RchiOBHm_Chr6g0246281

Exopolygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0000434
Physical Location & Seq
Reverse (-)
1997671 .. 1998394
724 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ22075

Sequence Viewer

Length: 570 bp
ATGGGGGAAAGCCAAACTCAGACATTACAAATTAAGGCTTTGCTGAAAGCTTGGACTGATGCATGTGCATCACCGAAGGAGACAATTTTCAGAGGTCATTGCAAGGCTCCTATTGAACTTCAGGTCCGAGGCACATTGCAGGCTCCAAAACACACTAGCCGAGTCACGTCACCAGATACTTGGGTTGGTTTTCGGTACATTAATAGGCTCACCTTGTCAGGTGGTGGAACTTTTGATGGCCGCGGAGCACTCTCTTGGAAACAGAACGACTGTAACGAAAACAAAAACTGCAAATCTCGGGTCGTGAACATAAGGTTCGACTTCGTCAACGATACAATAATTAAGGACATAACTTCACTAGACAGCAAGAACTTTCACCTCAACGTTTGCCACAATATTACTTTCCAACATGCAACCATCACAGCACCCGGAGAGAGTGTTAAAACAGACGGTATCCACATTGCACGTTCAACGATGTTCACTGTCGCTAACACCAGCATCGGAACCGGAGACGATTGTATTTACATCGGTGATGGGACTTCACAACTTAAATTTACCAATGTGACTTGA
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

189

Amino Acids

20.81

Weight (kDa)

8.77

Isoelectric Point (pI)

37.16

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 27 - 189 8.5e-37 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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Publication-ready
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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)
AccII CGCG 1 cut(s) 243
AciI CCGC 2 cut(s) 241, 243
AclI AACGTT 1 cut(s) 384
AcoI YGGCCR 1 cut(s) 238
AcsI RAATTY 1 cut(s) 551
AcuI CTGAAG 1 cut(s) 104
AfaI GTAC 1 cut(s) 197
AgsI TTSAA 2 cut(s) 116, 471
AjiI CACGTC 1 cut(s) 168
AloI GAACNNNNNNTCC 2 cut(s) 108, 140
AluBI AGCT 1 cut(s) 50
AluI AGCT 1 cut(s) 50
Alw21I GWGCWC 1 cut(s) 250
Alw26I GTCTC 2 cut(s) 74, 504
Ama87I CYCGRG 1 cut(s) 297
AoxI GGCC 1 cut(s) 238
ApoI RAATTY 1 cut(s) 551
ArsI GACNNNNNNTTYG 2 cut(s) 285, 317
AseI ATTAAT 1 cut(s) 201
AspS9I GGNCC 1 cut(s) 124
AsuC2I CCSGG 1 cut(s) 429
AsuHPI GGTGA 5 cut(s) 63, 162, 202, 368, 542
AvaI CYCGRG 1 cut(s) 297
AvaII GGWCC 1 cut(s) 124
BaeI ACNNNNGTAYC 2 cut(s) 168, 201
Bbv12I GWGCWC 1 cut(s) 250
BccI CCATC 3 cut(s) 230, 425, 527
BciVI GTATCC 1 cut(s) 464
BcnI CCSGG 1 cut(s) 429
BcoDI GTCTC 2 cut(s) 74, 504
BfaI CTAG 2 cut(s) 156, 359
BfuI GTATCC 1 cut(s) 464
BisI GCNGC 1 cut(s) 241
BlsI GCNGC 1 cut(s) 242
Bme1390I CCNGG 1 cut(s) 429
Bme18I GGWCC 1 cut(s) 124
BmeT110I CYCGRG 1 cut(s) 297
BmgBI CACGTC 1 cut(s) 168
BmgT120I GGNCC 1 cut(s) 124
BmiI GGNNCC 3 cut(s) 108, 144, 505
BmrFI CCNGG 1 cut(s) 429
BmsI GCATC 3 cut(s) 49, 77, 507
BpuMI CCSGG 1 cut(s) 429
BsaJI CCNNGG 2 cut(s) 127, 241
BsaWI WCCGGW 1 cut(s) 506
BsaXI ACNNNNNCTCC 2 cut(s) 423, 453
Bse3DI GCAATG 3 cut(s) 97, 134, 459
BseDI CCNNGG 2 cut(s) 127, 241
BseMI GCAATG 3 cut(s) 97, 134, 459
BseMII CTCAG 1 cut(s) 32
Bsh1236I CGCG 1 cut(s) 243
BshFI GGCC 1 cut(s) 240
BsiHKAI GWGCWC 1 cut(s) 250
BsiHKCI CYCGRG 1 cut(s) 297
BsiSI CCGG 2 cut(s) 429, 507
BslFI GGGAC 1 cut(s) 550
BsmAI GTCTC 2 cut(s) 74, 504
BsmBI CGTCTC 1 cut(s) 504
BsmFI GGGAC 1 cut(s) 550
BsnI GGCC 1 cut(s) 240
BsoBI CYCGRG 1 cut(s) 297
Bsp1286I GDGCHC 1 cut(s) 250
BspACI CCGC 2 cut(s) 241, 243
BspANI GGCC 1 cut(s) 240
BspCNI CTCAG 1 cut(s) 31
BspFNI CGCG 1 cut(s) 243
BspLI GGNNCC 3 cut(s) 108, 144, 505
BsrDI GCAATG 3 cut(s) 97, 134, 459
BssECI CCNNGG 2 cut(s) 127, 241
Bst4CI ACNGT 3 cut(s) 272, 452, 484
BstC8I GCNNGC 1 cut(s) 141
BstDEI CTNAG 1 cut(s) 18
BstDSI CCRYGG 1 cut(s) 241
BstFNI CGCG 1 cut(s) 243
BstMAI GTCTC 2 cut(s) 74, 504
BstNSI RCATGY 2 cut(s) 66, 413
BstSCI CCNGG 1 cut(s) 427
BstUI CGCG 1 cut(s) 243
BstXI CCANNNNNNTGG 1 cut(s) 180
BsuI GTATCC 1 cut(s) 464
BsuRI GGCC 1 cut(s) 240
BtgI CCRYGG 1 cut(s) 241
BtrI CACGTC 1 cut(s) 168
BtsIMutI CAGTG 1 cut(s) 480
Cac8I GCNNGC 1 cut(s) 141
Cfr13I GGNCC 1 cut(s) 124
Cfr42I CCGCGG 1 cut(s) 244
Csp6I GTAC 1 cut(s) 196
CviAII CATG 2 cut(s) 63, 410
CviJI RGCY 8 cut(s) 12, 38, 50, 107, 143, 159, 208, 240
CviKI_1 RGCY 8 cut(s) 12, 38, 50, 107, 143, 159, 208, 240
CviQI GTAC 1 cut(s) 196
DdeI CTNAG 1 cut(s) 18
EaeI YGGCCR 1 cut(s) 238
Eco47I GGWCC 1 cut(s) 124
Eco57I CTGAAG 1 cut(s) 104
Eco88I CYCGRG 1 cut(s) 297
EcoT22I ATGCAT 1 cut(s) 64
Esp3I CGTCTC 1 cut(s) 504
FaeI CATG 2 cut(s) 66, 413
FaiI YATR 4 cut(s) 64, 311, 350, 411
FaqI GGGAC 1 cut(s) 550
FatI CATG 2 cut(s) 62, 409
Fnu4HI GCNGC 1 cut(s) 241
Fsp4HI GCNGC 1 cut(s) 241
FspBI CTAG 2 cut(s) 156, 359
GluI GCNGC 1 cut(s) 241
HaeIII GGCC 1 cut(s) 240
HapII CCGG 2 cut(s) 429, 507
Hin1II CATG 2 cut(s) 66, 413
HincII GTYRAC 1 cut(s) 328
HindII GTYRAC 1 cut(s) 328
HindIII AAGCTT 1 cut(s) 48
HinfI GANTC 1 cut(s) 162
HpaII CCGG 2 cut(s) 429, 507
HphI GGTGA 5 cut(s) 63, 162, 202, 368, 542
Hpy166II GTNNAC 3 cut(s) 307, 328, 480
Hpy188I TCNGA 4 cut(s) 21, 92, 128, 503
Hpy188III TCNNGA 1 cut(s) 304
Hpy8I GTNNAC 3 cut(s) 307, 328, 480
HpyAV CCTTC 1 cut(s) 70
HpyCH4III ACNGT 3 cut(s) 272, 452, 484
HpyCH4IV ACGT 3 cut(s) 167, 384, 466
HpyCH4V TGCA 7 cut(s) 62, 68, 102, 139, 291, 413, 464
HpyF3I CTNAG 1 cut(s) 18
HpySE526I ACGT 3 cut(s) 167, 384, 466
Hsp92II CATG 2 cut(s) 66, 413
KspI CCGCGG 1 cut(s) 244
LmnI GCTCC 3 cut(s) 112, 148, 245
LpnPI CCDG 7 cut(s) 107, 125, 186, 204, 442, 508, 520
LweI GCATC 3 cut(s) 49, 77, 507
MaeI CTAG 2 cut(s) 156, 359
MaeII ACGT 3 cut(s) 167, 384, 466
MaeIII GTNAC 4 cut(s) 163, 168, 272, 562
MhlI GDGCHC 1 cut(s) 250
MluCI AATT 4 cut(s) 30, 84, 339, 551
MlyI GAGTC 1 cut(s) 171
MmeI TCCRAC 1 cut(s) 430
MnlI CCTC 3 cut(s) 86, 122, 389
Mph1103I ATGCAT 1 cut(s) 64
MseI TTAA 5 cut(s) 33, 201, 342, 441, 549
MspA1I CMGCKG 1 cut(s) 243
MspI CCGG 2 cut(s) 429, 507
MspR9I CCNGG 1 cut(s) 429
MvnI CGCG 1 cut(s) 243
NciI CCSGG 1 cut(s) 429
NlaIII CATG 2 cut(s) 66, 413
NlaIV GGNNCC 3 cut(s) 108, 144, 505
NmeAIII GCCGAG 1 cut(s) 185
NmuCI GTSAC 3 cut(s) 163, 168, 562
NsiI ATGCAT 1 cut(s) 64
NspI RCATGY 2 cut(s) 66, 413
PcsI WCGNNNNNNNCGW 1 cut(s) 273
PflFI GACNNNGTC 1 cut(s) 323
PkrI GCNGC 1 cut(s) 242
PleI GAGTC 1 cut(s) 170
PpsI GAGTC 1 cut(s) 170
PshBI ATTAAT 1 cut(s) 201
Psp1406I AACGTT 1 cut(s) 384
PspN4I GGNNCC 3 cut(s) 108, 144, 505
PspPI GGNCC 1 cut(s) 124
PsyI GACNNNGTC 1 cut(s) 323
RsaI GTAC 1 cut(s) 197
RsaNI GTAC 1 cut(s) 196
SacII CCGCGG 1 cut(s) 244
SaqAI TTAA 5 cut(s) 33, 201, 342, 441, 549
SatI GCNGC 1 cut(s) 241
Sau96I GGNCC 1 cut(s) 124
SchI GAGTC 1 cut(s) 171
ScrFI CCNGG 1 cut(s) 429
SduI GDGCHC 1 cut(s) 250
SfaNI GCATC 3 cut(s) 49, 77, 507
Sfr303I CCGCGG 1 cut(s) 244
SgrBI CCGCGG 1 cut(s) 244
SinI GGWCC 1 cut(s) 124
Sse9I AATT 4 cut(s) 30, 84, 339, 551
SsiI CCGC 2 cut(s) 241, 243
SspI AATATT 1 cut(s) 397
SspMI CTAG 2 cut(s) 156, 359
StyD4I CCNGG 1 cut(s) 427
TaaI ACNGT 3 cut(s) 272, 452, 484
TaiI ACGT 3 cut(s) 170, 387, 469
TaqI TCGA 1 cut(s) 318
TasI AATT 4 cut(s) 30, 84, 339, 551
TauI GCSGC 1 cut(s) 243
Tru1I TTAA 5 cut(s) 33, 201, 342, 441, 549
Tru9I TTAA 5 cut(s) 33, 201, 342, 441, 549
TscAI CASTG 1 cut(s) 487
TseFI GTSAC 3 cut(s) 163, 168, 562
Tsp45I GTSAC 3 cut(s) 163, 168, 562
TspRI CASTG 1 cut(s) 487
Tth111I GACNNNGTC 1 cut(s) 323
VpaK11BI GGWCC 1 cut(s) 124
VspI ATTAAT 1 cut(s) 201
XapI RAATTY 1 cut(s) 551
XceI RCATGY 2 cut(s) 66, 413
XspI CTAG 2 cut(s) 156, 359
Zsp2I ATGCAT 1 cut(s) 64
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.