RchiOBHm_Chr6g0246271

Exopolygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0000434
Physical Location & Seq
Reverse (-)
1997125 .. 1997493
369 bp
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UTR
Exon/CDS
Intron
PRQ22074

Sequence Viewer

Length: 369 bp
ATGGTTAATGTCAGCAACCCGATCATTATAGACCAAGAGTACTGCCCATGGAATTTGTGCAACAAGCAGATTCCTTCAAAAGTTAAGATCAGTAATGTGAGCTTCAAGAACATTAAAGGCACGTCCACAACTCCGCTTGCGGTAAATTTTATTTGTAGCAGGAGCGTGCCATGCGACAATGTGGAGATTTCGGGCATTGATCGCACGTATACTGGACATAAAGGACTAATTAATTCACAATGCTCCAATGTCAAACTGGCGACAATTGTTAACGTGACAAAGGTTCTTGCTTGTGGTAACCATCCACCAATAATTACATCAAAGAACCACACCAAGAGTCATACTTCAACAATTAGTCGATCAAACTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005576 GO:0005618 GO:0005623 GO:0030312 GO:0044464 GO:0071944
KEGG Pathways
Metabolic & Signaling
ko00040 ko01100 map00040 map01100
Pfam Domains
Protein Families
Glyco_hydro_28

Protein Analysis

122

Amino Acids

13.3

Weight (kDa)

9.44

Isoelectric Point (pI)

30.23

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 1 - 85 4.8e-20 Glycosyl hydrolases family 28
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0000434)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G07820 AT3G07830 AT3G07840 AT5G48140
fragaria_vesca FvH4_1g26811 FvH4_2g02350 FvH4_6g41380 FvH4_6g41380 FvH4_6g41380 FvH4_6g41430 FvH4_6g41740 FvH4_6g43060 FvH4_7g02910
malus_domestica MD00G1117700.v1.1 MD00G1117800.v1.1 MD00G1117900.v1.1 MD09G1120000.v1.1 MD09G1120100.v1.1 MD09G1120200.v1.1 MD09G1120300.v1.1 MD12G1142000.v1.1 MD13G1218300.v1.1 MD13G1220100.v1.1 MD13G1220200.v1.1 MD16G1223300.v1.1 MD16G1223500.v1.1 MD16G1223600.v1.1 MD17G1110800.v1.1
prunus_persica Prupe.1G044900_v2.0.a1 Prupe.1G045000_v2.0.a1 Prupe.1G167700_v2.0.a1 Prupe.2G005600_v2.0.a1 Prupe.2G005700_v2.0.a1 Prupe.2G008600_v2.0.a1 Prupe.2G009200_v2.0.a1 Prupe.2G009300_v2.0.a1 Prupe.2G009400_v2.0.a1 Prupe.3G109100_v2.0.a1 Prupe.3G109200_v2.0.a1 Prupe.3G109400_v2.0.a1 Prupe.3G109500_v2.0.a1 Prupe.3G109700_v2.0.a1 Prupe.3G203300_v2.0.a1 Prupe.3G203600_v2.0.a1 Prupe.3G203900_v2.0.a1 Prupe.3G204000_v2.0.a1 Prupe.3G204100_v2.0.a1 Prupe.3G204200_v2.0.a1
pyrus_communis pycom09g04480 pycom09g04490 pycom09g04500 pycom12g13680
rosa_chinensis RchiOBHm_Chr1g0323871 RchiOBHm_Chr2g0156921 RchiOBHm_Chr2g0159061 RchiOBHm_Chr6g0246271 RchiOBHm_Chr6g0246281
rosa_laevigata RLG00000015266 RLG00000020954 RLG00000021134 RLG00000030246 RLG00000030250 RLG00000030295
rosa_multiflora Rmu_co8098394.1_g000001 Rmu_co8404671.1_g000001 Rmu_sc0000507.1_g000021 Rmu_sc0001066.1_g000011 Rmu_sc0001066.1_g000015 Rmu_sc0009451.1_g000001 Rmu_ssc0000408.1_g000005
rosa_roxburghii Rroxscaffold_2G00090810 Rroxscaffold_2G00092580 Rroxscaffold_4G00326280 Rroxscaffold_7G00214720
rosa_rugosa Rorug01G0040400 Rorug02G0457200 Rorug05G0520000
rosa_samantha Rh1AG057700 Rh1BG048800 Rh1CG059100 Rh1DG063000 Rh2AG522900 Rh2BG536200 Rh2BG553200 Rh2CG507800 Rh2DG545200 Rh6AG034100 Rh6BG029300 Rh6DG028700
rosa_wichuraiana Rw0G023110 Rw1G004930 Rw2G043170 Rw2G044730 Rw6G002760 Rw6G002920

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 209
AciI CCGC 2 cut(s) 134, 140
AcsI RAATTY 2 cut(s) 52, 145
AfaI GTAC 1 cut(s) 41
AgsI TTSAA 3 cut(s) 78, 106, 348
AjiI CACGTC 1 cut(s) 123
AluBI AGCT 1 cut(s) 102
AluI AGCT 1 cut(s) 102
ApoI RAATTY 2 cut(s) 52, 145
AseI ATTAAT 1 cut(s) 231
BccI CCATC 1 cut(s) 309
BmcAI AGTACT 1 cut(s) 41
BmgBI CACGTC 1 cut(s) 123
BsaAI YACGTR 1 cut(s) 207
BsaJI CCNNGG 1 cut(s) 47
Bse1I ACTGG 2 cut(s) 217, 261
BseDI CCNNGG 1 cut(s) 47
BseGI GGATG 1 cut(s) 301
BseNI ACTGG 2 cut(s) 217, 261
Bsp143I GATC 4 cut(s) 21, 87, 199, 359
Bsp19I CCATGG 1 cut(s) 47
BspACI CCGC 2 cut(s) 134, 140
BsrI ACTGG 2 cut(s) 217, 261
BssECI CCNNGG 1 cut(s) 47
BssMI GATC 4 cut(s) 21, 87, 199, 359
BssNAI GTATAC 1 cut(s) 210
BssT1I CCWWGG 1 cut(s) 47
Bst1107I GTATAC 1 cut(s) 210
BstBAI YACGTR 1 cut(s) 207
BstC8I GCNNGC 2 cut(s) 138, 167
BstDSI CCRYGG 1 cut(s) 47
BstEII GGTNACC 1 cut(s) 296
BstF5I GGATG 1 cut(s) 301
BstKTI GATC 4 cut(s) 24, 90, 202, 362
BstMBI GATC 4 cut(s) 21, 87, 199, 359
BstMWI GCNNNNNNNGC 2 cut(s) 171, 201
BstPI GGTNACC 1 cut(s) 296
BstZ17I GTATAC 1 cut(s) 210
BtgI CCRYGG 1 cut(s) 47
BtrI CACGTC 1 cut(s) 123
BtsCI GGATG 1 cut(s) 301
Cac8I GCNNGC 2 cut(s) 138, 167
Csp6I GTAC 1 cut(s) 40
CviAII CATG 2 cut(s) 48, 171
CviJI RGCY 1 cut(s) 102
CviKI_1 RGCY 1 cut(s) 102
CviQI GTAC 1 cut(s) 40
DpnI GATC 4 cut(s) 23, 89, 201, 361
DpnII GATC 4 cut(s) 21, 87, 199, 359
Eco130I CCWWGG 1 cut(s) 47
Eco91I GGTNACC 1 cut(s) 296
EcoO65I GGTNACC 1 cut(s) 296
EcoT14I CCWWGG 1 cut(s) 47
ErhI CCWWGG 1 cut(s) 47
FaeI CATG 2 cut(s) 51, 174
FaiI YATR 6 cut(s) 29, 49, 172, 210, 219, 342
FatI CATG 2 cut(s) 47, 170
FblI GTMKAC 1 cut(s) 209
FokI GGATG 1 cut(s) 288
Hin1II CATG 2 cut(s) 51, 174
HincII GTYRAC 1 cut(s) 271
HindII GTYRAC 1 cut(s) 271
HinfI GANTC 2 cut(s) 70, 337
HpaI GTTAAC 1 cut(s) 271
Hpy166II GTNNAC 3 cut(s) 126, 210, 271
Hpy188III TCNNGA 1 cut(s) 106
Hpy8I GTNNAC 3 cut(s) 126, 210, 271
HpyAV CCTTC 1 cut(s) 84
HpyCH4IV ACGT 3 cut(s) 122, 206, 273
HpyCH4V TGCA 1 cut(s) 60
HpyF10VI GCNNNNNNNGC 2 cut(s) 171, 201
HpySE526I ACGT 3 cut(s) 122, 206, 273
Hsp92II CATG 2 cut(s) 51, 174
KspAI GTTAAC 1 cut(s) 271
Kzo9I GATC 4 cut(s) 21, 87, 199, 359
LmnI GCTCC 2 cut(s) 162, 248
LpnPI CCDG 3 cut(s) 145, 198, 242
MaeII ACGT 3 cut(s) 122, 206, 273
MaeIII GTNAC 2 cut(s) 274, 296
MalI GATC 4 cut(s) 23, 89, 201, 361
MboI GATC 4 cut(s) 21, 87, 199, 359
MfeI CAATTG 1 cut(s) 264
MluCI AATT 7 cut(s) 52, 145, 228, 232, 264, 312, 351
MlyI GAGTC 1 cut(s) 346
MseI TTAA 5 cut(s) 6, 84, 114, 231, 270
MunI CAATTG 1 cut(s) 264
MwoI GCNNNNNNNGC 2 cut(s) 171, 201
NcoI CCATGG 1 cut(s) 47
NdeII GATC 4 cut(s) 21, 87, 199, 359
NlaIII CATG 2 cut(s) 51, 174
NmuCI GTSAC 1 cut(s) 274
PfeI GAWTC 1 cut(s) 70
PleI GAGTC 1 cut(s) 345
PpsI GAGTC 1 cut(s) 345
Ppu21I YACGTR 1 cut(s) 207
PshBI ATTAAT 1 cut(s) 231
PspEI GGTNACC 1 cut(s) 296
RsaI GTAC 1 cut(s) 41
RsaNI GTAC 1 cut(s) 40
SaqAI TTAA 5 cut(s) 6, 84, 114, 231, 270
Sau3AI GATC 4 cut(s) 21, 87, 199, 359
ScaI AGTACT 1 cut(s) 41
SchI GAGTC 1 cut(s) 346
SetI ASST 5 cut(s) 104, 125, 209, 276, 285
Sse9I AATT 7 cut(s) 52, 145, 228, 232, 264, 312, 351
SsiI CCGC 2 cut(s) 134, 140
StyI CCWWGG 1 cut(s) 47
TaiI ACGT 3 cut(s) 125, 209, 276
TaqI TCGA 1 cut(s) 358
TasI AATT 7 cut(s) 52, 145, 228, 232, 264, 312, 351
TatI WGTACW 1 cut(s) 39
TfiI GAWTC 1 cut(s) 70
Tru1I TTAA 5 cut(s) 6, 84, 114, 231, 270
Tru9I TTAA 5 cut(s) 6, 84, 114, 231, 270
TseFI GTSAC 1 cut(s) 274
Tsp45I GTSAC 1 cut(s) 274
VspI ATTAAT 1 cut(s) 231
XapI RAATTY 2 cut(s) 52, 145
XcmI CCANNNNNNNNNTGG 1 cut(s) 253
XmiI GTMKAC 1 cut(s) 209
ZrmI AGTACT 1 cut(s) 41
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.