MD15G1308200.v1.1

Rhamnogalacturonate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr15
OG0000523
Physical Location & Seq
Forward (+)
30885201 .. 30886619
1419 bp
Loading structure...
UTR
Exon/CDS
Intron
MD15G1308200.v1.1.491

Sequence Viewer

Length: 810 bp
ATGTTACATGGTAACCGTTTGGGTTATCAGTTCTGGACTCAAGCTAATGAGCAAGGTTATTTCCTTATCAAAGATGCTCGACCTGGAAATTATAGTTTGTATGCAACTGTTCCCGGCATTATTGGGGATTACAAATATGAGGCTAATATTACAATTGAACCACGAAGTGAAATCAATTTGGCTAATCTTACCTACGTACCTCCAAGAAATGGTCTCACCCTATGGGAAATTGGCATACCAGATCGATCCGCGGCCGAGTTTAACGTACCCGATCCAAATCCCACCCTTATGAACAAATTGTTCACTACCAATCATGCAAACAAGTTTAGGCAATATGGCTTGTGGGAACGATATGCAGATTTATACCCCGATGAGGATCTCATCTATACCGTTGGTACTGATAATTACAGTGATAATTGGTTCTTCGCTCATGTGACAAGGAACATTGGAAATCATACGTATGAACCAACAACATGGAAAATTCTATTTGAACTTCAAAATTTGACAAATCCAGGAAATTATACACTCCAGTTAGCATTGGCCTCAGCCACTAATGCAGAAGTTCAGGTTCGATTCAACAACCAGAGCGCCTTCCCACCTCATTTTACGACAGGGCTAATCGGGAGGGACAATGCCGTAGCTAGGCATGGAATTCATGGTTTGTACTGGTTGTTCAGTATTATTGGACCGAGCTATCAACTACGAGAAGGAAACAACGCCATCTATCTTACCCAGTCAAGGAGCTTGGGCACTTTCGAAGGAGTGATGTACGACTATATCCGACTAGAAGGACCCCCTCCTCGAAAGTGA
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
CBM-like Rhamnogal_lyase fn3_3

Protein Analysis

270

Amino Acids

30.8

Weight (kDa)

5.97

Isoelectric Point (pI)

32.99

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
fn3_3 PF14686 7 - 60 9.7e-15 Polysaccharide lyase family 4, domain II
CBM-like PF14683 73 - 262 3e-47 Polysaccharide lyase family 4, domain III
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: OG0000523)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G65210 AT2G22620 AT2G22620 AT2G22620 AT2G22620 AT2G22620 AT4G37950 AT4G37950 AT4G38030
fragaria_vesca FvH4_1g03290 FvH4_1g03300 FvH4_1g19194 FvH4_1g19194 FvH4_1g19194 FvH4_1g19194 FvH4_1g19194 FvH4_1g19194 FvH4_1g19200
malus_domestica MD01G1043200.v1.1 MD01G1043300.v1.1 MD02G1298500.v1.1 MD02G1307100.v1.1 MD04G1240500.v1.1 MD12G1256900.v1.1 MD12G1257400.v1.1 MD12G1257500.v1.1 MD15G1308100.v1.1 MD15G1308200.v1.1
prunus_persica Prupe.6G208400_v2.0.a1 Prupe.6G208400_v2.0.a1 Prupe.6G208400_v2.0.a1
pyrus_communis pycom01g07080 pycom15g27240
rosa_chinensis RchiOBHm_Chr2g0088421 RchiOBHm_Chr2g0088461 RchiOBHm_Chr2g0088481 RchiOBHm_Chr2g0110401 RchiOBHm_Chr2g0110411 RchiOBHm_Chr2g0110431
rosa_laevigata RLG00000003093 RLG00000015953 RLG00000015956 RLG00000015959 RLG00000017802 RLG00000017806
rosa_multiflora Rmu_sc0001393.1_g000003 Rmu_sc0001393.1_g000009 Rmu_sc0004733.1_g000013 Rmu_sc0004733.1_g000022
rosa_roxburghii Rroxscaffold_2G00133400 Rroxscaffold_2G00133420 Rroxscaffold_2G00152640 Rroxscaffold_2G00152680
rosa_rugosa Rorug01G0484000 Rorug01G0484200 Rorug01G0484600 Rorug02G0166800 Rorug02G0166900 Rorug02G0167000 Rorug02G0167500 Rorug02G0167600 Rorug02G0167800 Rorug02G0167800 Rorug07G0116100
rosa_samantha Rh2AG038500 Rh2AG038800 Rh2AG039000 Rh2AG219300 Rh2AG219400 Rh2BG038100 Rh2BG038400 Rh2BG228800 Rh2BG229000 Rh2CG039000 Rh2CG039600 Rh2CG221000 Rh2CG221200 Rh2DG038600 Rh2DG038800 Rh2DG225500 Rh2DG225600
rosa_wichuraiana Rw2G003060 Rw2G003080 Rw2G016930 Rw2G016940

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 209
AccII CGCG 1 cut(s) 251
AciI CCGC 2 cut(s) 249, 251
AclWI GGATC 3 cut(s) 240, 266, 384
AcoI YGGCCR 1 cut(s) 252
AcsI RAATTY 3 cut(s) 480, 499, 651
AdeI CACNNNGTG 1 cut(s) 167
AfaI GTAC 5 cut(s) 198, 267, 397, 665, 770
AfiI CCNNNNNNNGG 4 cut(s) 209, 373, 642, 738
AgsI TTSAA 4 cut(s) 158, 491, 497, 577
AjnI CCWGG 2 cut(s) 82, 511
AluBI AGCT 4 cut(s) 44, 641, 693, 744
AluI AGCT 4 cut(s) 44, 641, 693, 744
Alw26I GTCTC 1 cut(s) 218
AlwI GGATC 3 cut(s) 240, 266, 384
AoxI GGCC 2 cut(s) 252, 540
ApoI RAATTY 3 cut(s) 480, 499, 651
AspLEI GCGC 1 cut(s) 590
AspS9I GGNCC 2 cut(s) 686, 791
AsuC2I CCSGG 1 cut(s) 114
AsuHPI GGTGA 1 cut(s) 208
AsuII TTCGAA 1 cut(s) 756
AvaII GGWCC 2 cut(s) 686, 791
BaeGI GKGCMC 1 cut(s) 752
BaeI ACNNNNGTAYC 2 cut(s) 180, 213
BbvCI CCTCAGC 1 cut(s) 544
BccI CCATC 1 cut(s) 728
BceAI ACGGC 1 cut(s) 620
BciT130I CCWGG 2 cut(s) 84, 513
BcnI CCSGG 1 cut(s) 114
BcoDI GTCTC 1 cut(s) 218
BfaI CTAG 2 cut(s) 642, 785
BfoI RGCGCY 1 cut(s) 591
BisI GCNGC 1 cut(s) 252
BlsI GCNGC 1 cut(s) 253
Bme1390I CCNGG 3 cut(s) 84, 114, 513
Bme18I GGWCC 2 cut(s) 686, 791
BmgT120I GGNCC 2 cut(s) 686, 791
BmiI GGNNCC 1 cut(s) 793
BmrFI CCNGG 3 cut(s) 84, 114, 513
BmrI ACTGGG 1 cut(s) 727
BmsI GCATC 1 cut(s) 64
BmuI ACTGGG 1 cut(s) 727
BpmI CTGGAG 1 cut(s) 512
Bpu10I CCTNAGC 1 cut(s) 544
Bpu14I TTCGAA 1 cut(s) 756
BpuEI CTTGAG 1 cut(s) 24
BpuMI CCSGG 1 cut(s) 114
Bsa29I ATCGAT 1 cut(s) 244
BsaAI YACGTR 2 cut(s) 196, 459
BsaBI GATNNNNATC 2 cut(s) 276, 375
BsaI GGTCTC 1 cut(s) 218
BsaJI CCNNGG 1 cut(s) 249
Bsc4I CCNNNNNNNGG 4 cut(s) 209, 373, 642, 738
Bse1I ACTGG 3 cut(s) 529, 671, 733
Bse8I GATNNNNATC 2 cut(s) 276, 375
BseBI CCWGG 2 cut(s) 84, 513
BseCI ATCGAT 1 cut(s) 244
BseDI CCNNGG 1 cut(s) 249
BseJI GATNNNNATC 2 cut(s) 276, 375
BseLI CCNNNNNNNGG 4 cut(s) 209, 373, 642, 738
BseMII CTCAG 1 cut(s) 558
BseNI ACTGG 3 cut(s) 529, 671, 733
BseRI GAGGAG 1 cut(s) 789
BseSI GKGCMC 1 cut(s) 752
BseX3I CGGCCG 1 cut(s) 252
Bsh1236I CGCG 1 cut(s) 251
Bsh1285I CGRYCG 1 cut(s) 255
BshFI GGCC 2 cut(s) 254, 542
BshVI ATCGAT 1 cut(s) 244
BsiEI CGRYCG 1 cut(s) 255
BsiSI CCGG 1 cut(s) 114
BslFI GGGAC 1 cut(s) 641
BslI CCNNNNNNNGG 4 cut(s) 209, 373, 642, 738
BsmAI GTCTC 1 cut(s) 218
BsmFI GGGAC 1 cut(s) 641
BsnI GGCC 2 cut(s) 254, 542
Bso31I GGTCTC 1 cut(s) 218
Bsp119I TTCGAA 1 cut(s) 756
Bsp1286I GDGCHC 1 cut(s) 752
Bsp143I GATC 4 cut(s) 241, 245, 271, 376
BspACI CCGC 2 cut(s) 249, 251
BspANI GGCC 2 cut(s) 254, 542
BspCNI CTCAG 1 cut(s) 557
BspDI ATCGAT 1 cut(s) 244
BspFNI CGCG 1 cut(s) 251
BspLI GGNNCC 1 cut(s) 793
BspPI GGATC 3 cut(s) 240, 266, 384
BspT104I TTCGAA 1 cut(s) 756
BspTNI GGTCTC 1 cut(s) 218
BsrI ACTGG 3 cut(s) 529, 671, 733
BssECI CCNNGG 1 cut(s) 249
BssMI GATC 4 cut(s) 241, 245, 271, 376
Bst2UI CCWGG 2 cut(s) 84, 513
Bst4CI ACNGT 4 cut(s) 17, 109, 391, 410
BstBAI YACGTR 2 cut(s) 196, 459
BstBI TTCGAA 1 cut(s) 756
BstDEI CTNAG 1 cut(s) 544
BstDSI CCRYGG 1 cut(s) 249
BstEII GGTNACC 1 cut(s) 11
BstFNI CGCG 1 cut(s) 251
BstH2I RGCGCY 1 cut(s) 591
BstHHI GCGC 1 cut(s) 590
BstKTI GATC 4 cut(s) 244, 248, 274, 379
BstMAI GTCTC 1 cut(s) 218
BstMBI GATC 4 cut(s) 241, 245, 271, 376
BstMCI CGRYCG 1 cut(s) 255
BstMWI GCNNNNNNNGC 1 cut(s) 554
BstNI CCWGG 2 cut(s) 84, 513
BstPI GGTNACC 1 cut(s) 11
BstSCI CCNGG 3 cut(s) 82, 112, 511
BstSLI GKGCMC 1 cut(s) 752
BstSNI TACGTA 2 cut(s) 196, 459
BstUI CGCG 1 cut(s) 251
BstX2I RGATCY 1 cut(s) 376
BstXI CCANNNNNNTGG 1 cut(s) 474
BstYI RGATCY 1 cut(s) 376
BstZI CGGCCG 1 cut(s) 252
Bsu15I ATCGAT 1 cut(s) 244
BsuRI GGCC 2 cut(s) 254, 542
BsuTUI ATCGAT 1 cut(s) 244
BtgI CCRYGG 1 cut(s) 249
BtsIMutI CAGTG 1 cut(s) 415
CfoI GCGC 1 cut(s) 590
Cfr13I GGNCC 2 cut(s) 686, 791
Cfr42I CCGCGG 1 cut(s) 252
ClaI ATCGAT 1 cut(s) 244
Csp6I GTAC 5 cut(s) 197, 266, 396, 664, 769
CviAII CATG 6 cut(s) 8, 314, 431, 474, 647, 656
CviQI GTAC 5 cut(s) 197, 266, 396, 664, 769
DdeI CTNAG 1 cut(s) 544
DpnI GATC 4 cut(s) 243, 247, 273, 378
DpnII GATC 4 cut(s) 241, 245, 271, 376
DraIII CACNNNGTG 1 cut(s) 167
EaeI YGGCCR 1 cut(s) 252
EagI CGGCCG 1 cut(s) 252
EclXI CGGCCG 1 cut(s) 252
Eco105I TACGTA 2 cut(s) 196, 459
Eco31I GGTCTC 1 cut(s) 218
Eco47I GGWCC 2 cut(s) 686, 791
Eco52I CGGCCG 1 cut(s) 252
Eco91I GGTNACC 1 cut(s) 11
EcoO109I RGGNCCY 1 cut(s) 791
EcoO65I GGTNACC 1 cut(s) 11
EcoRI GAATTC 1 cut(s) 651
EcoRII CCWGG 2 cut(s) 82, 511
FaeI CATG 6 cut(s) 11, 317, 434, 477, 650, 659
FaqI GGGAC 1 cut(s) 641
FatI CATG 6 cut(s) 7, 313, 430, 473, 646, 655
Fnu4HI GCNGC 1 cut(s) 252
Fsp4HI GCNGC 1 cut(s) 252
FspBI CTAG 2 cut(s) 642, 785
GlaI GCGC 1 cut(s) 589
GluI GCNGC 1 cut(s) 252
GsuI CTGGAG 1 cut(s) 512
HaeII RGCGCY 1 cut(s) 591
HaeIII GGCC 2 cut(s) 254, 542
HapII CCGG 1 cut(s) 114
HhaI GCGC 1 cut(s) 590
Hin1II CATG 6 cut(s) 11, 317, 434, 477, 650, 659
Hin6I GCGC 1 cut(s) 588
HinP1I GCGC 1 cut(s) 588
HinfI GANTC 2 cut(s) 37, 573
HpaII CCGG 1 cut(s) 114
HphI GGTGA 1 cut(s) 208
Hpy166II GTNNAC 1 cut(s) 303
Hpy188I TCNGA 1 cut(s) 782
Hpy188III TCNNGA 2 cut(s) 34, 622
Hpy8I GTNNAC 1 cut(s) 303
HpyAV CCTTC 4 cut(s) 601, 701, 752, 782
HpyCH4III ACNGT 4 cut(s) 17, 109, 391, 410
HpyCH4IV ACGT 3 cut(s) 195, 264, 458
HpyCH4V TGCA 4 cut(s) 104, 317, 356, 557
HpyF10VI GCNNNNNNNGC 1 cut(s) 554
HpyF3I CTNAG 1 cut(s) 544
HpySE526I ACGT 3 cut(s) 195, 264, 458
Hsp92II CATG 6 cut(s) 11, 317, 434, 477, 650, 659
HspAI GCGC 1 cut(s) 588
KspI CCGCGG 1 cut(s) 252
Kzo9I GATC 4 cut(s) 241, 245, 271, 376
LmnI GCTCC 1 cut(s) 741
LweI GCATC 1 cut(s) 64
MaeI CTAG 2 cut(s) 642, 785
MaeII ACGT 3 cut(s) 195, 264, 458
MaeIII GTNAC 3 cut(s) 3, 11, 433
MalI GATC 4 cut(s) 243, 247, 273, 378
MboI GATC 4 cut(s) 241, 245, 271, 376
MboII GAAGA 1 cut(s) 415
MfeI CAATTG 1 cut(s) 153
MflI RGATCY 1 cut(s) 376
MhlI GDGCHC 1 cut(s) 752
MlyI GAGTC 1 cut(s) 31
MmeI TCCRAC 1 cut(s) 805
MnlI CCTC 8 cut(s) 133, 210, 367, 553, 609, 618, 807, 810
MseI TTAA 1 cut(s) 261
MslI CAYNNNNRTG 2 cut(s) 287, 459
MspA1I CMGCKG 1 cut(s) 251
MspI CCGG 1 cut(s) 114
MspR9I CCNGG 3 cut(s) 84, 114, 513
MunI CAATTG 1 cut(s) 153
MvaI CCWGG 2 cut(s) 84, 513
MvnI CGCG 1 cut(s) 251
MwoI GCNNNNNNNGC 1 cut(s) 554
NciI CCSGG 1 cut(s) 114
NdeII GATC 4 cut(s) 241, 245, 271, 376
NlaIII CATG 6 cut(s) 11, 317, 434, 477, 650, 659
NlaIV GGNNCC 1 cut(s) 793
NmeAIII GCCGAG 1 cut(s) 280
NmuCI GTSAC 1 cut(s) 433
NspV TTCGAA 1 cut(s) 756
PfeI GAWTC 1 cut(s) 573
PflMI CCANNNNNTGG 1 cut(s) 209
PfoI TCCNGGA 1 cut(s) 511
PkrI GCNGC 1 cut(s) 253
PleI GAGTC 1 cut(s) 31
PpsI GAGTC 1 cut(s) 31
Ppu21I YACGTR 2 cut(s) 196, 459
PpuMI RGGWCCY 1 cut(s) 791
Psp5II RGGWCCY 1 cut(s) 791
Psp6I CCWGG 2 cut(s) 82, 511
PspEI GGTNACC 1 cut(s) 11
PspGI CCWGG 2 cut(s) 82, 511
PspN4I GGNNCC 1 cut(s) 793
PspPI GGNCC 2 cut(s) 686, 791
PspPPI RGGWCCY 1 cut(s) 791
PsrI GAACNNNNNNTAC 2 cut(s) 656, 688
PsuI RGATCY 1 cut(s) 376
RsaI GTAC 5 cut(s) 198, 267, 397, 665, 770
RsaNI GTAC 5 cut(s) 197, 266, 396, 664, 769
RseI CAYNNNNRTG 2 cut(s) 287, 459
SacII CCGCGG 1 cut(s) 252
SaqAI TTAA 1 cut(s) 261
SatI GCNGC 1 cut(s) 252
Sau3AI GATC 4 cut(s) 241, 245, 271, 376
Sau96I GGNCC 2 cut(s) 686, 791
SchI GAGTC 1 cut(s) 31
ScrFI CCNGG 3 cut(s) 84, 114, 513
SduI GDGCHC 1 cut(s) 752
SfaNI GCATC 1 cut(s) 64
Sfr303I CCGCGG 1 cut(s) 252
SfuI TTCGAA 1 cut(s) 756
SgrBI CCGCGG 1 cut(s) 252
SinI GGWCC 2 cut(s) 686, 791
SmiMI CAYNNNNRTG 2 cut(s) 287, 459
SmlI CTYRAG 1 cut(s) 39
SmoI CTYRAG 1 cut(s) 39
SnaBI TACGTA 2 cut(s) 196, 459
SsiI CCGC 2 cut(s) 249, 251
SspI AATATT 1 cut(s) 148
SspMI CTAG 2 cut(s) 642, 785
StyD4I CCNGG 3 cut(s) 82, 112, 511
TaaI ACNGT 4 cut(s) 17, 109, 391, 410
TaiI ACGT 3 cut(s) 198, 267, 461
TaqI TCGA 5 cut(s) 79, 244, 571, 756, 802
TaqII GACCGA 1 cut(s) 703
TatI WGTACW 1 cut(s) 663
TauI GCSGC 1 cut(s) 254
TfiI GAWTC 1 cut(s) 573
Tru1I TTAA 1 cut(s) 261
Tru9I TTAA 1 cut(s) 261
TscAI CASTG 1 cut(s) 415
TseFI GTSAC 1 cut(s) 433
Tsp45I GTSAC 1 cut(s) 433
TspDTI ATGAA 3 cut(s) 305, 477, 644
TspRI CASTG 1 cut(s) 415
Van91I CCANNNNNTGG 1 cut(s) 209
VpaK11BI GGWCC 2 cut(s) 686, 791
XapI RAATTY 3 cut(s) 480, 499, 651
XspI CTAG 2 cut(s) 642, 785
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.