Rroxscaffold_6G00422170

Homeobox protein knotted-1-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0013693
Physical Location & Seq
Forward (+)
43177824 .. 43181531
3708 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00422170.1

Sequence Viewer

Length: 993 bp
ATGGATGATTTTTACAGGCTAAACCCTATGGATATAATATCAAGCTCATCGGAGAATGTGAATCAGGTTGAAAATGATACTAGGACTACTGCTACTTGTGGTGGTGCTGGTTATCATGGTGGTCCATTAATTCTAAGTGACGGTAACCTCAACCTCAACCTGCTCCAATTTGAAACGGATCAGAGTATGAACCAGCTGATTAAGACCCAGATAGCCAATCACCCTCGTTACCCAGATTTGGTTTCTGCTTACATAGATTGCCAAAAGGTTGGAGCTCCACCAGAGATGAAAAGCCTACTTGAAGAAATAGGGCGGCTAAGCCTCCCCATAAGCACTTGCAGGAGTGAGATAGGAGCTGATCCAGAACTAGATGAGTTCATGGACTCATACTGTGGGATTCTTCATACATACAAGGAAGAGCTTTCTAAACCGGTTGATGAAGCCACCGCATTCTTGAGCAACATTGAATTGCAGCTTAGCAACCTCTGCAAAGGCACATTTCAGAAACCCAACTCGGACTATCATTCAACTGATGAAGCAGTTGTTGGAAGTTCAGAAGAGGACTTTAGTTATGGGGAGGCAGAAGCAGCCGAGGGCCAAGAAATCTCAGCGTTTCGTGCTTGTGATAGGGAGCTTAAAGATATGCTGCTGCATAAGTACAGTGGCTACCTCAGCAAGCTGAAGAAGGACTTCTTAAAGACAAGAAAGAAAGGAAAGCTTCCAAAGGATGCTAGGTCTGCACTATTGGACTGGTGGAACACTCACTATAGATGGCCATATCCTACGGAAGAGGAGAAAATGCAACTATCTGTGGCAACTGGTCTGGACCAAAGGCAGATAAACAATTGGTTCATAAACCAAAGGAAGAGGCACTGGAAGCCATCTGAAGACATGAAGTTCGCTCTCATGGAGAACGTTAGTGGTAGCATCAATGGCGAAGGAGGATCCAGTATACTATTTGACACTGGATTCGGAAATGATGATTTCATGTGA
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

37.25

Weight (kDa)

4.83

Isoelectric Point (pI)

37.66

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
KNOX1 PF03790 67 - 105 2.8e-19 KNOX1 domain
KNOX2 PF03791 116 - 163 1.4e-22 KNOX2 domain
ELK PF03789 211 - 232 3.8e-07 ELK domain
Homeobox_KN PF05920 251 - 290 2.8e-18 Homeobox KN domain
Homeodomain PF00046 259 - 291 7.5e-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)
Acc36I ACCTGC 1 cut(s) 168
AccI GTMKAC 1 cut(s) 952
AciI CCGC 2 cut(s) 313, 447
AclI AACGTT 1 cut(s) 915
AclWI GGATC 4 cut(s) 186, 353, 939, 952
AcoI YGGCCR 1 cut(s) 773
AcuI CTGAAG 2 cut(s) 701, 906
AfaI GTAC 1 cut(s) 659
AfiI CCNNNNNNNGG 1 cut(s) 238
AgeI ACCGGT 1 cut(s) 430
AgsI TTSAA 5 cut(s) 71, 173, 302, 467, 528
AjuI GAANNNNNNNTTGG 2 cut(s) 528, 560
AluBI AGCT 9 cut(s) 45, 196, 275, 356, 421, 475, 634, 679, 718
AluI AGCT 9 cut(s) 45, 196, 275, 356, 421, 475, 634, 679, 718
Alw21I GWGCWC 1 cut(s) 277
AlwI GGATC 4 cut(s) 186, 353, 939, 952
AoxI GGCC 2 cut(s) 595, 773
ApeKI GCWGC 4 cut(s) 472, 587, 646, 649
ArsI GACNNNNNNTTYG 4 cut(s) 881, 913, 953, 985
AseI ATTAAT 1 cut(s) 128
AsiGI ACCGGT 1 cut(s) 430
Asp700I GAANNNNTTC 1 cut(s) 689
AspS9I GGNCC 3 cut(s) 122, 595, 826
AsuHPI GGTGA 1 cut(s) 212
AvaII GGWCC 2 cut(s) 122, 826
BalI TGGCCA 1 cut(s) 775
BamHI GGATCC 1 cut(s) 944
BanII GRGCYC 1 cut(s) 277
BbsI GAAGAC 1 cut(s) 894
Bbv12I GWGCWC 1 cut(s) 277
BbvCI CCTCAGC 1 cut(s) 671
BbvI GCAGC 4 cut(s) 484, 599, 633, 636
BccI CCATC 2 cut(s) 765, 889
BfaI CTAG 3 cut(s) 81, 368, 732
BfmI CTRYAG 1 cut(s) 766
BfuAI ACCTGC 1 cut(s) 168
BisI GCNGC 5 cut(s) 314, 473, 588, 647, 650
BlpI GCTNAGC 2 cut(s) 317, 476
BlsI GCNGC 5 cut(s) 315, 474, 589, 648, 651
Bme18I GGWCC 2 cut(s) 122, 826
BmgT120I GGNCC 3 cut(s) 122, 595, 826
BmiI GGNNCC 1 cut(s) 946
BmsI GCATC 2 cut(s) 718, 936
BpiI GAAGAC 1 cut(s) 894
Bpu10I CCTNAGC 1 cut(s) 671
Bpu1102I GCTNAGC 2 cut(s) 317, 476
BpuEI CTTGAG 1 cut(s) 475
BsaJI CCNNGG 1 cut(s) 591
BsaWI WCCGGW 1 cut(s) 430
Bsc4I CCNNNNNNNGG 1 cut(s) 238
Bse118I RCCGGY 1 cut(s) 430
Bse1I ACTGG 5 cut(s) 755, 823, 878, 948, 970
BseDI CCNNGG 1 cut(s) 591
BseGI GGATG 2 cut(s) 10, 733
BseLI CCNNNNNNNGG 1 cut(s) 238
BseMII CTCAG 2 cut(s) 621, 685
BseNI ACTGG 5 cut(s) 755, 823, 878, 948, 970
BseRI GAGGAG 1 cut(s) 806
BseXI GCAGC 4 cut(s) 484, 599, 633, 636
BsgI GTGCAG 1 cut(s) 723
BshFI GGCC 2 cut(s) 597, 775
BshTI ACCGGT 1 cut(s) 430
BsiHKAI GWGCWC 1 cut(s) 277
BsiSI CCGG 1 cut(s) 431
BslI CCNNNNNNNGG 1 cut(s) 238
BsmI GAATGC 1 cut(s) 449
BsnI GGCC 2 cut(s) 597, 775
Bsp1286I GDGCHC 1 cut(s) 277
Bsp143I GATC 3 cut(s) 178, 358, 944
Bsp1720I GCTNAGC 2 cut(s) 317, 476
BspACI CCGC 2 cut(s) 313, 447
BspANI GGCC 2 cut(s) 597, 775
BspCNI CTCAG 2 cut(s) 620, 684
BspLI GGNNCC 1 cut(s) 946
BspMI ACCTGC 1 cut(s) 168
BspPI GGATC 4 cut(s) 186, 353, 939, 952
BspQI GCTCTTC 1 cut(s) 411
BsrFI RCCGGY 1 cut(s) 430
BsrI ACTGG 5 cut(s) 755, 823, 878, 948, 970
BssAI RCCGGY 1 cut(s) 430
BssECI CCNNGG 1 cut(s) 591
BssMI GATC 3 cut(s) 178, 358, 944
BssNAI GTATAC 1 cut(s) 953
Bst1107I GTATAC 1 cut(s) 953
Bst4CI ACNGT 3 cut(s) 143, 392, 662
Bst6I CTCTTC 4 cut(s) 411, 552, 783, 860
BstAPI GCANNNNNTGC 1 cut(s) 486
BstC8I GCNNGC 1 cut(s) 677
BstDEI CTNAG 5 cut(s) 134, 317, 476, 607, 671
BstEII GGTNACC 1 cut(s) 143
BstF5I GGATG 2 cut(s) 10, 733
BstKTI GATC 3 cut(s) 181, 361, 947
BstMBI GATC 3 cut(s) 178, 358, 944
BstMWI GCNNNNNNNGC 7 cut(s) 486, 587, 617, 672, 737, 877, 933
BstPI GGTNACC 1 cut(s) 143
BstSFI CTRYAG 1 cut(s) 766
BstV1I GCAGC 4 cut(s) 484, 599, 633, 636
BstV2I GAAGAC 1 cut(s) 894
BstX2I RGATCY 1 cut(s) 944
BstXI CCANNNNNNTGG 1 cut(s) 269
BstYI RGATCY 1 cut(s) 944
BstZ17I GTATAC 1 cut(s) 953
BsuRI GGCC 2 cut(s) 597, 775
BtsCI GGATG 2 cut(s) 10, 733
BtsIMutI CAGTG 3 cut(s) 667, 871, 963
BveI ACCTGC 1 cut(s) 168
Cac8I GCNNGC 1 cut(s) 677
Cfr10I RCCGGY 1 cut(s) 430
Cfr13I GGNCC 3 cut(s) 122, 595, 826
Csp6I GTAC 1 cut(s) 658
CspAI ACCGGT 1 cut(s) 430
CviAII CATG 5 cut(s) 116, 379, 892, 907, 988
CviQI GTAC 1 cut(s) 658
DdeI CTNAG 5 cut(s) 134, 317, 476, 607, 671
DpnI GATC 3 cut(s) 180, 360, 946
DpnII GATC 3 cut(s) 178, 358, 944
EaeI YGGCCR 1 cut(s) 773
Eam1104I CTCTTC 4 cut(s) 411, 552, 783, 860
EarI CTCTTC 4 cut(s) 411, 552, 783, 860
Ecl136II GAGCTC 1 cut(s) 275
Eco24I GRGCYC 1 cut(s) 277
Eco47I GGWCC 2 cut(s) 122, 826
Eco53kI GAGCTC 1 cut(s) 275
Eco57I CTGAAG 2 cut(s) 701, 906
Eco91I GGTNACC 1 cut(s) 143
EcoICRI GAGCTC 1 cut(s) 275
EcoO65I GGTNACC 1 cut(s) 143
EcoT38I GRGCYC 1 cut(s) 277
FaeI CATG 5 cut(s) 119, 382, 895, 910, 991
FalI AAGNNNNNCTT 6 cut(s) 674, 706, 677, 709, 702, 734
FatI CATG 5 cut(s) 115, 378, 891, 906, 987
FblI GTMKAC 1 cut(s) 952
Fnu4HI GCNGC 5 cut(s) 314, 473, 588, 647, 650
FokI GGATG 2 cut(s) 17, 740
FriOI GRGCYC 1 cut(s) 277
Fsp4HI GCNGC 5 cut(s) 314, 473, 588, 647, 650
FspBI CTAG 3 cut(s) 81, 368, 732
GluI GCNGC 5 cut(s) 314, 473, 588, 647, 650
HaeIII GGCC 2 cut(s) 597, 775
HapII CCGG 1 cut(s) 431
Hin1II CATG 5 cut(s) 119, 382, 895, 910, 991
HindIII AAGCTT 1 cut(s) 716
HinfI GANTC 4 cut(s) 61, 383, 397, 969
HpaII CCGG 1 cut(s) 431
HphI GGTGA 1 cut(s) 212
Hpy166II GTNNAC 1 cut(s) 953
Hpy188I TCNGA 7 cut(s) 52, 183, 504, 517, 556, 886, 974
Hpy188III TCNNGA 3 cut(s) 362, 454, 824
Hpy8I GTNNAC 1 cut(s) 953
HpyAV CCTTC 2 cut(s) 679, 932
HpyCH4III ACNGT 3 cut(s) 143, 392, 662
HpyCH4IV ACGT 1 cut(s) 915
HpyCH4V TGCA 6 cut(s) 339, 472, 489, 652, 740, 802
HpyF10VI GCNNNNNNNGC 7 cut(s) 486, 587, 617, 672, 737, 877, 933
HpyF3I CTNAG 5 cut(s) 134, 317, 476, 607, 671
HpySE526I ACGT 1 cut(s) 915
Hsp92II CATG 5 cut(s) 119, 382, 895, 910, 991
Kzo9I GATC 3 cut(s) 178, 358, 944
LguI GCTCTTC 1 cut(s) 411
LmnI GCTCC 5 cut(s) 168, 272, 280, 353, 631
Lsp1109I GCAGC 4 cut(s) 484, 599, 633, 636
LweI GCATC 2 cut(s) 718, 936
MaeI CTAG 3 cut(s) 81, 368, 732
MaeII ACGT 1 cut(s) 915
MaeIII GTNAC 3 cut(s) 137, 143, 227
MalI GATC 3 cut(s) 180, 360, 946
MboI GATC 3 cut(s) 178, 358, 944
MboII GAAGA 8 cut(s) 314, 392, 428, 569, 694, 800, 877, 899
MfeI CAATTG 1 cut(s) 844
MflI RGATCY 1 cut(s) 944
MhlI GDGCHC 1 cut(s) 277
MlsI TGGCCA 1 cut(s) 775
MluCI AATT 4 cut(s) 129, 167, 467, 844
MluNI TGGCCA 1 cut(s) 775
MlyI GAGTC 1 cut(s) 377
MmeI TCCRAC 2 cut(s) 250, 526
Mox20I TGGCCA 1 cut(s) 775
MroXI GAANNNNTTC 1 cut(s) 689
MscI TGGCCA 1 cut(s) 775
MseI TTAA 4 cut(s) 128, 201, 636, 695
Msp20I TGGCCA 1 cut(s) 775
MspA1I CMGCKG 1 cut(s) 196
MspI CCGG 1 cut(s) 431
MunI CAATTG 1 cut(s) 844
Mva1269I GAATGC 1 cut(s) 449
MwoI GCNNNNNNNGC 7 cut(s) 486, 587, 617, 672, 737, 877, 933
NdeII GATC 3 cut(s) 178, 358, 944
NlaIII CATG 5 cut(s) 119, 382, 895, 910, 991
NlaIV GGNNCC 1 cut(s) 946
NmeAIII GCCGAG 1 cut(s) 616
NmuCI GTSAC 1 cut(s) 137
PciSI GCTCTTC 1 cut(s) 411
PctI GAATGC 1 cut(s) 449
PdmI GAANNNNTTC 1 cut(s) 689
PfeI GAWTC 3 cut(s) 61, 397, 969
PinAI ACCGGT 1 cut(s) 430
PkrI GCNGC 5 cut(s) 315, 474, 589, 648, 651
PleI GAGTC 1 cut(s) 377
PpsI GAGTC 1 cut(s) 377
PshBI ATTAAT 1 cut(s) 128
Psp124BI GAGCTC 1 cut(s) 277
Psp1406I AACGTT 1 cut(s) 915
PspEI GGTNACC 1 cut(s) 143
PspN4I GGNNCC 1 cut(s) 946
PspPI GGNCC 3 cut(s) 122, 595, 826
PsuI RGATCY 1 cut(s) 944
PvuII CAGCTG 1 cut(s) 196
RsaI GTAC 1 cut(s) 659
RsaNI GTAC 1 cut(s) 658
SacI GAGCTC 1 cut(s) 277
SapI GCTCTTC 1 cut(s) 411
SaqAI TTAA 4 cut(s) 128, 201, 636, 695
SatI GCNGC 5 cut(s) 314, 473, 588, 647, 650
Sau3AI GATC 3 cut(s) 178, 358, 944
Sau96I GGNCC 3 cut(s) 122, 595, 826
SchI GAGTC 1 cut(s) 377
SduI GDGCHC 1 cut(s) 277
SfaNI GCATC 2 cut(s) 718, 936
SfcI CTRYAG 1 cut(s) 766
SinI GGWCC 2 cut(s) 122, 826
SmlI CTYRAG 1 cut(s) 454
SmoI CTYRAG 1 cut(s) 454
Sse9I AATT 4 cut(s) 129, 167, 467, 844
SsiI CCGC 2 cut(s) 313, 447
SspMI CTAG 3 cut(s) 81, 368, 732
SstI GAGCTC 1 cut(s) 277
TaaI ACNGT 3 cut(s) 143, 392, 662
TaiI ACGT 1 cut(s) 918
TasI AATT 4 cut(s) 129, 167, 467, 844
TatI WGTACW 1 cut(s) 657
TauI GCSGC 1 cut(s) 316
TfiI GAWTC 3 cut(s) 61, 397, 969
Tru1I TTAA 4 cut(s) 128, 201, 636, 695
Tru9I TTAA 4 cut(s) 128, 201, 636, 695
TscAI CASTG 3 cut(s) 667, 878, 970
TseFI GTSAC 1 cut(s) 137
TseI GCWGC 4 cut(s) 472, 587, 646, 649
Tsp45I GTSAC 1 cut(s) 137
TspDTI ATGAA 9 cut(s) 203, 302, 367, 392, 453, 549, 841, 908, 976
TspGWI ACGGA 2 cut(s) 191, 800
TspRI CASTG 3 cut(s) 667, 878, 970
VpaK11BI GGWCC 2 cut(s) 122, 826
VspI ATTAAT 1 cut(s) 128
XmiI GTMKAC 1 cut(s) 952
XmnI GAANNNNTTC 1 cut(s) 689
XspI CTAG 3 cut(s) 81, 368, 732
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.