG 2 cut(s) 520, 736
BmsI GCATC 1 cut(s) 721
BplI GAGNNNNNCTC 2 cut(s) 889, 921
Bpu10I CCTNAGC 1 cut(s) 674
BsaHI GRCGYC 1 cut(s) 918
BsaJI CCNNGG 1 cut(s) 519
BsaXI ACNNNNNCTCC 2 cut(s) 927, 957
Bse1I ACTGG 6 cut(s) 108, 225, 826, 854, 961, 973
BseBI CCWGG 2 cut(s) 520, 736
BseDI CCNNGG 1 cut(s) 519
BseGI GGATG 3 cut(s) 24, 151, 736
BseMII CTCAG 3 cut(s) 60, 804, 879
BseNI ACTGG 6 cut(s) 108, 225, 826, 854, 961, 973
BseRI GAGGAG 3 cut(s) 440, 572, 809
BseXI GCAGC 6 cut(s) 114, 241, 302, 599, 636, 817
BshFI GGCC 1 cut(s) 778
BsiHKAI GWGCWC 3 cut(s) 286, 347, 616
BslFI GGGAC 4 cut(s) 184, 199, 517, 536
BsmAI GTCTC 1 cut(s) 865
BsmFI GGGAC 4 cut(s) 184, 199, 517, 536
BsnI GGCC 1 cut(s) 778
Bsp1286I GDGCHC 3 cut(s) 286, 347, 616
Bsp143I GATC 9 cut(s) 21, 52, 148, 190, 202, 207, 367, 628, 840
BspACI CCGC 4 cut(s) 129, 293, 351, 549
BspANI GGCC 1 cut(s) 778
BspCNI CTCAG 3 cut(s) 59, 805, 880
BspHI TCATGA 1 cut(s) 979
BspMI ACCTGC 2 cut(s) 17, 356
BspPI GGATC 1 cut(s) 362
BsrI ACTGG 6 cut(s) 108, 225, 826, 854, 961, 973
BssECI CCNNGG 1 cut(s) 519
BssMI GATC 9 cut(s) 21, 52, 148, 190, 202, 207, 367, 628, 840
BssNI GRCGYC 1 cut(s) 918
Bst2UI CCWGG 2 cut(s) 520, 736
Bst4CI ACNGT 1 cut(s) 665
Bst6I CTCTTC 2 cut(s) 786, 863
BstACI GRCGYC 1 cut(s) 918
BstC8I GCNNGC 1 cut(s) 43
BstDEI CTNAG 7 cut(s) 46, 435, 485, 566, 674, 813, 888
BstF5I GGATG 3 cut(s) 24, 151, 736
BstH2I RGCGCY 1 cut(s) 108
BstHHI GCGC 1 cut(s) 107
BstKTI GATC 9 cut(s) 24, 55, 151, 193, 205, 210, 370, 631, 843
BstMAI GTCTC 1 cut(s) 865
BstMBI GATC 9 cut(s) 21, 52, 148, 190, 202, 207, 367, 628, 840
BstMWI GCNNNNNNNGC 3 cut(s) 290, 436, 675
BstNI CCWGG 2 cut(s) 520, 736
BstNSI RCATGY 2 cut(s) 45, 160
BstSCI CCNGG 2 cut(s) 518, 734
BstSFI CTRYAG 1 cut(s) 769
BstV1I GCAGC 6 cut(s) 114, 241, 302, 599, 636, 817
BstXI CCANNNNNNTGG 1 cut(s) 519
BsuRI GGCC 1 cut(s) 778
BtsCI GGATG 3 cut(s) 24, 151, 736
BtsIMutI CAGTG 2 cut(s) 670, 954
BveI ACCTGC 2 cut(s) 17, 356
Cac8I GCNNGC 1 cut(s) 43
CciI TCATGA 1 cut(s) 979
CfoI GCGC 1 cut(s) 107
Cfr13I GGNCC 2 cut(s) 829, 938
CseI GACGC 1 cut(s) 907
Csp6I GTAC 2 cut(s) 96, 661
CspCI CAANNNNNGTGG 2 cut(s) 646, 681
CviAII CATG 9 cut(s) 42, 56, 125, 137, 157, 388, 895, 910, 980
CviQI GTAC 2 cut(s) 96, 661
DdeI CTNAG 7 cut(s) 46, 435, 485, 566, 674, 813, 888
DpnI GATC 9 cut(s) 23, 54, 150, 192, 204, 209, 369, 630, 842
DpnII GATC 9 cut(s) 21, 52, 148, 190, 202, 207, 367, 628, 840
EaeI YGGCCR 1 cut(s) 776
Eam1104I CTCTTC 2 cut(s) 786, 863
EarI CTCTTC 2 cut(s) 786, 863
Eco47I GGWCC 2 cut(s) 829, 938
EcoO109I RGGNCCY 1 cut(s) 938
EcoRII CCWGG 2 cut(s) 518, 734
FaeI CATG 9 cut(s) 45, 59, 128, 140, 160, 391, 898, 913, 983
FalI AAGNNNNNCTT 2 cut(s) 680, 712
FaqI GGGAC 4 cut(s) 184, 199, 517, 536
FatI CATG 9 cut(s) 41, 55, 124, 136, 156, 387, 894, 909, 979
FauNDI CATATG 1 cut(s) 195
FbaI TGATCA 3 cut(s) 52, 148, 207
FblI GTMKAC 1 cut(s) 89
Fnu4HI GCNGC 6 cut(s) 103, 255, 291, 588, 650, 806
FokI GGATG 3 cut(s) 31, 158, 743
Fsp4HI GCNGC 6 cut(s) 103, 255, 291, 588, 650, 806
FspBI CTAG 4 cut(s) 93, 99, 263, 621
GlaI GCGC 1 cut(s) 106
GluI GCNGC 6 cut(s) 103, 255, 291, 588, 650, 806
HaeII RGCGCY 1 cut(s) 108
HaeIII GGCC 1 cut(s) 778
HgaI GACGC 1 cut(s) 907
HhaI GCGC 1 cut(s) 107
Hin1I GRCGYC 1 cut(s) 918
Hin1II CATG 9 cut(s) 45, 59, 128, 140, 160, 391, 898, 913, 983
Hin6I GCGC 1 cut(s) 105
HinP1I GCGC 1 cut(s) 105
HincII GTYRAC 1 cut(s) 469
HindII GTYRAC 1 cut(s) 469
HinfI GANTC 4 cut(s) 185, 392, 417, 595
HphI GGTGA 3 cut(s) 221, 365, 638
Hpy166II GTNNAC 3 cut(s) 90, 469, 759
Hpy188I TCNGA 8 cut(s) 49, 190, 202, 207, 535, 556, 814, 889
Hpy188III TCNNGA 4 cut(s) 371, 599, 632, 980
Hpy8I GTNNAC 3 cut(s) 90, 469, 759
Hpy99I CGWCG 1 cut(s) 923
HpyAV CCTTC 5 cut(s) 318, 533, 682, 721, 908
HpyCH4III ACNGT 1 cut(s) 665
HpyCH4V TGCA 3 cut(s) 41, 257, 805
HpyF10VI GCNNNNNNNGC 3 cut(s) 290, 436, 675
HpyF3I CTNAG 7 cut(s) 46, 435, 485, 566, 674, 813, 888
Hsp92I GRCGYC 1 cut(s) 918
Hsp92II CATG 9 cut(s) 45, 59, 128, 140, 160, 391, 898, 913, 983
HspAI GCGC 1 cut(s) 105
Ksp22I TGATCA 3 cut(s) 52, 148, 207
Kzo9I GATC 9 cut(s) 21, 52, 148, 190, 202, 207, 367, 628, 840
LmnI GCTCC 4 cut(s) 281, 362, 427, 927
Lsp1109I GCAGC 6 cut(s) 114, 241, 302, 599, 636, 817
LweI GCATC 1 cut(s) 721
MaeI CTAG 4 cut(s) 93, 99, 263, 621
MaeIII GTNAC 2 cut(s) 31, 227
MalI GATC 9 cut(s) 23, 54, 150, 192, 204, 209, 369, 630, 842
MboI GATC 9 cut(s) 21, 52, 148, 190, 202, 207, 367, 628, 840
MboII GAAGA 3 cut(s) 326, 803, 880
MhlI GDGCHC 3 cut(s) 286, 347, 616
MlsI TGGCCA 1 cut(s) 778
MluCI AATT 4 cut(s) 8, 244, 318, 800
MluNI TGGCCA 1 cut(s) 778
MlyI GAGTC 1 cut(s) 604
MmeI TCCRAC 1 cut(s) 259
Mox20I TGGCCA 1 cut(s) 778
MroXI GAANNNNTTC 1 cut(s) 692
MscI TGGCCA 1 cut(s) 778
MseI TTAA 2 cut(s) 683, 698
MslI CAYNNNNRTG 5 cut(s) 40, 60, 129, 534, 621
Msp20I TGGCCA 1 cut(s) 778
MspA1I CMGCKG 2 cut(s) 293, 808
MspR9I CCNGG 2 cut(s) 520, 736
MvaI CCWGG 2 cut(s) 520, 736
MwoI GCNNNNNNNGC 3 cut(s) 290, 436, 675
NdeI CATATG 1 cut(s) 195
NdeII GATC 9 cut(s) 21, 52, 148, 190, 202, 207, 367, 628, 840
NlaIII CATG 9 cut(s) 45, 59, 128, 140, 160, 391, 898, 913, 983
NmuCI GTSAC 2 cut(s) 31, 227
NspI RCATGY 2 cut(s) 45, 160
PaeI GCATGC 1 cut(s) 45
PagI TCATGA 1 cut(s) 979
PaqCI CACCTGC 2 cut(s) 17, 356
PdmI GAANNNNTTC 1 cut(s) 692
PfeI GAWTC 3 cut(s) 185, 392, 417
PkrI GCNGC 6 cut(s) 104, 256, 292, 589, 651, 807
PleI GAGTC 1 cut(s) 603
PpsI GAGTC 1 cut(s) 603
PpuMI RGGWCCY 1 cut(s) 938
Psp5II RGGWCCY 1 cut(s) 938
Psp6I CCWGG 2 cut(s) 518, 734
PspGI CCWGG 2 cut(s) 518, 734
PspPI GGNCC 2 cut(s) 829, 938
PspPPI RGGWCCY 1 cut(s) 938
PvuII CAGCTG 1 cut(s) 808
RsaI GTAC 2 cut(s) 97, 662
RsaNI GTAC 2 cut(s) 96, 661
RseI CAYNNNNRTG 5 cut(s) 40, 60, 129, 534, 621
SaqAI TTAA 2 cut(s) 683, 698
SatI GCNGC 6 cut(s) 103, 255, 291, 588, 650, 806
Sau3AI GATC 9 cut(s) 21, 52, 148, 190, 202, 207, 367, 628, 840
Sau96I GGNCC 2 cut(s) 829, 938
ScaI AGTACT 1 cut(s) 97
SchI GAGTC 1 cut(s) 604
ScrFI CCNGG 2 cut(s) 520, 736
SduI GDGCHC 3 cut(s) 286, 347, 616
SfaNI GCATC 1 cut(s) 721
SfcI CTRYAG 1 cut(s) 769
SinI GGWCC 2 cut(s) 829, 938
SmiMI CAYNNNNRTG 5 cut(s) 40, 60, 129, 534, 621
SpeI ACTAGT 1 cut(s) 92
SphI GCATGC 1 cut(s) 45
Sse9I AATT 4 cut(s) 8, 244, 318, 800
SsiI CCGC 4 cut(s) 129, 293, 351, 549
SspMI CTAG 4 cut(s) 93, 99, 263, 621
StyD4I CCNGG 2 cut(s) 518, 734
TaaI ACNGT 1 cut(s) 665
TaqI TCGA 1 cut(s) 444
TasI AATT 4 cut(s) 8, 244, 318, 800
TatI WGTACW 2 cut(s) 95, 660
TfiI GAWTC 3 cut(s) 185, 392, 417
Tru1I TTAA 2 cut(s) 683, 698
Tru9I TTAA 2 cut(s) 683, 698
TscAI CASTG 2 cut(s) 670, 961
TseFI GTSAC 2 cut(s) 31, 227
TseI GCWGC 6 cut(s) 102, 254, 290, 587, 649, 805
Tsp45I GTSAC 2 cut(s) 31, 227
TspDTI ATGAA 8 cut(s) 56, 113, 314, 376, 462, 552, 844, 968
TspGWI ACGGA 2 cut(s) 188, 803
TspRI CASTG 2 cut(s) 670, 961
VpaK11BI GGWCC 2 cut(s) 829, 938
XapI RAATTY 1 cut(s) 8
XceI RCATGY 2 cut(s) 45, 160
XmiI GTMKAC 1 cut(s) 89
XmnI GAANNNNTTC 1 cut(s) 692
XspI CTAG 4 cut(s) 93, 99, 263, 621
ZrmI AGTACT 1 cut(s) 97
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.