MD16G1048700.v1.1

transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr16
OG0012088
Physical Location & Seq
Reverse (-)
3420921 .. 3423745
2825 bp
Loading structure...
UTR
Exon/CDS
Intron
MD16G1048700.v1.1.491

Sequence Viewer

Length: 1047 bp
ATGTGTGGGAAGGAAGAAGATCAAGGAGAGTGCTCTCAGTCAATCCAAAACCTACAAGCTTTTCAAGAACACTTGTTCCTCCAACAACAACAGCATCATCAGATGCAACAGCACCAACAAGGTGGTTTGATTTTTCCACATGATCATCAACCTCCTCCTCCAACTCCAATCTTGCAGCCATGGACTTTCCCACCGATCTACAACCCAACCGCCCACGATCCTTTTCTCCTCCCAACTCCTCCCCAAATTCCGTCGTCATCATCCTATGCTTCTTTCTTCAACCGAAGACCTCCTTCTCTCCAGTTCACATATGACGGTTCAGCGTCTGACCACCACCACCACCTCAGAATCTTGTCTGAGACGCTTGGACCGATGGTTCAACCGGGTTCGGGCGCTTTCGGTCTTCAGGCCGAGTTAGGTAAGTTGACTGCCCAAGAAATCATGGACGCCAAGGCGCTCGCCGCTTCTAAGAGTCACAGCGAGGCTGAGAGGAGACGAAGAGAGAGAATCAACAACCATCTCGCCAAGTTGCGCAGCTTATTGCCCAGCACCACCAAAACGGACAAAGCGTCATTGCTAGCAGAAGTGATACAACATGTGAAAGAGCTGAAACGCCAAACTTCCCTGATCGCTGAGACGAGTCCAGTACCGACCGAAACTGACGAACTACTAGTAGACGATGCATCGGACGAGGATGGTAAGTTTGTGATAAAGGCCTCGCTTTGCTGTGAGGACCGGTCGGATCTCCTGCCTGACCTAATCAAGACGTTGAAAGCCTTGCGCTTGAGAACGCTCAAGGCCGAGATCACCACACTCGGCGGACGTGTGAAGAACGTGTTGTTCATCACCGGAGAAGAAGACCCGAGTAGTAGCGAGGGAGAGCAAGTACAAATGCAGCATCAACAGTATTGTAAAAGCTCGATTCAAGAAGCACTGAAGGCTGTCATGGAGAAGACCGGCTGCGGCGATCAGGATCAATCTTCCACAGGGAGTGCTAAGAGACAAAGGACTAATAACATCAATATCCTTGAACACAGGTCCCTCTGA
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
HLH

Protein Analysis

349

Amino Acids

38.81

Weight (kDa)

6.15

Isoelectric Point (pI)

63.86

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HLH PF00010 157 - 204 8.4e-13 Helix-loop-helix DNA-binding 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0012088)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G68810
fragaria_vesca FvH4_4g28130 FvH4_4g28130
malus_domestica MD13G1047100.v1.1 MD16G1048700.v1.1
prunus_persica Prupe.1G304900_v2.0.a1
pyrus_communis pycom13g04120 pycom16g04260
rosa_chinensis RchiOBHm_Chr4g0435901
rosa_laevigata RLG00000006551
rosa_multiflora Rmu_sc0003165.1_g000008
rosa_roxburghii Rroxscaffold_5G00377070
rosa_rugosa Rorug04G0290700 Rorug04G0290700
rosa_samantha Rh4AG344900 Rh4BG353700 Rh4CG368100 Rh4DG347500
rosa_wichuraiana Rw4G030120

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 533
AccI GTMKAC 1 cut(s) 675
AciI CCGC 4 cut(s) 210, 462, 819, 963
AclWI GGATC 3 cut(s) 212, 750, 981
AcsI RAATTY 1 cut(s) 246
AcuI CTGAAG 2 cut(s) 389, 956
AcyI GRCGYC 1 cut(s) 447
AfaI GTAC 2 cut(s) 648, 888
AfiI CCNNNNNNNGG 1 cut(s) 389
AflIII ACRYGT 3 cut(s) 595, 823, 834
AgeI ACCGGT 1 cut(s) 735
AgsI TTSAA 6 cut(s) 65, 280, 380, 772, 926, 1031
AhdI GACNNNNNGTC 1 cut(s) 568
AhlI ACTAGT 1 cut(s) 670
AjiI CACGTC 1 cut(s) 824
AloI GAACNNNNNNTCC 4 cut(s) 60, 92, 360, 392
AluBI AGCT 4 cut(s) 59, 537, 607, 918
AluI AGCT 4 cut(s) 59, 537, 607, 918
Alw21I GWGCWC 1 cut(s) 35
Alw26I GTCTC 4 cut(s) 353, 487, 629, 994
AlwI GGATC 3 cut(s) 212, 750, 981
AlwNI CAGNNNCTG 1 cut(s) 326
Ama87I CYCGRG 1 cut(s) 862
AoxI GGCC 3 cut(s) 408, 714, 798
ApeKI GCWGC 4 cut(s) 175, 534, 895, 960
ApoI RAATTY 1 cut(s) 246
AsiGI ACCGGT 1 cut(s) 735
AspLEI GCGC 4 cut(s) 395, 457, 534, 783
AspS9I GGNCC 3 cut(s) 368, 733, 1038
AsuC2I CCSGG 1 cut(s) 384
AsuHPI GGTGA 2 cut(s) 799, 838
AsuNHI GCTAGC 1 cut(s) 577
AvaI CYCGRG 1 cut(s) 862
AvaII GGWCC 3 cut(s) 368, 733, 1038
BbsI GAAGAC 4 cut(s) 292, 395, 864, 959
Bbv12I GWGCWC 1 cut(s) 35
BbvI GCAGC 4 cut(s) 187, 546, 907, 947
BccI CCATC 3 cut(s) 367, 525, 689
BclI TGATCA 1 cut(s) 142
BcnI CCSGG 1 cut(s) 384
BcoDI GTCTC 4 cut(s) 353, 487, 629, 994
BcuI ACTAGT 1 cut(s) 670
BfaI CTAG 2 cut(s) 578, 671
BfoI RGCGCY 2 cut(s) 396, 458
BisI GCNGC 6 cut(s) 176, 462, 535, 896, 961, 964
BlsI GCNGC 6 cut(s) 177, 463, 536, 897, 962, 965
Bme1390I CCNGG 1 cut(s) 384
Bme18I GGWCC 3 cut(s) 368, 733, 1038
BmeRI GACNNNNNGTC 1 cut(s) 568
BmeT110I CYCGRG 1 cut(s) 862
BmgBI CACGTC 1 cut(s) 824
BmgT120I GGNCC 3 cut(s) 368, 733, 1038
BmiI GGNNCC 1 cut(s) 1040
BmrFI CCNGG 1 cut(s) 384
BmsI GCATC 5 cut(s) 93, 103, 670, 692, 907
BmtI GCTAGC 1 cut(s) 581
BpiI GAAGAC 4 cut(s) 292, 395, 864, 959
BpmI CTGGAG 1 cut(s) 284
BpuEI CTTGAG 2 cut(s) 779, 805
BpuMI CCSGG 1 cut(s) 384
BsaBI GATNNNNATC 1 cut(s) 972
BsaHI GRCGYC 1 cut(s) 447
BsaJI CCNNGG 2 cut(s) 179, 450
BsaWI WCCGGW 2 cut(s) 735, 848
BsaXI ACNNNNNCTCC 2 cut(s) 870, 900
Bsc4I CCNNNNNNNGG 1 cut(s) 389
Bse118I RCCGGY 2 cut(s) 735, 956
Bse1I ACTGG 2 cut(s) 301, 644
Bse3DI GCAATG 1 cut(s) 572
Bse8I GATNNNNATC 1 cut(s) 972
BseDI CCNNGG 2 cut(s) 179, 450
BseGI GGATG 2 cut(s) 260, 700
BseJI GATNNNNATC 1 cut(s) 972
BseLI CCNNNNNNNGG 1 cut(s) 389
BseMI GCAATG 1 cut(s) 572
BseMII CTCAG 5 cut(s) 50, 348, 358, 477, 624
BseNI ACTGG 2 cut(s) 301, 644
BseRI GAGGAG 5 cut(s) 144, 147, 218, 228, 505
BseXI GCAGC 4 cut(s) 187, 546, 907, 947
BseYI CCCAGC 1 cut(s) 545
Bsh1285I CGRYCG 2 cut(s) 654, 740
BshFI GGCC 3 cut(s) 410, 716, 800
BshTI ACCGGT 1 cut(s) 735
BsiEI CGRYCG 2 cut(s) 654, 740
BsiHKAI GWGCWC 1 cut(s) 35
BsiHKCI CYCGRG 1 cut(s) 862
BsiSI CCGG 4 cut(s) 383, 736, 849, 957
BslFI GGGAC 1 cut(s) 1024
BslI CCNNNNNNNGG 1 cut(s) 389
BsmAI GTCTC 4 cut(s) 353, 487, 629, 994
BsmBI CGTCTC 3 cut(s) 353, 487, 629
BsmFI GGGAC 1 cut(s) 1024
BsnI GGCC 3 cut(s) 410, 716, 800
BsoBI CYCGRG 1 cut(s) 862
Bsp1286I GDGCHC 1 cut(s) 35
Bsp143I GATC 9 cut(s) 19, 142, 195, 217, 627, 742, 804, 967, 973
Bsp19I CCATGG 1 cut(s) 179
BspACI CCGC 4 cut(s) 210, 462, 819, 963
BspANI GGCC 3 cut(s) 410, 716, 800
BspCNI CTCAG 5 cut(s) 49, 349, 357, 478, 625
BspLI GGNNCC 1 cut(s) 1040
BspOI GCTAGC 1 cut(s) 581
BspPI GGATC 3 cut(s) 212, 750, 981
BsrDI GCAATG 1 cut(s) 572
BsrFI RCCGGY 2 cut(s) 735, 956
BsrI ACTGG 2 cut(s) 301, 644
BssAI RCCGGY 2 cut(s) 735, 956
BssECI CCNNGG 2 cut(s) 179, 450
BssMI GATC 9 cut(s) 19, 142, 195, 217, 627, 742, 804, 967, 973
BssNI GRCGYC 1 cut(s) 447
BssT1I CCWWGG 2 cut(s) 179, 450
Bst4CI ACNGT 2 cut(s) 317, 906
Bst6I CTCTTC 1 cut(s) 493
BstACI GRCGYC 1 cut(s) 447
BstC8I GCNNGC 2 cut(s) 459, 579
BstDEI CTNAG 7 cut(s) 36, 344, 357, 468, 486, 633, 996
BstDSI CCRYGG 1 cut(s) 179
BstF5I GGATG 2 cut(s) 260, 700
BstH2I RGCGCY 2 cut(s) 396, 458
BstHHI GCGC 4 cut(s) 395, 457, 534, 783
BstKTI GATC 9 cut(s) 22, 145, 198, 220, 630, 745, 807, 970, 976
BstMAI GTCTC 4 cut(s) 353, 487, 629, 994
BstMBI GATC 9 cut(s) 19, 142, 195, 217, 627, 742, 804, 967, 973
BstMCI CGRYCG 2 cut(s) 654, 740
BstMWI GCNNNNNNNGC 2 cut(s) 461, 938
BstNSI RCATGY 1 cut(s) 599
BstSCI CCNGG 1 cut(s) 382
BstV1I GCAGC 4 cut(s) 187, 546, 907, 947
BstV2I GAAGAC 4 cut(s) 292, 395, 864, 959
BstX2I RGATCY 1 cut(s) 742
BstXI CCANNNNNNTGG 1 cut(s) 122
BstYI RGATCY 1 cut(s) 742
BsuRI GGCC 3 cut(s) 410, 716, 800
BtgI CCRYGG 1 cut(s) 179
BtrI CACGTC 1 cut(s) 824
BtsCI GGATG 2 cut(s) 260, 700
BtsIMutI CAGTG 1 cut(s) 932
Cac8I GCNNGC 2 cut(s) 459, 579
CaiI CAGNNNCTG 1 cut(s) 326
CfoI GCGC 4 cut(s) 395, 457, 534, 783
Cfr10I RCCGGY 2 cut(s) 735, 956
Cfr13I GGNCC 3 cut(s) 368, 733, 1038
CseI GACGC 4 cut(s) 312, 370, 455, 558
Csp6I GTAC 2 cut(s) 647, 887
CspAI ACCGGT 1 cut(s) 735
CviAII CATG 5 cut(s) 140, 180, 442, 596, 946
CviQI GTAC 2 cut(s) 647, 887
DdeI CTNAG 7 cut(s) 36, 344, 357, 468, 486, 633, 996
DpnI GATC 9 cut(s) 21, 144, 197, 219, 629, 744, 806, 969, 975
DpnII GATC 9 cut(s) 19, 142, 195, 217, 627, 742, 804, 967, 973
DriI GACNNNNNGTC 1 cut(s) 568
Eam1104I CTCTTC 1 cut(s) 493
Eam1105I GACNNNNNGTC 1 cut(s) 568
EarI CTCTTC 1 cut(s) 493
EciI GGCGGA 1 cut(s) 834
Eco130I CCWWGG 2 cut(s) 179, 450
Eco147I AGGCCT 1 cut(s) 716
Eco47I GGWCC 3 cut(s) 368, 733, 1038
Eco57I CTGAAG 2 cut(s) 389, 956
Eco88I CYCGRG 1 cut(s) 862
EcoO109I RGGNCCY 1 cut(s) 1038
EcoT14I CCWWGG 2 cut(s) 179, 450
EcoT22I ATGCAT 1 cut(s) 685
ErhI CCWWGG 2 cut(s) 179, 450
Esp3I CGTCTC 3 cut(s) 353, 487, 629
FaeI CATG 5 cut(s) 143, 183, 445, 599, 949
FaiI YATR 8 cut(s) 141, 181, 267, 310, 312, 443, 597, 947
FalI AAGNNNNNCTT 2 cut(s) 277, 309
FaqI GGGAC 1 cut(s) 1024
FatI CATG 5 cut(s) 139, 179, 441, 595, 945
FauNDI CATATG 1 cut(s) 310
FbaI TGATCA 1 cut(s) 142
FblI GTMKAC 1 cut(s) 675
Fnu4HI GCNGC 6 cut(s) 176, 462, 535, 896, 961, 964
FokI GGATG 2 cut(s) 247, 707
Fsp4HI GCNGC 6 cut(s) 176, 462, 535, 896, 961, 964
FspBI CTAG 2 cut(s) 578, 671
FspI TGCGCA 1 cut(s) 533
GlaI GCGC 4 cut(s) 394, 456, 533, 782
GluI GCNGC 6 cut(s) 176, 462, 535, 896, 961, 964
GsaI CCCAGC 1 cut(s) 549
GsuI CTGGAG 1 cut(s) 284
HaeII RGCGCY 2 cut(s) 396, 458
HaeIII GGCC 3 cut(s) 410, 716, 800
HapII CCGG 4 cut(s) 383, 736, 849, 957
HgaI GACGC 4 cut(s) 312, 370, 455, 558
HhaI GCGC 4 cut(s) 395, 457, 534, 783
Hin1I GRCGYC 1 cut(s) 447
Hin1II CATG 5 cut(s) 143, 183, 445, 599, 949
Hin6I GCGC 4 cut(s) 393, 455, 532, 781
HinP1I GCGC 4 cut(s) 393, 455, 532, 781
HincII GTYRAC 1 cut(s) 426
HindII GTYRAC 1 cut(s) 426
HindIII AAGCTT 1 cut(s) 57
HinfI GANTC 5 cut(s) 348, 472, 507, 640, 922
HpaII CCGG 4 cut(s) 383, 736, 849, 957
HphI GGTGA 2 cut(s) 799, 838
Hpy166II GTNNAC 3 cut(s) 306, 426, 676
Hpy188I TCNGA 7 cut(s) 102, 328, 347, 358, 688, 742, 1046
Hpy188III TCNNGA 4 cut(s) 65, 763, 926, 971
Hpy8I GTNNAC 3 cut(s) 306, 426, 676
Hpy99I CGWCG 1 cut(s) 256
HpyAV CCTTC 3 cut(s) 4, 303, 931
HpyCH4III ACNGT 2 cut(s) 317, 906
HpyCH4IV ACGT 3 cut(s) 767, 823, 834
HpyCH4V TGCA 4 cut(s) 106, 175, 683, 895
HpyF10VI GCNNNNNNNGC 2 cut(s) 461, 938
HpyF3I CTNAG 7 cut(s) 36, 344, 357, 468, 486, 633, 996
HpySE526I ACGT 3 cut(s) 767, 823, 834
Hsp92I GRCGYC 1 cut(s) 447
Hsp92II CATG 5 cut(s) 143, 183, 445, 599, 949
HspAI GCGC 4 cut(s) 393, 455, 532, 781
Ksp22I TGATCA 1 cut(s) 142
Kzo9I GATC 9 cut(s) 19, 142, 195, 217, 627, 742, 804, 967, 973
Lsp1109I GCAGC 4 cut(s) 187, 546, 907, 947
LweI GCATC 5 cut(s) 93, 103, 670, 692, 907
MaeI CTAG 2 cut(s) 578, 671
MaeII ACGT 3 cut(s) 767, 823, 834
MaeIII GTNAC 1 cut(s) 473
MalI GATC 9 cut(s) 21, 144, 197, 219, 629, 744, 806, 969, 975
MboI GATC 9 cut(s) 19, 142, 195, 217, 627, 742, 804, 967, 973
MflI RGATCY 1 cut(s) 742
MhlI GDGCHC 1 cut(s) 35
MluCI AATT 1 cut(s) 246
MlyI GAGTC 2 cut(s) 481, 649
MmeI TCCRAC 3 cut(s) 106, 185, 720
Mph1103I ATGCAT 1 cut(s) 685
MspI CCGG 4 cut(s) 383, 736, 849, 957
MspR9I CCNGG 1 cut(s) 384
MwoI GCNNNNNNNGC 2 cut(s) 461, 938
NciI CCSGG 1 cut(s) 384
NcoI CCATGG 1 cut(s) 179
NdeI CATATG 1 cut(s) 310
NdeII GATC 9 cut(s) 19, 142, 195, 217, 627, 742, 804, 967, 973
NheI GCTAGC 1 cut(s) 577
NlaIII CATG 5 cut(s) 143, 183, 445, 599, 949
NlaIV GGNNCC 1 cut(s) 1040
NmeAIII GCCGAG 3 cut(s) 436, 795, 826
NmuCI GTSAC 1 cut(s) 473
NsbI TGCGCA 1 cut(s) 533
NsiI ATGCAT 1 cut(s) 685
NspI RCATGY 1 cut(s) 599
PceI AGGCCT 1 cut(s) 716
PciI ACATGT 1 cut(s) 595
PcsI WCGNNNNNNNCGW 2 cut(s) 368, 566
PfeI GAWTC 3 cut(s) 348, 507, 922
PinAI ACCGGT 1 cut(s) 735
PkrI GCNGC 6 cut(s) 177, 463, 536, 897, 962, 965
PleI GAGTC 2 cut(s) 480, 648
PpsI GAGTC 2 cut(s) 480, 648
PpuMI RGGWCCY 1 cut(s) 1038
PscI ACATGT 1 cut(s) 595
Psp5II RGGWCCY 1 cut(s) 1038
PspFI CCCAGC 1 cut(s) 545
PspN4I GGNNCC 1 cut(s) 1040
PspPI GGNCC 3 cut(s) 368, 733, 1038
PspPPI RGGWCCY 1 cut(s) 1038
PstNI CAGNNNCTG 1 cut(s) 326
PsuI RGATCY 1 cut(s) 742
RsaI GTAC 2 cut(s) 648, 888
RsaNI GTAC 2 cut(s) 647, 887
SatI GCNGC 6 cut(s) 176, 462, 535, 896, 961, 964
Sau3AI GATC 9 cut(s) 19, 142, 195, 217, 627, 742, 804, 967, 973
Sau96I GGNCC 3 cut(s) 368, 733, 1038
SchI GAGTC 2 cut(s) 481, 649
ScrFI CCNGG 1 cut(s) 384
SduI GDGCHC 1 cut(s) 35
SfaNI GCATC 5 cut(s) 93, 103, 670, 692, 907
SinI GGWCC 3 cut(s) 368, 733, 1038
SmlI CTYRAG 2 cut(s) 784, 794
SmoI CTYRAG 2 cut(s) 784, 794
SpeI ACTAGT 1 cut(s) 670
Sse9I AATT 1 cut(s) 246
SseBI AGGCCT 1 cut(s) 716
SsiI CCGC 4 cut(s) 210, 462, 819, 963
SspMI CTAG 2 cut(s) 578, 671
StuI AGGCCT 1 cut(s) 716
StyD4I CCNGG 1 cut(s) 382
StyI CCWWGG 2 cut(s) 179, 450
TaaI ACNGT 2 cut(s) 317, 906
TaiI ACGT 3 cut(s) 770, 826, 837
TaqI TCGA 1 cut(s) 920
TaqII GACCGA 3 cut(s) 385, 389, 668
TasI AATT 1 cut(s) 246
TatI WGTACW 1 cut(s) 886
TauI GCSGC 2 cut(s) 464, 966
TfiI GAWTC 3 cut(s) 348, 507, 922
TscAI CASTG 1 cut(s) 939
TseFI GTSAC 1 cut(s) 473
TseI GCWGC 4 cut(s) 175, 534, 895, 960
Tsp45I GTSAC 1 cut(s) 473
TspDTI ATGAA 1 cut(s) 832
TspGWI ACGGA 2 cut(s) 240, 575
TspRI CASTG 1 cut(s) 939
VpaK11BI GGWCC 3 cut(s) 368, 733, 1038
XapI RAATTY 1 cut(s) 246
XceI RCATGY 1 cut(s) 599
XmiI GTMKAC 1 cut(s) 675
XspI CTAG 2 cut(s) 578, 671
Zsp2I ATGCAT 1 cut(s) 685
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.