MD15G1308100.v1.1

Rhamnogalacturonate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr15
OG0000523
Physical Location & Seq
Forward (+)
30869387 .. 30871604
2218 bp
Loading structure...
UTR
Exon/CDS
Intron
MD15G1308100.v1.1.491

Sequence Viewer

Length: 810 bp
ATGTCAAACCTATCATACAGGTATTGGGATGTTGTCTGGAATAACCGAGAGACAGAAGGTGTGGACAAGTACATAATGCAGCGTGGTCGCGCCGGGTTCTATGCATATTCCATATTTGAGCGTCCTGAAGGGTGGCCAGAAGTGGACATTGATCAAATTAGAATTGTTTACAAACTTCAACCAGACAAATTTCAGTTTATGGTTGTATCTGACGACAGACAAAGGATCATGCCAACAGCCGAGGACCGTGAAAACGGTATTAAACTTGCCTATCCTGAAGCTGTTCTTTTGACCAATCCAAGCAATCCTGACCTTAGAGGAGAGGTGGACGACAAATACCAATACTCAACTGAGAACAAAGATAACAAGGTCCATGGATGGATTTGCACTAACCCAGTTGTAGGCTTTTGGATTATCATACCTAGTGATGAGTTTCGCACAGCTGGGCCGTTCAAGCATGACCTCACCTCTCATGTAGGCCCAACCGCCCTCTCTGCTGGGAAGGAAGTTGGGATGAGATTTGTAGAAGGTGAGGCATGGAAGAAAGTTTTTGGGCCTGTCTTTGTGTATCTTAATTCAGTTCCGACCTTAAATGAAACTATTCTCTGGGAAAATGCTAATGAGCAGTTGGCTGAAGAAGTCAATAGCTGGCCATACAATTTCACTCAATCAGAAAACTTCCCTAGCTCAAGCGGACGCGGATCAGTTGCCGGTCAATTACTAGTACAGGATTGGTACTTTCCTCTTTTGACACTTGTTGACCCTAGAAATTACAAAGCCTACGTGGCGCGCAGGCCGAATATATTCTAA
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

31.1

Weight (kDa)

5.07

Isoelectric Point (pI)

30.71

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rhamnogal_lyase PF06045 22 - 109 1.9e-37 Rhamnogalacturonate lyase family
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)
AccII CGCG 3 cut(s) 90, 699, 790
AciI CCGC 3 cut(s) 486, 693, 699
AclWI GGATC 2 cut(s) 233, 709
AcoI YGGCCR 2 cut(s) 134, 650
AcsI RAATTY 1 cut(s) 188
AcuI CTGAAG 3 cut(s) 147, 297, 654
AfaI GTAC 3 cut(s) 71, 726, 737
AfiI CCNNNNNNNGG 1 cut(s) 401
AgsI TTSAA 2 cut(s) 179, 454
AhlI ACTAGT 1 cut(s) 721
AluBI AGCT 4 cut(s) 281, 443, 648, 687
AluI AGCT 4 cut(s) 281, 443, 648, 687
Alw26I GTCTC 1 cut(s) 44
AlwI GGATC 2 cut(s) 233, 709
AoxI GGCC 6 cut(s) 134, 446, 478, 554, 650, 794
ApeKI GCWGC 1 cut(s) 79
ApoI RAATTY 1 cut(s) 188
Asp700I GAANNNNTTC 3 cut(s) 282, 600, 803
AspLEI GCGC 3 cut(s) 92, 790, 792
AspS9I GGNCC 5 cut(s) 244, 370, 446, 479, 554
AsuC2I CCSGG 1 cut(s) 94
AsuHPI GGTGA 2 cut(s) 457, 542
AvaII GGWCC 2 cut(s) 244, 370
BalI TGGCCA 2 cut(s) 136, 652
BbvI GCAGC 1 cut(s) 91
BccI CCATC 1 cut(s) 372
BceAI ACGGC 1 cut(s) 433
BcgI CGANNNNNNTGC 2 cut(s) 68, 102
BclI TGATCA 1 cut(s) 151
BcnI CCSGG 1 cut(s) 94
BcoDI GTCTC 1 cut(s) 44
BcuI ACTAGT 1 cut(s) 721
BfaI CTAG 4 cut(s) 423, 684, 722, 765
BglI GCCNNNNNGGC 1 cut(s) 785
BisI GCNGC 1 cut(s) 80
BlsI GCNGC 1 cut(s) 81
Bme1390I CCNGG 1 cut(s) 94
Bme18I GGWCC 2 cut(s) 244, 370
BmgT120I GGNCC 5 cut(s) 244, 370, 446, 479, 554
BmrFI CCNGG 1 cut(s) 94
BmrI ACTGGG 1 cut(s) 389
BmuI ACTGGG 1 cut(s) 389
BpuEI CTTGAG 1 cut(s) 673
BpuMI CCSGG 1 cut(s) 94
BsaAI YACGTR 1 cut(s) 784
BsaJI CCNNGG 2 cut(s) 240, 373
Bsc4I CCNNNNNNNGG 1 cut(s) 401
Bse118I RCCGGY 1 cut(s) 710
Bse1I ACTGG 1 cut(s) 395
BseDI CCNNGG 2 cut(s) 240, 373
BseGI GGATG 3 cut(s) 34, 383, 519
BseLI CCNNNNNNNGG 1 cut(s) 401
BseMII CTCAG 1 cut(s) 342
BseNI ACTGG 1 cut(s) 395
BsePI GCGCGC 1 cut(s) 788
BseRI GAGGAG 1 cut(s) 333
BseXI GCAGC 1 cut(s) 91
BseYI CCCAGC 2 cut(s) 443, 497
Bsh1236I CGCG 3 cut(s) 90, 699, 790
BshFI GGCC 6 cut(s) 136, 448, 480, 556, 652, 796
BsiSI CCGG 2 cut(s) 93, 711
BslI CCNNNNNNNGG 1 cut(s) 401
BsmAI GTCTC 1 cut(s) 44
BsnI GGCC 6 cut(s) 136, 448, 480, 556, 652, 796
Bsp143I GATC 3 cut(s) 151, 225, 701
Bsp19I CCATGG 1 cut(s) 373
BspACI CCGC 3 cut(s) 486, 693, 699
BspANI GGCC 6 cut(s) 136, 448, 480, 556, 652, 796
BspCNI CTCAG 1 cut(s) 343
BspFNI CGCG 3 cut(s) 90, 699, 790
BspPI GGATC 2 cut(s) 233, 709
BsrFI RCCGGY 1 cut(s) 710
BsrI ACTGG 1 cut(s) 395
BssAI RCCGGY 1 cut(s) 710
BssECI CCNNGG 2 cut(s) 240, 373
BssHII GCGCGC 1 cut(s) 788
BssMI GATC 3 cut(s) 151, 225, 701
BssT1I CCWWGG 1 cut(s) 373
Bst4CI ACNGT 2 cut(s) 248, 257
BstBAI YACGTR 1 cut(s) 784
BstC8I GCNNGC 3 cut(s) 650, 790, 794
BstDEI CTNAG 2 cut(s) 314, 351
BstDSI CCRYGG 1 cut(s) 373
BstF5I GGATG 3 cut(s) 34, 383, 519
BstFNI CGCG 3 cut(s) 90, 699, 790
BstHHI GCGC 3 cut(s) 92, 790, 792
BstKTI GATC 3 cut(s) 154, 228, 704
BstMAI GTCTC 1 cut(s) 44
BstMBI GATC 3 cut(s) 151, 225, 701
BstMWI GCNNNNNNNGC 3 cut(s) 454, 494, 785
BstSCI CCNGG 1 cut(s) 92
BstUI CGCG 3 cut(s) 90, 699, 790
BstV1I GCAGC 1 cut(s) 91
BsuRI GGCC 6 cut(s) 136, 448, 480, 556, 652, 796
BtgI CCRYGG 1 cut(s) 373
BtsCI GGATG 3 cut(s) 34, 383, 519
Cac8I GCNNGC 3 cut(s) 650, 790, 794
CfoI GCGC 3 cut(s) 92, 790, 792
Cfr10I RCCGGY 1 cut(s) 710
Cfr13I GGNCC 5 cut(s) 244, 370, 446, 479, 554
CseI GACGC 2 cut(s) 110, 705
Csp6I GTAC 3 cut(s) 70, 725, 736
CviAII CATG 5 cut(s) 229, 374, 458, 473, 537
CviQI GTAC 3 cut(s) 70, 725, 736
DdeI CTNAG 2 cut(s) 314, 351
DpnI GATC 3 cut(s) 153, 227, 703
DpnII GATC 3 cut(s) 151, 225, 701
EaeI YGGCCR 2 cut(s) 134, 650
Eco130I CCWWGG 1 cut(s) 373
Eco47I GGWCC 2 cut(s) 244, 370
Eco57I CTGAAG 3 cut(s) 147, 297, 654
EcoT14I CCWWGG 1 cut(s) 373
EcoT22I ATGCAT 1 cut(s) 106
ErhI CCWWGG 1 cut(s) 373
FaeI CATG 5 cut(s) 232, 377, 461, 476, 540
FalI AAGNNNNNCTT 2 cut(s) 270, 302
FatI CATG 5 cut(s) 228, 373, 457, 472, 536
FbaI TGATCA 1 cut(s) 151
Fnu4HI GCNGC 1 cut(s) 80
FokI GGATG 3 cut(s) 41, 390, 526
Fsp4HI GCNGC 1 cut(s) 80
FspBI CTAG 4 cut(s) 423, 684, 722, 765
GlaI GCGC 3 cut(s) 91, 789, 791
GluI GCNGC 1 cut(s) 80
GsaI CCCAGC 2 cut(s) 447, 501
HaeIII GGCC 6 cut(s) 136, 448, 480, 556, 652, 796
HapII CCGG 2 cut(s) 93, 711
HgaI GACGC 2 cut(s) 110, 705
HhaI GCGC 3 cut(s) 92, 790, 792
Hin1II CATG 5 cut(s) 232, 377, 461, 476, 540
Hin6I GCGC 3 cut(s) 90, 788, 790
HinP1I GCGC 3 cut(s) 90, 788, 790
HincII GTYRAC 1 cut(s) 760
HindII GTYRAC 1 cut(s) 760
HpaII CCGG 2 cut(s) 93, 711
HphI GGTGA 2 cut(s) 457, 542
Hpy166II GTNNAC 5 cut(s) 64, 145, 169, 328, 760
Hpy188I TCNGA 3 cut(s) 211, 585, 673
Hpy188III TCNNGA 4 cut(s) 37, 125, 275, 308
Hpy8I GTNNAC 5 cut(s) 64, 145, 169, 328, 760
HpyAV CCTTC 4 cut(s) 50, 122, 496, 521
HpyCH4III ACNGT 2 cut(s) 248, 257
HpyCH4IV ACGT 1 cut(s) 783
HpyCH4V TGCA 3 cut(s) 79, 104, 387
HpyF10VI GCNNNNNNNGC 3 cut(s) 454, 494, 785
HpyF3I CTNAG 2 cut(s) 314, 351
HpySE526I ACGT 1 cut(s) 783
Hsp92II CATG 5 cut(s) 232, 377, 461, 476, 540
HspAI GCGC 3 cut(s) 90, 788, 790
Ksp22I TGATCA 1 cut(s) 151
Kzo9I GATC 3 cut(s) 151, 225, 701
Lsp1109I GCAGC 1 cut(s) 91
MaeI CTAG 4 cut(s) 423, 684, 722, 765
MaeII ACGT 1 cut(s) 783
MalI GATC 3 cut(s) 153, 227, 703
MboI GATC 3 cut(s) 151, 225, 701
MboII GAAGA 2 cut(s) 553, 647
MlsI TGGCCA 2 cut(s) 136, 652
MluCI AATT 7 cut(s) 156, 162, 188, 574, 658, 716, 769
MluNI TGGCCA 2 cut(s) 136, 652
MmeI TCCRAC 1 cut(s) 608
MnlI CCTC 8 cut(s) 235, 311, 316, 473, 478, 500, 526, 753
Mox20I TGGCCA 2 cut(s) 136, 652
Mph1103I ATGCAT 1 cut(s) 106
MroXI GAANNNNTTC 3 cut(s) 282, 600, 803
MscI TGGCCA 2 cut(s) 136, 652
MseI TTAA 3 cut(s) 261, 573, 590
Msp20I TGGCCA 2 cut(s) 136, 652
MspA1I CMGCKG 1 cut(s) 443
MspI CCGG 2 cut(s) 93, 711
MspR9I CCNGG 1 cut(s) 94
MvnI CGCG 3 cut(s) 90, 699, 790
MwoI GCNNNNNNNGC 3 cut(s) 454, 494, 785
NciI CCSGG 1 cut(s) 94
NcoI CCATGG 1 cut(s) 373
NdeII GATC 3 cut(s) 151, 225, 701
NlaIII CATG 5 cut(s) 232, 377, 461, 476, 540
NmeAIII GCCGAG 1 cut(s) 265
NsiI ATGCAT 1 cut(s) 106
PauI GCGCGC 1 cut(s) 788
PdmI GAANNNNTTC 3 cut(s) 282, 600, 803
PkrI GCNGC 1 cut(s) 81
Ppu21I YACGTR 1 cut(s) 784
PspFI CCCAGC 2 cut(s) 443, 497
PspPI GGNCC 5 cut(s) 244, 370, 446, 479, 554
PteI GCGCGC 1 cut(s) 788
PvuII CAGCTG 1 cut(s) 443
RsaI GTAC 3 cut(s) 71, 726, 737
RsaNI GTAC 3 cut(s) 70, 725, 736
SaqAI TTAA 3 cut(s) 261, 573, 590
SatI GCNGC 1 cut(s) 80
Sau3AI GATC 3 cut(s) 151, 225, 701
Sau96I GGNCC 5 cut(s) 244, 370, 446, 479, 554
ScrFI CCNGG 1 cut(s) 94
SinI GGWCC 2 cut(s) 244, 370
SmlI CTYRAG 1 cut(s) 688
SmoI CTYRAG 1 cut(s) 688
SpeI ACTAGT 1 cut(s) 721
Sse9I AATT 7 cut(s) 156, 162, 188, 574, 658, 716, 769
SsiI CCGC 3 cut(s) 486, 693, 699
SspMI CTAG 4 cut(s) 423, 684, 722, 765
StyD4I CCNGG 1 cut(s) 92
StyI CCWWGG 1 cut(s) 373
TaaI ACNGT 2 cut(s) 248, 257
TaiI ACGT 1 cut(s) 786
TasI AATT 7 cut(s) 156, 162, 188, 574, 658, 716, 769
TatI WGTACW 2 cut(s) 69, 724
Tru1I TTAA 3 cut(s) 261, 573, 590
Tru9I TTAA 3 cut(s) 261, 573, 590
TseI GCWGC 1 cut(s) 79
TspDTI ATGAA 1 cut(s) 609
VpaK11BI GGWCC 2 cut(s) 244, 370
XapI RAATTY 1 cut(s) 188
XmnI GAANNNNTTC 3 cut(s) 282, 600, 803
XspI CTAG 4 cut(s) 423, 684, 722, 765
Zsp2I ATGCAT 1 cut(s) 106
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.