MD02G1116500.v1.1

High mobility group B protein 3-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr02
OG0012733
Physical Location & Seq
Reverse (-)
9503487 .. 9507811
4325 bp
Loading structure...
UTR
Exon/CDS
Intron
MD02G1116500.v1.1.491

Sequence Viewer

Length: 651 bp
ATGAATGTCTACTCTTCCAGTATGCTCGTGTATTTTAGAGCTTGTTTGAAAATCGAAATTCGGTTTTGCCCCTTCTTAATTCCTTCTTATCCCCCCCCCTTCGGCCCTTTCGCCAATTTCACATCCACGCACCGCAACAACAAAAACAAGGGCGTAGTTTACTCTCTCTCTCCGCGTCTTCGTCTTGTTCTCGAAAACCCTAGGTTCGCCATGGGTAAAGCCAGGGCTGCTGCCCCCAAACGCGATACGAAGTTGAAGAGCAAGAGTGCCGGAGCGAGCAAGAAGCCGGCGAAGAAAGCCGGAAAGGATCCGAACAAGCCGAAGAGGCCTGCGAGTGCCTTCTTCGTTTTCATGGAGGACTTCAGAGAGAAGTACAAGAAGGAGCATCCAAACAACAAGTCGGTTGCTGCCGTCGGTAAAGCTGGTGGCGATAAATGGAAATCGTTGTCAGATGCCGAGAAAGCTCCCTATCAAGCCAAGGCAGACAAGAGGAAGGTAGAATATAACAAGAACATTCAGGCATACAACAAGCAATTAGCTGATGGAAATAATGAAGCTGATGAAGAAGAGTCTGACAAGTCCAAGTCTGAGGTAAATGACGATGATGAAGACGAGGACGAGAGCGGCGAGGAGGAAGACGATGATGAGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03410 ko04140 ko04217 map03410 map04140 map04217
Pfam Domains
Protein Families
HMG_box

Protein Analysis

217

Amino Acids

24.31

Weight (kDa)

8.94

Isoelectric Point (pI)

47.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HMG_box_2 PF09011 104 - 175 1.3e-13 HMG-box domain
HMG_box PF00505 107 - 176 5.8e-23 HMG (high mobility group) box
HMG_WDHD1 PF24815 110 - 160 5.9e-10 WDHD1 HMG box
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: OG0012733)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G17560 AT2G17560 AT2G17560 AT4G35570 AT4G35570
fragaria_vesca FvH4_1g10340
malus_domestica MD02G1116500.v1.1 MD02G1116600.v1.1 MD15G1231500.v1.1 MD15G1231700.v1.1
prunus_persica Prupe.7G182700_v2.0.a1 Prupe.7G182800_v2.0.a1
pyrus_communis pycom02g09050
rosa_chinensis RchiOBHm_Chr2g0097191
rosa_multiflora Rmu_sc0001182.1_g000011
rosa_roxburghii Rroxscaffold_2G00144890
rosa_rugosa Rorug02G0065500
rosa_wichuraiana Rw2G008730

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 624
AccI GTMKAC 1 cut(s) 9
AccII CGCG 2 cut(s) 175, 243
AciI CCGC 3 cut(s) 133, 173, 624
AclWI GGATC 2 cut(s) 302, 315
AcsI RAATTY 1 cut(s) 57
AcuI CTGAAG 1 cut(s) 346
AfaI GTAC 1 cut(s) 374
AfiI CCNNNNNNNGG 1 cut(s) 101
AgsI TTSAA 2 cut(s) 49, 256
AjnI CCWGG 1 cut(s) 221
AluBI AGCT 5 cut(s) 41, 422, 464, 539, 557
AluI AGCT 5 cut(s) 41, 422, 464, 539, 557
AlwI GGATC 2 cut(s) 302, 315
AoxI GGCC 2 cut(s) 103, 326
ApeKI GCWGC 3 cut(s) 227, 230, 407
ApoI RAATTY 1 cut(s) 57
ArsI GACNNNNNNTTYG 2 cut(s) 383, 415
AspA2I CCTAGG 1 cut(s) 200
AspS9I GGNCC 1 cut(s) 104
AvrII CCTAGG 1 cut(s) 200
BamHI GGATCC 1 cut(s) 307
BauI CACGAG 1 cut(s) 26
BbsI GAAGAC 3 cut(s) 170, 615, 642
BbvI GCAGC 3 cut(s) 214, 217, 394
BccI CCATC 1 cut(s) 536
BceAI ACGGC 1 cut(s) 395
BciT130I CCWGG 1 cut(s) 223
BfaI CTAG 1 cut(s) 201
BglI GCCNNNNNGGC 1 cut(s) 325
BisI GCNGC 4 cut(s) 228, 231, 408, 625
BlnI CCTAGG 1 cut(s) 200
BlsI GCNGC 4 cut(s) 229, 232, 409, 626
Bme1390I CCNGG 1 cut(s) 223
BmgT120I GGNCC 1 cut(s) 104
BmiI GGNNCC 1 cut(s) 309
BmrFI CCNGG 1 cut(s) 223
BmsI GCATC 2 cut(s) 394, 442
BpiI GAAGAC 3 cut(s) 170, 615, 642
BsaJI CCNNGG 4 cut(s) 200, 210, 222, 477
Bsc4I CCNNNNNNNGG 1 cut(s) 101
Bse118I RCCGGY 1 cut(s) 286
Bse1I ACTGG 1 cut(s) 18
BseBI CCWGG 1 cut(s) 223
BseDI CCNNGG 4 cut(s) 200, 210, 222, 477
BseGI GGATG 2 cut(s) 122, 385
BseLI CCNNNNNNNGG 1 cut(s) 101
BseMII CTCAG 1 cut(s) 579
BseNI ACTGG 1 cut(s) 18
BseRI GAGGAG 1 cut(s) 644
BseXI GCAGC 3 cut(s) 214, 217, 394
Bsh1236I CGCG 2 cut(s) 175, 243
BshFI GGCC 2 cut(s) 105, 328
BsiSI CCGG 3 cut(s) 270, 287, 300
BslI CCNNNNNNNGG 1 cut(s) 101
BsnI GGCC 2 cut(s) 105, 328
Bsp143I GATC 1 cut(s) 307
Bsp19I CCATGG 1 cut(s) 210
BspACI CCGC 3 cut(s) 133, 173, 624
BspANI GGCC 2 cut(s) 105, 328
BspCNI CTCAG 1 cut(s) 580
BspFNI CGCG 2 cut(s) 175, 243
BspLI GGNNCC 1 cut(s) 309
BspPI GGATC 2 cut(s) 302, 315
BspQI GCTCTTC 1 cut(s) 251
BsrBI CCGCTC 1 cut(s) 624
BsrFI RCCGGY 1 cut(s) 286
BsrI ACTGG 1 cut(s) 18
BssAI RCCGGY 1 cut(s) 286
BssECI CCNNGG 4 cut(s) 200, 210, 222, 477
BssMI GATC 1 cut(s) 307
BssSI CACGAG 1 cut(s) 26
BssT1I CCWWGG 3 cut(s) 200, 210, 477
Bst2BI CACGAG 1 cut(s) 26
Bst2UI CCWGG 1 cut(s) 223
Bst6I CTCTTC 4 cut(s) 19, 251, 317, 561
BstC8I GCNNGC 3 cut(s) 277, 288, 330
BstDEI CTNAG 1 cut(s) 588
BstDSI CCRYGG 1 cut(s) 210
BstF5I GGATG 2 cut(s) 122, 385
BstFNI CGCG 2 cut(s) 175, 243
BstKTI GATC 1 cut(s) 310
BstMBI GATC 1 cut(s) 307
BstMWI GCNNNNNNNGC 4 cut(s) 227, 296, 325, 461
BstNI CCWGG 1 cut(s) 223
BstSCI CCNGG 1 cut(s) 221
BstUI CGCG 2 cut(s) 175, 243
BstV1I GCAGC 3 cut(s) 214, 217, 394
BstV2I GAAGAC 3 cut(s) 170, 615, 642
BstX2I RGATCY 1 cut(s) 307
BstYI RGATCY 1 cut(s) 307
BsuRI GGCC 2 cut(s) 105, 328
BtgI CCRYGG 1 cut(s) 210
BtsCI GGATG 2 cut(s) 122, 385
Cac8I GCNNGC 3 cut(s) 277, 288, 330
Cfr10I RCCGGY 1 cut(s) 286
Cfr13I GGNCC 1 cut(s) 104
CseI GACGC 1 cut(s) 164
Csp6I GTAC 1 cut(s) 373
CviAII CATG 2 cut(s) 211, 352
CviQI GTAC 1 cut(s) 373
DdeI CTNAG 1 cut(s) 588
DpnI GATC 1 cut(s) 309
DpnII GATC 1 cut(s) 307
Eam1104I CTCTTC 4 cut(s) 19, 251, 317, 561
EarI CTCTTC 4 cut(s) 19, 251, 317, 561
Eco130I CCWWGG 3 cut(s) 200, 210, 477
Eco147I AGGCCT 1 cut(s) 328
Eco57I CTGAAG 1 cut(s) 346
EcoRII CCWGG 1 cut(s) 221
EcoT14I CCWWGG 3 cut(s) 200, 210, 477
ErhI CCWWGG 3 cut(s) 200, 210, 477
FaeI CATG 2 cut(s) 214, 355
FaiI YATR 5 cut(s) 23, 212, 353, 504, 523
FatI CATG 2 cut(s) 210, 351
FblI GTMKAC 1 cut(s) 9
Fnu4HI GCNGC 4 cut(s) 228, 231, 408, 625
FokI GGATG 2 cut(s) 109, 372
Fsp4HI GCNGC 4 cut(s) 228, 231, 408, 625
FspBI CTAG 1 cut(s) 201
GluI GCNGC 4 cut(s) 228, 231, 408, 625
HaeIII GGCC 2 cut(s) 105, 328
HapII CCGG 3 cut(s) 270, 287, 300
HgaI GACGC 1 cut(s) 164
Hin1II CATG 2 cut(s) 214, 355
HinfI GANTC 1 cut(s) 569
HpaII CCGG 3 cut(s) 270, 287, 300
Hpy166II GTNNAC 2 cut(s) 10, 160
Hpy188I TCNGA 5 cut(s) 312, 365, 451, 574, 589
Hpy188III TCNNGA 1 cut(s) 191
Hpy8I GTNNAC 2 cut(s) 10, 160
Hpy99I CGWCG 1 cut(s) 416
HpyAV CCTTC 6 cut(s) 82, 93, 109, 349, 373, 487
HpyF10VI GCNNNNNNNGC 4 cut(s) 227, 296, 325, 461
HpyF3I CTNAG 1 cut(s) 588
Hsp92II CATG 2 cut(s) 214, 355
KroI GCCGGC 1 cut(s) 286
KroNI GCCGGC 1 cut(s) 288
Kzo9I GATC 1 cut(s) 307
LguI GCTCTTC 1 cut(s) 251
LmnI GCTCC 3 cut(s) 272, 382, 469
LpnPI CCDG 9 cut(s) 31, 208, 235, 283, 300, 313, 342, 408, 503
Lsp1109I GCAGC 3 cut(s) 214, 217, 394
LweI GCATC 2 cut(s) 394, 442
MaeI CTAG 1 cut(s) 201
MalI GATC 1 cut(s) 309
MbiI CCGCTC 1 cut(s) 624
MboI GATC 1 cut(s) 307
MflI RGATCY 1 cut(s) 307
MluCI AATT 4 cut(s) 57, 78, 115, 533
MlyI GAGTC 1 cut(s) 578
MnlI CCTC 7 cut(s) 318, 349, 483, 583, 607, 622, 625
MroNI GCCGGC 1 cut(s) 286
MseI TTAA 1 cut(s) 77
MspI CCGG 3 cut(s) 270, 287, 300
MspR9I CCNGG 1 cut(s) 223
MvaI CCWGG 1 cut(s) 223
MvnI CGCG 2 cut(s) 175, 243
MwoI GCNNNNNNNGC 4 cut(s) 227, 296, 325, 461
NaeI GCCGGC 1 cut(s) 288
NcoI CCATGG 1 cut(s) 210
NdeII GATC 1 cut(s) 307
NgoMIV GCCGGC 1 cut(s) 286
NlaIII CATG 2 cut(s) 214, 355
NlaIV GGNNCC 1 cut(s) 309
NmeAIII GCCGAG 1 cut(s) 481
PceI AGGCCT 1 cut(s) 328
PciSI GCTCTTC 1 cut(s) 251
PcsI WCGNNNNNNNCGW 1 cut(s) 624
PdiI GCCGGC 1 cut(s) 288
PkrI GCNGC 4 cut(s) 229, 232, 409, 626
PleI GAGTC 1 cut(s) 577
PpsI GAGTC 1 cut(s) 577
Psp6I CCWGG 1 cut(s) 221
PspGI CCWGG 1 cut(s) 221
PspN4I GGNNCC 1 cut(s) 309
PspPI GGNCC 1 cut(s) 104
PsuI RGATCY 1 cut(s) 307
RsaI GTAC 1 cut(s) 374
RsaNI GTAC 1 cut(s) 373
SapI GCTCTTC 1 cut(s) 251
SaqAI TTAA 1 cut(s) 77
SatI GCNGC 4 cut(s) 228, 231, 408, 625
Sau3AI GATC 1 cut(s) 307
Sau96I GGNCC 1 cut(s) 104
SchI GAGTC 1 cut(s) 578
ScrFI CCNGG 1 cut(s) 223
SetI ASST 8 cut(s) 43, 206, 424, 466, 498, 541, 559, 594
SfaNI GCATC 2 cut(s) 394, 442
Sse9I AATT 4 cut(s) 57, 78, 115, 533
SseBI AGGCCT 1 cut(s) 328
SsiI CCGC 3 cut(s) 133, 173, 624
SspMI CTAG 1 cut(s) 201
StuI AGGCCT 1 cut(s) 328
StyD4I CCNGG 1 cut(s) 221
StyI CCWWGG 3 cut(s) 200, 210, 477
TaqI TCGA 2 cut(s) 54, 192
TasI AATT 4 cut(s) 57, 78, 115, 533
TatI WGTACW 1 cut(s) 372
TauI GCSGC 1 cut(s) 627
Tru1I TTAA 1 cut(s) 77
Tru9I TTAA 1 cut(s) 77
TseI GCWGC 3 cut(s) 227, 230, 407
TspDTI ATGAA 5 cut(s) 17, 340, 567, 576, 621
XapI RAATTY 1 cut(s) 57
XmaJI CCTAGG 1 cut(s) 200
XmiI GTMKAC 1 cut(s) 9
XspI CTAG 1 cut(s) 201
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.