MD13G1214900.v1.1

Protein LIGHT-DEPENDENT SHORT HYPOCOTYLS

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr13
OG0016485
Physical Location & Seq
Forward (+)
20365878 .. 20367092
1215 bp
Loading structure...
UTR
Exon/CDS
Intron
MD13G1214900.v1.1.491

Sequence Viewer

Length: 600 bp
ATGGATTCACTTGAAGAATTTGACCCTTCCAACTCATCAAATACTTCAAGCATCAACATCAACACCACCATCACTACCAACTCATCCTCCTCCTCCTCATTGTCACCGAGCTCCACTCTCAGCCGCTATGAGAACCAAAAGCGGCGAGACTGGAACACCTTCGGGCAGTACCTCCGCAACCACAGGCCACCGCTGTCCCTCTCGCGGTGCAGTGGGGCCCACGTGCTTGAATTCCTCAAGTACCTAGACCAGTTTGGGAAGACCAAGGTGCACATCCAGATGTGTCCCTTCTTCGGGAACCCTAACCCTCCTGCACCGTGCCCCTGCCCTCTGCGGCAAGCTTGGGGAAGCCTCGATGCCCTCATTGGCCGCCTCAGAGCCGCCTTTGAAGAGCACGGCGGGAAGCCTGAGGCAAACCCTTTTGGGGCTCGTGCTGTGAGGCTTTACCTGCGTGAGGTTCGAGATTCTCAGGCCAAAGCCAGAGGAATTAGCTACGAAAAGAAGAAGCGGAAGCGCCCACCACAGAGTAGTAGTACTACTACTAGTACTATTCTTCCAGTTCAAGCAATACCGCCTCCAGCTCCTCGTAGTGCAAGCTAA
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
DUF640

Protein Analysis

200

Amino Acids

22.05

Weight (kDa)

9.97

Isoelectric Point (pI)

64.59

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
ALOG_dom PF04852 31 - 155 6.3e-67 ALOG 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: OG0016485)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G23290
fragaria_vesca FvH4_4g03750
malus_domestica MD13G1214900.v1.1 MD16G1220100.v1.1
prunus_persica Prupe.1G040300_v2.0.a1
rosa_chinensis RchiOBHm_Chr4g0393491
rosa_laevigata RLG00000009744 RLG00000009749
rosa_roxburghii Rroxscaffold_5G00338420
rosa_rugosa Rorug04G0001000
rosa_samantha Rh4AG047700 Rh4BG043600 Rh4CG050400
rosa_wichuraiana Rw4G003760

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 456
AccII CGCG 1 cut(s) 205
AcoI YGGCCR 1 cut(s) 367
AcsI RAATTY 2 cut(s) 17, 230
AcvI CACGTG 1 cut(s) 223
AfaI GTAC 4 cut(s) 170, 242, 535, 547
AfiI CCNNNNNNNGG 5 cut(s) 204, 293, 294, 424, 454
AgsI TTSAA 5 cut(s) 14, 48, 230, 389, 563
AhlI ACTAGT 1 cut(s) 542
AluBI AGCT 5 cut(s) 111, 341, 492, 581, 597
AluI AGCT 5 cut(s) 111, 341, 492, 581, 597
Alw21I GWGCWC 3 cut(s) 113, 273, 396
Alw26I GTCTC 1 cut(s) 141
Alw44I GTGCAC 1 cut(s) 269
AoxI GGCC 4 cut(s) 185, 216, 367, 471
ApaI GGGCCC 1 cut(s) 220
ApaLI GTGCAC 1 cut(s) 269
ApoI RAATTY 2 cut(s) 17, 230
Asp700I GAANNNNTTC 1 cut(s) 158
AspLEI GCGC 1 cut(s) 516
AspS9I GGNCC 2 cut(s) 216, 217
AsuHPI GGTGA 1 cut(s) 96
AxyI CCTNAGG 1 cut(s) 408
BaeGI GKGCMC 3 cut(s) 220, 273, 323
BanII GRGCYC 3 cut(s) 113, 220, 430
BauI CACGAG 1 cut(s) 429
BbrPI CACGTG 1 cut(s) 223
BbsI GAAGAC 1 cut(s) 266
Bbv12I GWGCWC 3 cut(s) 113, 273, 396
BccI CCATC 1 cut(s) 77
BceAI ACGGC 1 cut(s) 412
BcoDI GTCTC 1 cut(s) 141
BcuI ACTAGT 1 cut(s) 542
BfaI CTAG 2 cut(s) 245, 543
BfoI RGCGCY 1 cut(s) 517
BfuAI ACCTGC 1 cut(s) 456
BisI GCNGC 5 cut(s) 124, 143, 335, 370, 381
BlsI GCNGC 5 cut(s) 125, 144, 336, 371, 382
BmcAI AGTACT 2 cut(s) 535, 547
BmgT120I GGNCC 2 cut(s) 216, 217
BmiI GGNNCC 3 cut(s) 217, 218, 299
BmsI GCATC 2 cut(s) 60, 346
BpiI GAAGAC 1 cut(s) 266
BplI GAGNNNNNCTC 2 cut(s) 100, 132
BpmI CTGGAG 1 cut(s) 561
BpuEI CTTGAG 1 cut(s) 221
BsaAI YACGTR 1 cut(s) 223
BsaJI CCNNGG 1 cut(s) 264
BsaXI ACNNNNNCTCC 2 cut(s) 71, 101
Bsc4I CCNNNNNNNGG 5 cut(s) 204, 293, 294, 424, 454
Bse1I ACTGG 3 cut(s) 155, 250, 557
Bse21I CCTNAGG 1 cut(s) 408
BseDI CCNNGG 1 cut(s) 264
BseGI GGATG 2 cut(s) 83, 273
BseLI CCNNNNNNNGG 5 cut(s) 204, 293, 294, 424, 454
BseMII CTCAG 4 cut(s) 133, 388, 399, 482
BseNI ACTGG 3 cut(s) 155, 250, 557
BseRI GAGGAG 4 cut(s) 79, 82, 85, 573
BseSI GKGCMC 3 cut(s) 220, 273, 323
BsgI GTGCAG 2 cut(s) 229, 297
Bsh1236I CGCG 1 cut(s) 205
BshFI GGCC 4 cut(s) 187, 218, 369, 473
BsiHKAI GWGCWC 3 cut(s) 113, 273, 396
BslFI GGGAC 2 cut(s) 181, 270
BslI CCNNNNNNNGG 5 cut(s) 204, 293, 294, 424, 454
BsmAI GTCTC 1 cut(s) 141
BsmFI GGGAC 2 cut(s) 181, 270
BsnI GGCC 4 cut(s) 187, 218, 369, 473
Bsp120I GGGCCC 1 cut(s) 216
Bsp1286I GDGCHC 6 cut(s) 113, 220, 273, 323, 396, 430
BspANI GGCC 4 cut(s) 187, 218, 369, 473
BspCNI CTCAG 4 cut(s) 132, 387, 400, 481
BspFNI CGCG 1 cut(s) 205
BspLI GGNNCC 3 cut(s) 217, 218, 299
BspMI ACCTGC 1 cut(s) 456
BspQI GCTCTTC 1 cut(s) 384
BsrI ACTGG 3 cut(s) 155, 250, 557
BssECI CCNNGG 1 cut(s) 264
BssSI CACGAG 1 cut(s) 429
BssT1I CCWWGG 1 cut(s) 264
Bst2BI CACGAG 1 cut(s) 429
Bst4CI ACNGT 1 cut(s) 318
Bst6I CTCTTC 1 cut(s) 384
BstBAI YACGTR 1 cut(s) 223
BstC8I GCNNGC 2 cut(s) 339, 595
BstDEI CTNAG 4 cut(s) 119, 374, 408, 468
BstENI CCTNNNNNAGG 1 cut(s) 452
BstF5I GGATG 2 cut(s) 83, 273
BstFNI CGCG 1 cut(s) 205
BstH2I RGCGCY 1 cut(s) 517
BstHHI GCGC 1 cut(s) 516
BstMAI GTCTC 1 cut(s) 141
BstMWI GCNNNNNNNGC 1 cut(s) 448
BstSLI GKGCMC 3 cut(s) 220, 273, 323
BstUI CGCG 1 cut(s) 205
BstV2I GAAGAC 1 cut(s) 266
Bsu36I CCTNAGG 1 cut(s) 408
BsuRI GGCC 4 cut(s) 187, 218, 369, 473
BtsCI GGATG 2 cut(s) 83, 273
BtsI GCAGTG 1 cut(s) 217
BtsIMutI CAGTG 1 cut(s) 217
BveI ACCTGC 1 cut(s) 456
Cac8I GCNNGC 2 cut(s) 339, 595
CfoI GCGC 1 cut(s) 516
Cfr13I GGNCC 2 cut(s) 216, 217
Csp6I GTAC 4 cut(s) 169, 241, 534, 546
CviQI GTAC 4 cut(s) 169, 241, 534, 546
DdeI CTNAG 4 cut(s) 119, 374, 408, 468
EaeI YGGCCR 1 cut(s) 367
Eam1104I CTCTTC 1 cut(s) 384
EarI CTCTTC 1 cut(s) 384
Ecl136II GAGCTC 1 cut(s) 111
Eco130I CCWWGG 1 cut(s) 264
Eco24I GRGCYC 3 cut(s) 113, 220, 430
Eco53kI GAGCTC 1 cut(s) 111
Eco72I CACGTG 1 cut(s) 223
Eco81I CCTNAGG 1 cut(s) 408
EcoICRI GAGCTC 1 cut(s) 111
EcoNI CCTNNNNNAGG 1 cut(s) 452
EcoO109I RGGNCCY 1 cut(s) 216
EcoRI GAATTC 1 cut(s) 230
EcoT14I CCWWGG 1 cut(s) 264
EcoT38I GRGCYC 3 cut(s) 113, 220, 430
ErhI CCWWGG 1 cut(s) 264
FaiI YATR 1 cut(s) 129
FaqI GGGAC 2 cut(s) 181, 270
FauI CCCGC 1 cut(s) 392
Fnu4HI GCNGC 5 cut(s) 124, 143, 335, 370, 381
FokI GGATG 2 cut(s) 70, 260
FriOI GRGCYC 3 cut(s) 113, 220, 430
Fsp4HI GCNGC 5 cut(s) 124, 143, 335, 370, 381
FspBI CTAG 2 cut(s) 245, 543
GlaI GCGC 1 cut(s) 515
GluI GCNGC 5 cut(s) 124, 143, 335, 370, 381
GsuI CTGGAG 1 cut(s) 561
HaeII RGCGCY 1 cut(s) 517
HaeIII GGCC 4 cut(s) 187, 218, 369, 473
HhaI GCGC 1 cut(s) 516
Hin6I GCGC 1 cut(s) 514
HinP1I GCGC 1 cut(s) 514
HindIII AAGCTT 1 cut(s) 339
HinfI GANTC 2 cut(s) 5, 464
HphI GGTGA 1 cut(s) 96
Hpy166II GTNNAC 1 cut(s) 271
Hpy188I TCNGA 1 cut(s) 377
Hpy188III TCNNGA 3 cut(s) 277, 295, 461
Hpy8I GTNNAC 1 cut(s) 271
HpyAV CCTTC 3 cut(s) 36, 169, 298
HpyCH4III ACNGT 1 cut(s) 318
HpyCH4IV ACGT 1 cut(s) 222
HpyCH4V TGCA 4 cut(s) 210, 271, 314, 593
HpyF10VI GCNNNNNNNGC 1 cut(s) 448
HpyF3I CTNAG 4 cut(s) 119, 374, 408, 468
HpySE526I ACGT 1 cut(s) 222
HspAI GCGC 1 cut(s) 514
LguI GCTCTTC 1 cut(s) 384
LmnI GCTCC 2 cut(s) 116, 586
LweI GCATC 2 cut(s) 60, 346
MaeI CTAG 2 cut(s) 245, 543
MaeII ACGT 1 cut(s) 222
MaeIII GTNAC 1 cut(s) 102
MboII GAAGA 6 cut(s) 26, 271, 283, 401, 514, 545
MhlI GDGCHC 6 cut(s) 113, 220, 273, 323, 396, 430
MluCI AATT 3 cut(s) 17, 230, 486
MmeI TCCRAC 1 cut(s) 54
MroXI GAANNNNTTC 1 cut(s) 158
MslI CAYNNNNRTG 1 cut(s) 278
MspA1I CMGCKG 1 cut(s) 193
MvnI CGCG 1 cut(s) 205
MwoI GCNNNNNNNGC 1 cut(s) 448
NlaIV GGNNCC 3 cut(s) 217, 218, 299
NmuCI GTSAC 1 cut(s) 102
PciSI GCTCTTC 1 cut(s) 384
PdmI GAANNNNTTC 1 cut(s) 158
PfeI GAWTC 2 cut(s) 5, 464
PkrI GCNGC 5 cut(s) 125, 144, 336, 371, 382
PmaCI CACGTG 1 cut(s) 223
PmlI CACGTG 1 cut(s) 223
Ppu21I YACGTR 1 cut(s) 223
Psp124BI GAGCTC 1 cut(s) 113
PspCI CACGTG 1 cut(s) 223
PspN4I GGNNCC 3 cut(s) 217, 218, 299
PspOMI GGGCCC 1 cut(s) 216
PspPI GGNCC 2 cut(s) 216, 217
RsaI GTAC 4 cut(s) 170, 242, 535, 547
RsaNI GTAC 4 cut(s) 169, 241, 534, 546
RseI CAYNNNNRTG 1 cut(s) 278
SacI GAGCTC 1 cut(s) 113
SapI GCTCTTC 1 cut(s) 384
SatI GCNGC 5 cut(s) 124, 143, 335, 370, 381
Sau96I GGNCC 2 cut(s) 216, 217
ScaI AGTACT 2 cut(s) 535, 547
SduI GDGCHC 6 cut(s) 113, 220, 273, 323, 396, 430
SfaNI GCATC 2 cut(s) 60, 346
SmiMI CAYNNNNRTG 1 cut(s) 278
SmlI CTYRAG 1 cut(s) 236
SmoI CTYRAG 1 cut(s) 236
SpeI ACTAGT 1 cut(s) 542
Sse9I AATT 3 cut(s) 17, 230, 486
SspMI CTAG 2 cut(s) 245, 543
SstI GAGCTC 1 cut(s) 113
StyI CCWWGG 1 cut(s) 264
TaaI ACNGT 1 cut(s) 318
TaiI ACGT 1 cut(s) 225
TaqI TCGA 2 cut(s) 354, 460
TasI AATT 3 cut(s) 17, 230, 486
TatI WGTACW 2 cut(s) 533, 545
TauI GCSGC 5 cut(s) 126, 145, 337, 372, 383
TfiI GAWTC 2 cut(s) 5, 464
TscAI CASTG 1 cut(s) 217
TseFI GTSAC 1 cut(s) 102
Tsp45I GTSAC 1 cut(s) 102
TspRI CASTG 1 cut(s) 217
VneI GTGCAC 1 cut(s) 269
XagI CCTNNNNNAGG 1 cut(s) 452
XapI RAATTY 2 cut(s) 17, 230
XmnI GAANNNNTTC 1 cut(s) 158
XspI CTAG 2 cut(s) 245, 543
ZrmI AGTACT 2 cut(s) 535, 547
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.