MD02G1298900.v1.1

Rhamnogalacturonate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr02
OG0014774
Physical Location & Seq
Reverse (-)
35427667 .. 35427945
279 bp
Loading structure...
UTR
Exon/CDS
Intron
MD02G1298900.v1.1.491

Sequence Viewer

Length: 279 bp
ATGGTAGTAGACGTTTTTGGAATTCAGATGCTACAACGGACTCATAACTTGGTGGAGCTAAACAATGGCCTTGTTCGACTCACTTTTTCTTTTACGGAAGGAGACGTGGTTGGAATCCAGTACAAGGGAATTGACAACTTGCTTGAAGTCAAAACTAACCCACAAGGAGGTTACTGGGATCTTAACGCCGGGAACTATGGTTATTACACTCTATATGGAACAAAATTTAAGATTGTTACAGCGACGCCAGACCAAATAGAGACATTATACCTATACTAA
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

93

Amino Acids

10.46

Weight (kDa)

4.79

Isoelectric Point (pI)

5.23

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rhamnogal_lyase PF06045 13 - 88 7.1e-15 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

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 9
AclWI GGATC 1 cut(s) 186
AcsI RAATTY 2 cut(s) 21, 224
AcyI GRCGYC 1 cut(s) 245
AfaI GTAC 1 cut(s) 122
AfiI CCNNNNNNNGG 2 cut(s) 124, 167
AgsI TTSAA 1 cut(s) 146
AjiI CACGTC 1 cut(s) 106
AluBI AGCT 1 cut(s) 58
AluI AGCT 1 cut(s) 58
Alw26I GTCTC 2 cut(s) 96, 254
AlwI GGATC 1 cut(s) 186
AoxI GGCC 1 cut(s) 67
ApoI RAATTY 2 cut(s) 21, 224
AsuC2I CCSGG 1 cut(s) 190
BcnI CCSGG 1 cut(s) 190
BcoDI GTCTC 2 cut(s) 96, 254
Bme1390I CCNGG 1 cut(s) 190
BmgBI CACGTC 1 cut(s) 106
BmrFI CCNGG 1 cut(s) 190
BmrI ACTGGG 1 cut(s) 184
BmsI GCATC 1 cut(s) 18
BmuI ACTGGG 1 cut(s) 184
BpuMI CCSGG 1 cut(s) 190
BsaHI GRCGYC 1 cut(s) 245
BsaXI ACNNNNNCTCC 2 cut(s) 93, 123
Bsc4I CCNNNNNNNGG 2 cut(s) 124, 167
Bse1I ACTGG 2 cut(s) 118, 179
BseLI CCNNNNNNNGG 2 cut(s) 124, 167
BseNI ACTGG 2 cut(s) 118, 179
BshFI GGCC 1 cut(s) 69
BsiSI CCGG 1 cut(s) 189
BslI CCNNNNNNNGG 2 cut(s) 124, 167
BsmAI GTCTC 2 cut(s) 96, 254
BsmBI CGTCTC 1 cut(s) 96
BsnI GGCC 1 cut(s) 69
Bsp143I GATC 1 cut(s) 178
BspANI GGCC 1 cut(s) 69
BspPI GGATC 1 cut(s) 186
BsrI ACTGG 2 cut(s) 118, 179
BssMI GATC 1 cut(s) 178
BssNI GRCGYC 1 cut(s) 245
BstACI GRCGYC 1 cut(s) 245
BstKTI GATC 1 cut(s) 181
BstMAI GTCTC 2 cut(s) 96, 254
BstMBI GATC 1 cut(s) 178
BstSCI CCNGG 1 cut(s) 188
BstX2I RGATCY 1 cut(s) 178
BstYI RGATCY 1 cut(s) 178
BsuRI GGCC 1 cut(s) 69
BtrI CACGTC 1 cut(s) 106
CseI GACGC 1 cut(s) 253
Csp6I GTAC 1 cut(s) 121
CviJI RGCY 2 cut(s) 58, 69
CviKI_1 RGCY 2 cut(s) 58, 69
CviQI GTAC 1 cut(s) 121
DpnI GATC 1 cut(s) 180
DpnII GATC 1 cut(s) 178
EcoRI GAATTC 1 cut(s) 21
Esp3I CGTCTC 1 cut(s) 96
FaiI YATR 6 cut(s) 45, 198, 214, 216, 268, 274
FblI GTMKAC 1 cut(s) 9
HaeIII GGCC 1 cut(s) 69
HapII CCGG 1 cut(s) 189
HgaI GACGC 1 cut(s) 253
Hin1I GRCGYC 1 cut(s) 245
HinfI GANTC 3 cut(s) 40, 78, 114
HpaII CCGG 1 cut(s) 189
Hpy166II GTNNAC 1 cut(s) 10
Hpy188I TCNGA 1 cut(s) 27
Hpy8I GTNNAC 1 cut(s) 10
Hpy99I CGWCG 1 cut(s) 247
HpyAV CCTTC 1 cut(s) 92
HpyCH4IV ACGT 2 cut(s) 12, 105
HpySE526I ACGT 2 cut(s) 12, 105
Hsp92I GRCGYC 1 cut(s) 245
Kzo9I GATC 1 cut(s) 178
LmnI GCTCC 1 cut(s) 55
LpnPI CCDG 4 cut(s) 131, 160, 202, 261
LweI GCATC 1 cut(s) 18
MaeII ACGT 2 cut(s) 12, 105
MaeIII GTNAC 2 cut(s) 170, 235
MalI GATC 1 cut(s) 180
MboI GATC 1 cut(s) 178
MflI RGATCY 1 cut(s) 178
MluCI AATT 3 cut(s) 21, 129, 224
MlyI GAGTC 2 cut(s) 34, 72
MmeI TCCRAC 1 cut(s) 91
MnlI CCTC 1 cut(s) 161
MseI TTAA 2 cut(s) 183, 228
MspI CCGG 1 cut(s) 189
MspR9I CCNGG 1 cut(s) 190
NciI CCSGG 1 cut(s) 190
NdeII GATC 1 cut(s) 178
PfeI GAWTC 1 cut(s) 114
PleI GAGTC 2 cut(s) 34, 72
PpsI GAGTC 2 cut(s) 34, 72
PsuI RGATCY 1 cut(s) 178
RsaI GTAC 1 cut(s) 122
RsaNI GTAC 1 cut(s) 121
SaqAI TTAA 2 cut(s) 183, 228
Sau3AI GATC 1 cut(s) 178
SchI GAGTC 2 cut(s) 34, 72
ScrFI CCNGG 1 cut(s) 190
SetI ASST 5 cut(s) 15, 60, 108, 172, 273
SfaNI GCATC 1 cut(s) 18
Sse9I AATT 3 cut(s) 21, 129, 224
StyD4I CCNGG 1 cut(s) 188
TaiI ACGT 2 cut(s) 15, 108
TaqI TCGA 1 cut(s) 76
TasI AATT 3 cut(s) 21, 129, 224
TatI WGTACW 1 cut(s) 120
TfiI GAWTC 1 cut(s) 114
Tru1I TTAA 2 cut(s) 183, 228
Tru9I TTAA 2 cut(s) 183, 228
TspGWI ACGGA 2 cut(s) 52, 110
XapI RAATTY 2 cut(s) 21, 224
XmiI GTMKAC 1 cut(s) 9
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.