Rh6AG034100

Exopolygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6A
OG0000434
Physical Location & Seq
Reverse (-)
4323819 .. 4324544
726 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6AG034100.1

Sequence Viewer

Length: 603 bp
ATGGGGGAAAGCCAAACTCAGACATTACAAATTAAGGCTTTGCTGAAAGCTTGGACTGACGCATGTGCATCACGGAGGGAGAGTAAAGTTCTTGTTCCAAGAGGCACCTACGGATTAAAGGAGCAATTTTCAGAGGTCATTGCAAGGCTCCTATTGAACTTCAGGTCCGAGGCACATTGCAGGCTCCAAAAGACACTAGCCGAGTCACGTCACCGGATACTTGGGTTGGTTTTCGGTACGTTAATAGGCTCACCTTGTCAGGTGGTGGAACTTTTGATGGCCGCGGAGCACTCTCTTGGAAACAGAACGACTGTAACGAAAACAAAAACTGCAAATCTCGGGTCGTGGTTCGACTTCGTCAACGATACAATAATTAAGGACATAACTTCACTAGACAGCAAGAACTTTCACCTCAACGTTTGCCACAATATTACTTTCCAACATGCAACCATCACAGCACCCGGAGAGAGTGTTAAAACAGACGGTATCCACATTGCACGTTCAACGATGTTCACTGTCGCTAACACCAGCATCGGAACCGGAGACGATTGTATTTCCATCGGTGATGGGACTTCACAACTTAAATTTACCAATGTGACTTGA
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

200

Amino Acids

21.91

Weight (kDa)

8.64

Isoelectric Point (pI)

34.21

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 109 - 200 6.5e-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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Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AccB1I GGYRCC 1 cut(s) 104
AccII CGCG 1 cut(s) 284
AciI CCGC 2 cut(s) 282, 284
AclI AACGTT 1 cut(s) 417
AcoI YGGCCR 1 cut(s) 279
AcsI RAATTY 1 cut(s) 584
AcuI CTGAAG 1 cut(s) 145
AfaI GTAC 1 cut(s) 238
AgsI TTSAA 2 cut(s) 157, 504
AjiI CACGTC 1 cut(s) 209
AloI GAACNNNNNNTCC 2 cut(s) 149, 181
AluBI AGCT 1 cut(s) 50
AluI AGCT 1 cut(s) 50
Alw21I GWGCWC 1 cut(s) 291
Alw26I GTCTC 1 cut(s) 537
Ama87I CYCGRG 1 cut(s) 338
AoxI GGCC 1 cut(s) 279
ApoI RAATTY 1 cut(s) 584
ArsI GACNNNNNNTTYG 2 cut(s) 326, 358
AspS9I GGNCC 1 cut(s) 165
AsuC2I CCSGG 1 cut(s) 462
AsuHPI GGTGA 4 cut(s) 203, 243, 401, 575
AvaI CYCGRG 1 cut(s) 338
AvaII GGWCC 1 cut(s) 165
BaeI ACNNNNGTAYC 2 cut(s) 209, 242
BanI GGYRCC 1 cut(s) 104
Bbv12I GWGCWC 1 cut(s) 291
BccI CCATC 4 cut(s) 271, 458, 560, 566
BciVI GTATCC 2 cut(s) 210, 497
BcnI CCSGG 1 cut(s) 462
BcoDI GTCTC 1 cut(s) 537
BfaI CTAG 2 cut(s) 197, 392
BfuI GTATCC 2 cut(s) 210, 497
BisI GCNGC 1 cut(s) 282
BlsI GCNGC 1 cut(s) 283
Bme1390I CCNGG 1 cut(s) 462
Bme18I GGWCC 1 cut(s) 165
BmeT110I CYCGRG 1 cut(s) 338
BmgBI CACGTC 1 cut(s) 209
BmgT120I GGNCC 1 cut(s) 165
BmiI GGNNCC 4 cut(s) 106, 149, 185, 538
BmrFI CCNGG 1 cut(s) 462
BmsI GCATC 2 cut(s) 77, 540
BpuMI CCSGG 1 cut(s) 462
BsaJI CCNNGG 2 cut(s) 168, 282
BsaWI WCCGGW 2 cut(s) 213, 539
BsaXI ACNNNNNCTCC 4 cut(s) 67, 97, 456, 486
Bse3DI GCAATG 3 cut(s) 138, 175, 492
BseDI CCNNGG 2 cut(s) 168, 282
BseMI GCAATG 3 cut(s) 138, 175, 492
BseMII CTCAG 1 cut(s) 32
Bsh1236I CGCG 1 cut(s) 284
BshFI GGCC 1 cut(s) 281
BshNI GGYRCC 1 cut(s) 104
BsiHKAI GWGCWC 1 cut(s) 291
BsiHKCI CYCGRG 1 cut(s) 338
BsiSI CCGG 3 cut(s) 214, 462, 540
BslFI GGGAC 1 cut(s) 583
BsmAI GTCTC 1 cut(s) 537
BsmBI CGTCTC 1 cut(s) 537
BsmFI GGGAC 1 cut(s) 583
BsnI GGCC 1 cut(s) 281
BsoBI CYCGRG 1 cut(s) 338
Bsp1286I GDGCHC 1 cut(s) 291
BspACI CCGC 2 cut(s) 282, 284
BspANI GGCC 1 cut(s) 281
BspCNI CTCAG 1 cut(s) 31
BspFNI CGCG 1 cut(s) 284
BspLI GGNNCC 4 cut(s) 106, 149, 185, 538
BspT107I GGYRCC 1 cut(s) 104
BsrDI GCAATG 3 cut(s) 138, 175, 492
BssECI CCNNGG 2 cut(s) 168, 282
Bst4CI ACNGT 3 cut(s) 313, 485, 517
BstC8I GCNNGC 1 cut(s) 182
BstDEI CTNAG 1 cut(s) 18
BstDSI CCRYGG 1 cut(s) 282
BstFNI CGCG 1 cut(s) 284
BstMAI GTCTC 1 cut(s) 537
BstNSI RCATGY 2 cut(s) 66, 446
BstSCI CCNGG 1 cut(s) 460
BstUI CGCG 1 cut(s) 284
BsuI GTATCC 2 cut(s) 210, 497
BsuRI GGCC 1 cut(s) 281
BtgI CCRYGG 1 cut(s) 282
BtrI CACGTC 1 cut(s) 209
BtsIMutI CAGTG 1 cut(s) 513
Cac8I GCNNGC 1 cut(s) 182
Cfr13I GGNCC 1 cut(s) 165
Cfr42I CCGCGG 1 cut(s) 285
CseI GACGC 1 cut(s) 68
Csp6I GTAC 1 cut(s) 237
CviAII CATG 2 cut(s) 63, 443
CviJI RGCY 8 cut(s) 12, 38, 50, 148, 184, 200, 249, 281
CviKI_1 RGCY 8 cut(s) 12, 38, 50, 148, 184, 200, 249, 281
CviQI GTAC 1 cut(s) 237
DdeI CTNAG 1 cut(s) 18
EaeI YGGCCR 1 cut(s) 279
Eco47I GGWCC 1 cut(s) 165
Eco57I CTGAAG 1 cut(s) 145
Eco88I CYCGRG 1 cut(s) 338
Esp3I CGTCTC 1 cut(s) 537
FaeI CATG 2 cut(s) 66, 446
FaiI YATR 3 cut(s) 64, 383, 444
FaqI GGGAC 1 cut(s) 583
FatI CATG 2 cut(s) 62, 442
Fnu4HI GCNGC 1 cut(s) 282
Fsp4HI GCNGC 1 cut(s) 282
FspBI CTAG 2 cut(s) 197, 392
GluI GCNGC 1 cut(s) 282
HaeIII GGCC 1 cut(s) 281
HapII CCGG 3 cut(s) 214, 462, 540
HgaI GACGC 1 cut(s) 68
Hin1II CATG 2 cut(s) 66, 446
HincII GTYRAC 1 cut(s) 361
HindII GTYRAC 1 cut(s) 361
HindIII AAGCTT 1 cut(s) 48
HinfI GANTC 1 cut(s) 203
HpaII CCGG 3 cut(s) 214, 462, 540
HphI GGTGA 4 cut(s) 203, 243, 401, 575
Hpy166II GTNNAC 2 cut(s) 361, 513
Hpy188I TCNGA 4 cut(s) 21, 133, 169, 536
Hpy8I GTNNAC 2 cut(s) 361, 513
HpyCH4III ACNGT 3 cut(s) 313, 485, 517
HpyCH4IV ACGT 4 cut(s) 208, 239, 417, 499
HpyCH4V TGCA 6 cut(s) 68, 143, 180, 332, 446, 497
HpyF3I CTNAG 1 cut(s) 18
HpySE526I ACGT 4 cut(s) 208, 239, 417, 499
Hsp92II CATG 2 cut(s) 66, 446
KspI CCGCGG 1 cut(s) 285
LmnI GCTCC 4 cut(s) 121, 153, 189, 286
LpnPI CCDG 7 cut(s) 148, 166, 227, 245, 475, 541, 553
LweI GCATC 2 cut(s) 77, 540
MaeI CTAG 2 cut(s) 197, 392
MaeII ACGT 4 cut(s) 208, 239, 417, 499
MaeIII GTNAC 4 cut(s) 204, 209, 313, 595
MhlI GDGCHC 1 cut(s) 291
MluCI AATT 4 cut(s) 30, 125, 372, 584
MlyI GAGTC 1 cut(s) 212
MmeI TCCRAC 1 cut(s) 463
MnlI CCTC 5 cut(s) 69, 95, 127, 163, 422
MseI TTAA 6 cut(s) 33, 116, 242, 375, 474, 582
MspA1I CMGCKG 1 cut(s) 284
MspI CCGG 3 cut(s) 214, 462, 540
MspR9I CCNGG 1 cut(s) 462
MvnI CGCG 1 cut(s) 284
NciI CCSGG 1 cut(s) 462
NlaIII CATG 2 cut(s) 66, 446
NlaIV GGNNCC 4 cut(s) 106, 149, 185, 538
NmeAIII GCCGAG 1 cut(s) 226
NmuCI GTSAC 3 cut(s) 204, 209, 595
NspI RCATGY 2 cut(s) 66, 446
PcsI WCGNNNNNNNCGW 1 cut(s) 314
PflFI GACNNNGTC 1 cut(s) 356
PkrI GCNGC 1 cut(s) 283
PleI GAGTC 1 cut(s) 211
PpsI GAGTC 1 cut(s) 211
Psp1406I AACGTT 1 cut(s) 417
PspN4I GGNNCC 4 cut(s) 106, 149, 185, 538
PspPI GGNCC 1 cut(s) 165
PsyI GACNNNGTC 1 cut(s) 356
RsaI GTAC 1 cut(s) 238
RsaNI GTAC 1 cut(s) 237
SacII CCGCGG 1 cut(s) 285
SaqAI TTAA 6 cut(s) 33, 116, 242, 375, 474, 582
SatI GCNGC 1 cut(s) 282
Sau96I GGNCC 1 cut(s) 165
SchI GAGTC 1 cut(s) 212
ScrFI CCNGG 1 cut(s) 462
SduI GDGCHC 1 cut(s) 291
SfaNI GCATC 2 cut(s) 77, 540
Sfr303I CCGCGG 1 cut(s) 285
SgrBI CCGCGG 1 cut(s) 285
SinI GGWCC 1 cut(s) 165
Sse9I AATT 4 cut(s) 30, 125, 372, 584
SsiI CCGC 2 cut(s) 282, 284
SspI AATATT 1 cut(s) 430
SspMI CTAG 2 cut(s) 197, 392
StyD4I CCNGG 1 cut(s) 460
TaaI ACNGT 3 cut(s) 313, 485, 517
TaiI ACGT 4 cut(s) 211, 242, 420, 502
TaqI TCGA 1 cut(s) 351
TasI AATT 4 cut(s) 30, 125, 372, 584
TauI GCSGC 1 cut(s) 284
Tru1I TTAA 6 cut(s) 33, 116, 242, 375, 474, 582
Tru9I TTAA 6 cut(s) 33, 116, 242, 375, 474, 582
TscAI CASTG 1 cut(s) 520
TseFI GTSAC 3 cut(s) 204, 209, 595
Tsp45I GTSAC 3 cut(s) 204, 209, 595
TspGWI ACGGA 2 cut(s) 88, 126
TspRI CASTG 1 cut(s) 520
Tth111I GACNNNGTC 1 cut(s) 356
VpaK11BI GGWCC 1 cut(s) 165
XapI RAATTY 1 cut(s) 584
XceI RCATGY 2 cut(s) 66, 446
XspI CTAG 2 cut(s) 197, 392
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.