pycom04g09420

Rhamnogalacturonate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr4
OG0000179
Physical Location & Seq
Forward (+)
12045520 .. 12045729
210 bp
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UTR
Exon/CDS
Intron
pycom04g09420.1

Sequence Viewer

Length: 210 bp
ATGGATGATTCGCATCTTCGCTTCTCGGACTTGTCTTACCTTATAAGTCTTCGCTCGGGGTATGTTTCTTTGCGGCAAGAAGACCGATGCATTGTTCAGCCGTATAGTCCCCACCGTTTCAGCAGGCAATTTGGTTTTGTCCAAAATGTGCCAGGCAAGCTGAAGGGAAAAACCCAATTAGAATCCTTGCAAGCCGTGTATATGCATTAG
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
No domains found.

Protein Analysis

70

Amino Acids

8.06

Weight (kDa)

9.36

Isoelectric Point (pI)

62.5

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0000179)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g18561 FvH4_1g29681 FvH4_2g15190 FvH4_3g22800 FvH4_3g22801 FvH4_3g26700 FvH4_4g15162 FvH4_4g15163 FvH4_4g15164 FvH4_4g22273 FvH4_7g02320 FvH4_7g03670 FvH4_7g03671
malus_domestica MD07G1097100.v1.1 MD11G1208600.v1.1 MD15G1303300.v1.1
prunus_persica Prupe.2G070800_v2.0.a1
pyrus_communis pycom02g13430 pycom04g06950 pycom04g09420 pycom04g09610 pycom06g05740 pycom07g00010 pycom07g06720 pycom07g09960 pycom07g10670 pycom07g10680 pycom07g10920 pycom07g27810 pycom08g12110 pycom08g13640 pycom09g03570 pycom09g13470 pycom09g13510 pycom10g01180 pycom10g02180 pycom10g06840 pycom12424g00130 pycom12g03090 pycom12g09570 pycom12g09580 pycom12g09590 pycom1310g00020 pycom13g25030 pycom13g25310 pycom13g25700 pycom13g26160 pycom13g27790 pycom13g28780 pycom13g28790 pycom1683g00070 pycom16g19330 pycom16g21210 pycom16g21710 pycom16g23400 pycom16g24730 pycom17g17550 pycom17g27670 pycom420g00110 pycom420g00130 pycom420g00610 pycom520g00600 pycom675g00050
rosa_chinensis RchiOBHm_Chr1g0316731
rosa_laevigata RLG00000030467
rosa_multiflora Rmu_co8112106.1_g000001 Rmu_co8301911.1_g000001 Rmu_sc0000161.1_g000042 Rmu_sc0000161.1_g000043 Rmu_sc0000173.1_g000035 Rmu_sc0000173.1_g000036 Rmu_sc0000480.1_g000024 Rmu_sc0000670.1_g000020 Rmu_sc0000670.1_g000021 Rmu_sc0000962.1_g000043 Rmu_sc0000962.1_g000044 Rmu_sc0001025.1_g000004 Rmu_sc0001075.1_g000026 Rmu_sc0001075.1_g000027 Rmu_sc0001167.1_g000050 Rmu_sc0001227.1_g000043 Rmu_sc0001346.1_g000006 Rmu_sc0001438.1_g000034 Rmu_sc0001946.1_g000002 Rmu_sc0001981.1_g000005 Rmu_sc0002106.1_g000005 Rmu_sc0002187.1_g000004 Rmu_sc0002187.1_g000005 Rmu_sc0002187.1_g000018 Rmu_sc0002539.1_g000097 Rmu_sc0003008.1_g000050 Rmu_sc0003008.1_g000051 Rmu_sc0003069.1_g000033 Rmu_sc0003069.1_g000034 Rmu_sc0003412.1_g000016 Rmu_sc0003553.1_g000005 Rmu_sc0003553.1_g000006 Rmu_sc0003641.1_g000025 Rmu_sc0003652.1_g000006 Rmu_sc0003687.1_g000019 Rmu_sc0003687.1_g000020 Rmu_sc0004234.1_g000013 Rmu_sc0004249.1_g000005 Rmu_sc0005044.1_g000027 Rmu_sc0005060.1_g000012 Rmu_sc0005816.1_g000005 Rmu_sc0006175.1_g000006 Rmu_sc0006175.1_g000007 Rmu_sc0006695.1_g000046 Rmu_sc0006725.1_g000014 Rmu_sc0006746.1_g000015 Rmu_sc0006746.1_g000016 Rmu_sc0006912.1_g000008 Rmu_sc0007355.1_g000004 Rmu_sc0007705.1_g000001 Rmu_sc0007903.1_g000003 Rmu_sc0007953.1_g000001 Rmu_sc0008630.1_g000001 Rmu_sc0008923.1_g000018 Rmu_sc0008923.1_g000019 Rmu_sc0009186.1_g000003 Rmu_sc0010184.1_g000007 Rmu_sc0010243.1_g000001 Rmu_sc0011242.1_g000004 Rmu_sc0012849.1_g000001 Rmu_sc0012849.1_g000002 Rmu_sc0012883.1_g000001 Rmu_sc0013028.1_g000015 Rmu_sc0015042.1_g000003 Rmu_sc0016730.1_g000002 Rmu_sc0017702.1_g000002 Rmu_sc0017791.1_g000007 Rmu_sc0017874.1_g000005 Rmu_sc0025334.1_g000001 Rmu_sc0025334.1_g000002 Rmu_sc0028789.1_g000001 Rmu_sc0030538.1_g000001 Rmu_sc0033137.1_g000001 Rmu_ssc0000183.1_g000013 Rmu_ssc0000259.1_g000061 Rmu_ssc0000259.1_g000062 Rmu_ssc0000259.1_g000063
rosa_roxburghii Rroxscaffold_173G00435030 Rroxscaffold_173G00435040 Rroxscaffold_1G00033030 Rroxscaffold_2G00093360 Rroxscaffold_2G00113080 Rroxscaffold_2G00146180 Rroxscaffold_3G00227920 Rroxscaffold_3G00251750 Rroxscaffold_4G00328240 Rroxscaffold_5G00333920 Rroxscaffold_5G00338240 Rroxscaffold_5G00342700 Rroxscaffold_6G00412810 Rroxscaffold_6G00423130 Rroxscaffold_7G00175190
rosa_rugosa Rorug01G0029200 Rorug01G0029300 Rorug01G0029400 Rorug01G0029400
rosa_samantha Rh1AG040900 Rh1BG038100 Rh1CG042000 Rh1DG027900
rosa_wichuraiana Rw0G019970 Rw1G003400

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 44
AciI CCGC 1 cut(s) 73
AcuI CTGAAG 1 cut(s) 182
AjnI CCWGG 1 cut(s) 151
AluBI AGCT 1 cut(s) 160
AluI AGCT 1 cut(s) 160
Ama87I CYCGRG 1 cut(s) 55
AvaI CYCGRG 1 cut(s) 55
BbsI GAAGAC 2 cut(s) 41, 87
BceAI ACGGC 2 cut(s) 85, 179
BciT130I CCWGG 1 cut(s) 153
BisI GCNGC 1 cut(s) 74
BlsI GCNGC 1 cut(s) 75
Bme1390I CCNGG 1 cut(s) 153
BmeT110I CYCGRG 1 cut(s) 55
BmrFI CCNGG 1 cut(s) 153
BmsI GCATC 2 cut(s) 22, 77
BpiI GAAGAC 2 cut(s) 41, 87
BsaBI GATNNNNATC 1 cut(s) 12
Bse8I GATNNNNATC 1 cut(s) 12
BseBI CCWGG 1 cut(s) 153
BseGI GGATG 1 cut(s) 10
BseJI GATNNNNATC 1 cut(s) 12
BsiHKCI CYCGRG 1 cut(s) 55
BslFI GGGAC 1 cut(s) 93
BsmFI GGGAC 1 cut(s) 93
BsoBI CYCGRG 1 cut(s) 55
BspACI CCGC 1 cut(s) 73
Bst2UI CCWGG 1 cut(s) 153
Bst4CI ACNGT 1 cut(s) 116
BstC8I GCNNGC 3 cut(s) 125, 158, 192
BstF5I GGATG 1 cut(s) 10
BstMWI GCNNNNNNNGC 1 cut(s) 157
BstNI CCWGG 1 cut(s) 153
BstSCI CCNGG 1 cut(s) 151
BstV2I GAAGAC 2 cut(s) 41, 87
BtsCI GGATG 1 cut(s) 10
Cac8I GCNNGC 3 cut(s) 125, 158, 192
CviJI RGCY 3 cut(s) 100, 160, 194
CviKI_1 RGCY 3 cut(s) 100, 160, 194
Eco57I CTGAAG 1 cut(s) 182
Eco88I CYCGRG 1 cut(s) 55
EcoRII CCWGG 1 cut(s) 151
EcoT22I ATGCAT 2 cut(s) 92, 207
FaiI YATR 5 cut(s) 44, 63, 105, 201, 203
FaqI GGGAC 1 cut(s) 93
Fnu4HI GCNGC 1 cut(s) 74
FokI GGATG 1 cut(s) 17
Fsp4HI GCNGC 1 cut(s) 74
GluI GCNGC 1 cut(s) 74
HinfI GANTC 2 cut(s) 8, 182
Hpy188I TCNGA 1 cut(s) 28
HpyAV CCTTC 1 cut(s) 157
HpyCH4III ACNGT 1 cut(s) 116
HpyCH4V TGCA 3 cut(s) 90, 190, 205
HpyF10VI GCNNNNNNNGC 1 cut(s) 157
LpnPI CCDG 3 cut(s) 109, 138, 165
LweI GCATC 2 cut(s) 22, 77
MboII GAAGA 3 cut(s) 8, 41, 92
MluCI AATT 2 cut(s) 128, 176
Mph1103I ATGCAT 2 cut(s) 92, 207
MspR9I CCNGG 1 cut(s) 153
MvaI CCWGG 1 cut(s) 153
MwoI GCNNNNNNNGC 1 cut(s) 157
NsiI ATGCAT 2 cut(s) 92, 207
PfeI GAWTC 2 cut(s) 8, 182
PkrI GCNGC 1 cut(s) 75
PsiI TTATAA 1 cut(s) 44
Psp6I CCWGG 1 cut(s) 151
PspGI CCWGG 1 cut(s) 151
SatI GCNGC 1 cut(s) 74
ScrFI CCNGG 1 cut(s) 153
SetI ASST 2 cut(s) 42, 162
SfaNI GCATC 2 cut(s) 22, 77
Sse9I AATT 2 cut(s) 128, 176
SsiI CCGC 1 cut(s) 73
StyD4I CCNGG 1 cut(s) 151
TaaI ACNGT 1 cut(s) 116
TaqII GACCGA 1 cut(s) 99
TasI AATT 2 cut(s) 128, 176
TauI GCSGC 1 cut(s) 76
TfiI GAWTC 2 cut(s) 8, 182
Zsp2I ATGCAT 2 cut(s) 92, 207
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.