Rroxscaffold_2G00097360

Rhamnogalacturonate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0014774
Physical Location & Seq
Reverse (-)
18584912 .. 18585693
782 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00097360.1

Sequence Viewer

Length: 468 bp
ATGGGGTTGGCTTCTTGGGACACTAACAATGCTGCTAGTTCGGTTTTTCTCTTGGTTGGTTTTGGATTTGACAACAGCACCCCAGCAAAAAGATCATTGCGGAGTGATTTCGGACAACATTATGGGGTGAAGATGGTATTGCAGCGTGATCGTTATGGGTTCTATGCATATGCCATTTTTGAGTACTTAGAAGGGTGGCATGAAGTGGTGATTTATCAAATAAGACTGGTTTTCAAGCTTCAACAAGCCAAGTTCCGGTACATGGCGCTATCGGACACTAGACAAAGGTTCATGCCAACAGCCTATGAACGTGAATATTATGGTATGAAACTCACCTATAAAGAAGCTGTTCTCCTAAAAAATACAGGAGAGGTAGTTGACAAGTATCAATACTCAATTGAGGACAAGGATAAAAGGTGCATGGTTGGATTTGTCCCGATGACGAATCACATGTTGGGTTTTGGATGA
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

155

Amino Acids

18.16

Weight (kDa)

9.08

Isoelectric Point (pI)

40.93

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rhamnogal_lyase PF06045 45 - 122 1e-23 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
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 100
AfaI GTAC 2 cut(s) 185, 260
AfiI CCNNNNNNNGG 2 cut(s) 255, 262
AflIII ACRYGT 1 cut(s) 450
AgsI TTSAA 2 cut(s) 235, 242
AjuI GAANNNNNNNTTGG 1 cut(s) 437
AluBI AGCT 2 cut(s) 238, 347
AluI AGCT 2 cut(s) 238, 347
ApeKI GCWGC 2 cut(s) 32, 142
Asp700I GAANNNNTTC 1 cut(s) 348
AspLEI GCGC 1 cut(s) 268
AsuHPI GGTGA 3 cut(s) 139, 220, 325
BbvI GCAGC 2 cut(s) 19, 154
BccI CCATC 1 cut(s) 127
BcgI CGANNNNNNTGC 2 cut(s) 131, 165
BfaI CTAG 2 cut(s) 36, 279
BfoI RGCGCY 1 cut(s) 269
BisI GCNGC 2 cut(s) 33, 143
BlsI GCNGC 2 cut(s) 34, 144
BmcAI AGTACT 1 cut(s) 185
BsaWI WCCGGW 1 cut(s) 255
BsaXI ACNNNNNCTCC 2 cut(s) 360, 390
Bsc4I CCNNNNNNNGG 2 cut(s) 255, 262
Bse1I ACTGG 1 cut(s) 231
Bse3DI GCAATG 1 cut(s) 95
BseLI CCNNNNNNNGG 2 cut(s) 255, 262
BseMI GCAATG 1 cut(s) 95
BseNI ACTGG 1 cut(s) 231
BseXI GCAGC 2 cut(s) 19, 154
BseYI CCCAGC 1 cut(s) 82
BsiSI CCGG 1 cut(s) 256
BslFI GGGAC 2 cut(s) 32, 419
BslI CCNNNNNNNGG 2 cut(s) 255, 262
BsmFI GGGAC 2 cut(s) 32, 419
Bsp143I GATC 2 cut(s) 92, 148
BspACI CCGC 1 cut(s) 100
BsrDI GCAATG 1 cut(s) 95
BsrI ACTGG 1 cut(s) 231
BssMI GATC 2 cut(s) 92, 148
BstDEI CTNAG 1 cut(s) 187
BstH2I RGCGCY 1 cut(s) 269
BstHHI GCGC 1 cut(s) 268
BstKTI GATC 2 cut(s) 95, 151
BstMBI GATC 2 cut(s) 92, 148
BstNSI RCATGY 1 cut(s) 454
BstV1I GCAGC 2 cut(s) 19, 154
CfoI GCGC 1 cut(s) 268
Csp6I GTAC 2 cut(s) 184, 259
CviAII CATG 5 cut(s) 200, 262, 292, 421, 451
CviJI RGCY 5 cut(s) 11, 238, 248, 302, 347
CviKI_1 RGCY 5 cut(s) 11, 238, 248, 302, 347
CviQI GTAC 2 cut(s) 184, 259
DdeI CTNAG 1 cut(s) 187
DpnI GATC 2 cut(s) 94, 150
DpnII GATC 2 cut(s) 92, 148
EcoT22I ATGCAT 1 cut(s) 169
FaeI CATG 5 cut(s) 203, 265, 295, 424, 454
FaqI GGGAC 2 cut(s) 32, 419
FatI CATG 5 cut(s) 199, 261, 291, 420, 450
FauNDI CATATG 1 cut(s) 169
Fnu4HI GCNGC 2 cut(s) 33, 143
Fsp4HI GCNGC 2 cut(s) 33, 143
FspBI CTAG 2 cut(s) 36, 279
GlaI GCGC 1 cut(s) 267
GluI GCNGC 2 cut(s) 33, 143
GsaI CCCAGC 1 cut(s) 86
HaeII RGCGCY 1 cut(s) 269
HapII CCGG 1 cut(s) 256
HhaI GCGC 1 cut(s) 268
Hin1II CATG 5 cut(s) 203, 265, 295, 424, 454
Hin6I GCGC 1 cut(s) 266
HinP1I GCGC 1 cut(s) 266
HincII GTYRAC 1 cut(s) 379
HindII GTYRAC 1 cut(s) 379
HindIII AAGCTT 1 cut(s) 236
HinfI GANTC 1 cut(s) 445
HpaII CCGG 1 cut(s) 256
HphI GGTGA 3 cut(s) 139, 220, 325
Hpy166II GTNNAC 1 cut(s) 379
Hpy188I TCNGA 2 cut(s) 113, 274
Hpy188III TCNNGA 1 cut(s) 436
Hpy8I GTNNAC 1 cut(s) 379
HpyAV CCTTC 1 cut(s) 185
HpyCH4IV ACGT 1 cut(s) 310
HpyCH4V TGCA 3 cut(s) 142, 167, 420
HpyF3I CTNAG 1 cut(s) 187
HpySE526I ACGT 1 cut(s) 310
Hsp92II CATG 5 cut(s) 203, 265, 295, 424, 454
HspAI GCGC 1 cut(s) 266
Kzo9I GATC 2 cut(s) 92, 148
LpnPI CCDG 4 cut(s) 96, 212, 269, 351
Lsp1109I GCAGC 2 cut(s) 19, 154
MaeI CTAG 2 cut(s) 36, 279
MaeII ACGT 1 cut(s) 310
MalI GATC 2 cut(s) 94, 150
MboI GATC 2 cut(s) 92, 148
MboII GAAGA 1 cut(s) 142
MfeI CAATTG 1 cut(s) 396
MluCI AATT 1 cut(s) 396
MmeI TCCRAC 1 cut(s) 406
MnlI CCTC 2 cut(s) 364, 394
Mph1103I ATGCAT 1 cut(s) 169
MroXI GAANNNNTTC 1 cut(s) 348
MspI CCGG 1 cut(s) 256
MunI CAATTG 1 cut(s) 396
NdeI CATATG 1 cut(s) 169
NdeII GATC 2 cut(s) 92, 148
NlaIII CATG 5 cut(s) 203, 265, 295, 424, 454
NsiI ATGCAT 1 cut(s) 169
NspI RCATGY 1 cut(s) 454
PciI ACATGT 1 cut(s) 450
PdmI GAANNNNTTC 1 cut(s) 348
PfeI GAWTC 1 cut(s) 445
PkrI GCNGC 2 cut(s) 34, 144
PscI ACATGT 1 cut(s) 450
PspFI CCCAGC 1 cut(s) 82
RsaI GTAC 2 cut(s) 185, 260
RsaNI GTAC 2 cut(s) 184, 259
SatI GCNGC 2 cut(s) 33, 143
Sau3AI GATC 2 cut(s) 92, 148
ScaI AGTACT 1 cut(s) 185
SetI ASST 7 cut(s) 240, 290, 313, 338, 349, 375, 419
Sse9I AATT 1 cut(s) 396
SsiI CCGC 1 cut(s) 100
SspI AATATT 1 cut(s) 317
SspMI CTAG 2 cut(s) 36, 279
TaiI ACGT 1 cut(s) 313
TasI AATT 1 cut(s) 396
TatI WGTACW 1 cut(s) 183
TfiI GAWTC 1 cut(s) 445
TseI GCWGC 2 cut(s) 32, 142
TspDTI ATGAA 4 cut(s) 216, 280, 321, 341
XceI RCATGY 1 cut(s) 454
XmnI GAANNNNTTC 1 cut(s) 348
XspI CTAG 2 cut(s) 36, 279
ZrmI AGTACT 1 cut(s) 185
Zsp2I ATGCAT 1 cut(s) 169
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.