Rh2BG491300

Rhamnogalacturonate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2B
OG0021339
Physical Location & Seq
Forward (+)
69056147 .. 69063938
7792 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2BG491300.1

Sequence Viewer

Length: 597 bp
ATGGAAAAGGTTTTCTGTCCTGTTTTTGTCTATCTTAATTCTGCTCCACCGGAATCAAATAATTCCATGAGTATTCTCTGGAACAATGCTAAACAACAAATGTTCAAAGAAGTCAAGAGTTGGCCATACAATTTCACTCAGTCTCAAGACTTTCCTTCTTCTGATCAAAGGGGTTCACTGTCCTGCCGATTACTAGTACATGATCGGTACGTCAATAATCAGTCCCTTCATTCAGCAAGTTCAGCTTATGTGGGACTTTCTCTGCCTGGAGAAGTGGGATCATGGCAAAAGGAAAGCAAGGGATACCTATTCTGGACTCATGCTGACAAAAAAGGAACCACATGGCAGATTCAGTTTGAACTTGACAATGTGACTCATCCCGGAAGTTTTACACTCCAATTGGCATTGGCCGCGGCCAGTTATTCAAAATTGCAAGTTCGGTTTAACAACTGGAACGCCAAGCGACCACAGTTTTCAACAGGTAGATTAGGTGTGGACAATGCTATAGCAAGACATGGAATTCATGGTTTGACTCGTTGTTCAGTGCAAGTGTACCAAGTTCTCTGTTGCATGAAGGAACAAACACAATCTATCTAA
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

198

Amino Acids

22.45

Weight (kDa)

9.13

Isoelectric Point (pI)

33.69

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
fn3_3 PF14686 80 - 132 1.2e-06 Polysaccharide lyase family 4, domain II
CBM-like PF14683 101 - 179 3.3e-14 Polysaccharide lyase family 4, domain III
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: OG0021339)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr2g0150231
rosa_laevigata RLG00000020480
rosa_multiflora Rmu_ssc0000020.1_g000006
rosa_samantha Rh2BG491300 Rh2DG500100

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 413
AciI CCGC 2 cut(s) 411, 413
AclWI GGATC 1 cut(s) 286
AcoI YGGCCR 3 cut(s) 122, 408, 414
AcsI RAATTY 1 cut(s) 519
AfaI GTAC 3 cut(s) 198, 209, 554
AgsI TTSAA 4 cut(s) 106, 359, 426, 477
AhlI ACTAGT 1 cut(s) 193
AjnI CCWGG 1 cut(s) 265
AluBI AGCT 1 cut(s) 245
AluI AGCT 1 cut(s) 245
Alw26I GTCTC 1 cut(s) 147
AlwI GGATC 1 cut(s) 286
AoxI GGCC 3 cut(s) 122, 408, 414
ApoI RAATTY 1 cut(s) 519
AsuC2I CCSGG 1 cut(s) 381
BalI TGGCCA 1 cut(s) 124
BciT130I CCWGG 1 cut(s) 267
BciVI GTATCC 1 cut(s) 296
BclI TGATCA 1 cut(s) 163
BcnI CCSGG 1 cut(s) 381
BcoDI GTCTC 1 cut(s) 147
BcuI ACTAGT 1 cut(s) 193
BfaI CTAG 1 cut(s) 194
BfmI CTRYAG 1 cut(s) 504
BfuI GTATCC 1 cut(s) 296
BisI GCNGC 2 cut(s) 411, 414
BlsI GCNGC 2 cut(s) 412, 415
Bme1390I CCNGG 2 cut(s) 267, 381
BmiI GGNNCC 1 cut(s) 337
BmrFI CCNGG 2 cut(s) 267, 381
BpmI CTGGAG 1 cut(s) 288
BpuEI CTTGAG 1 cut(s) 129
BpuMI CCSGG 1 cut(s) 381
BsaJI CCNNGG 1 cut(s) 411
BsaWI WCCGGW 1 cut(s) 49
Bse1I ACTGG 2 cut(s) 417, 455
BseBI CCWGG 1 cut(s) 267
BseDI CCNNGG 1 cut(s) 411
BseGI GGATG 1 cut(s) 376
BseMII CTCAG 1 cut(s) 152
BseNI ACTGG 2 cut(s) 417, 455
Bsh1236I CGCG 1 cut(s) 413
BshFI GGCC 3 cut(s) 124, 410, 416
BsiSI CCGG 2 cut(s) 50, 381
BslFI GGGAC 2 cut(s) 208, 267
BsmAI GTCTC 1 cut(s) 147
BsmFI GGGAC 2 cut(s) 208, 267
BsnI GGCC 3 cut(s) 124, 410, 416
Bsp143I GATC 3 cut(s) 163, 202, 278
BspACI CCGC 2 cut(s) 411, 413
BspANI GGCC 3 cut(s) 124, 410, 416
BspCNI CTCAG 1 cut(s) 151
BspFNI CGCG 1 cut(s) 413
BspLI GGNNCC 1 cut(s) 337
BspPI GGATC 1 cut(s) 286
BsrI ACTGG 2 cut(s) 417, 455
BssECI CCNNGG 1 cut(s) 411
BssMI GATC 3 cut(s) 163, 202, 278
Bst2UI CCWGG 1 cut(s) 267
Bst4CI ACNGT 2 cut(s) 180, 471
BstDEI CTNAG 1 cut(s) 138
BstDSI CCRYGG 1 cut(s) 411
BstF5I GGATG 1 cut(s) 376
BstFNI CGCG 1 cut(s) 413
BstKTI GATC 3 cut(s) 166, 205, 281
BstMAI GTCTC 1 cut(s) 147
BstMBI GATC 3 cut(s) 163, 202, 278
BstMWI GCNNNNNNNGC 2 cut(s) 242, 410
BstNI CCWGG 1 cut(s) 267
BstSCI CCNGG 2 cut(s) 265, 379
BstSFI CTRYAG 1 cut(s) 504
BstUI CGCG 1 cut(s) 413
BsuI GTATCC 1 cut(s) 296
BsuRI GGCC 3 cut(s) 124, 410, 416
BtgI CCRYGG 1 cut(s) 411
BtsCI GGATG 1 cut(s) 376
BtsIMutI CAGTG 2 cut(s) 176, 549
Cfr42I CCGCGG 1 cut(s) 414
Csp6I GTAC 3 cut(s) 197, 208, 553
CviAII CATG 8 cut(s) 67, 200, 282, 320, 342, 515, 524, 571
CviJI RGCY 4 cut(s) 124, 245, 410, 416
CviKI_1 RGCY 4 cut(s) 124, 245, 410, 416
CviQI GTAC 3 cut(s) 197, 208, 553
DdeI CTNAG 1 cut(s) 138
DpnI GATC 3 cut(s) 165, 204, 280
DpnII GATC 3 cut(s) 163, 202, 278
EaeI YGGCCR 3 cut(s) 122, 408, 414
EcoRI GAATTC 1 cut(s) 519
EcoRII CCWGG 1 cut(s) 265
FaeI CATG 8 cut(s) 70, 203, 285, 323, 345, 518, 527, 574
FalI AAGNNNNNCTT 2 cut(s) 229, 261
FaqI GGGAC 2 cut(s) 208, 267
FatI CATG 8 cut(s) 66, 199, 281, 319, 341, 514, 523, 570
FbaI TGATCA 1 cut(s) 163
Fnu4HI GCNGC 2 cut(s) 411, 414
FokI GGATG 1 cut(s) 363
Fsp4HI GCNGC 2 cut(s) 411, 414
FspBI CTAG 1 cut(s) 194
GluI GCNGC 2 cut(s) 411, 414
GsuI CTGGAG 1 cut(s) 288
HaeIII GGCC 3 cut(s) 124, 410, 416
HapII CCGG 2 cut(s) 50, 381
Hin1II CATG 8 cut(s) 70, 203, 285, 323, 345, 518, 527, 574
HinfI GANTC 5 cut(s) 53, 316, 349, 373, 532
HpaII CCGG 2 cut(s) 50, 381
Hpy166II GTNNAC 3 cut(s) 176, 496, 553
Hpy188I TCNGA 1 cut(s) 163
Hpy188III TCNNGA 4 cut(s) 79, 115, 146, 313
Hpy8I GTNNAC 3 cut(s) 176, 496, 553
HpyAV CCTTC 3 cut(s) 165, 236, 568
HpyCH4III ACNGT 2 cut(s) 180, 471
HpyCH4IV ACGT 1 cut(s) 210
HpyCH4V TGCA 3 cut(s) 433, 547, 570
HpyF10VI GCNNNNNNNGC 2 cut(s) 242, 410
HpyF3I CTNAG 1 cut(s) 138
HpySE526I ACGT 1 cut(s) 210
Hsp92II CATG 8 cut(s) 70, 203, 285, 323, 345, 518, 527, 574
Ksp22I TGATCA 1 cut(s) 163
KspI CCGCGG 1 cut(s) 414
Kzo9I GATC 3 cut(s) 163, 202, 278
LmnI GCTCC 1 cut(s) 49
MaeI CTAG 1 cut(s) 194
MaeII ACGT 1 cut(s) 210
MaeIII GTNAC 1 cut(s) 370
MalI GATC 3 cut(s) 165, 204, 280
MboI GATC 3 cut(s) 163, 202, 278
MboII GAAGA 1 cut(s) 150
MfeI CAATTG 1 cut(s) 398
MlsI TGGCCA 1 cut(s) 124
MluCI AATT 6 cut(s) 37, 61, 130, 398, 428, 519
MluNI TGGCCA 1 cut(s) 124
MlyI GAGTC 3 cut(s) 310, 367, 526
Mox20I TGGCCA 1 cut(s) 124
MscI TGGCCA 1 cut(s) 124
MseI TTAA 2 cut(s) 36, 444
Msp20I TGGCCA 1 cut(s) 124
MspA1I CMGCKG 1 cut(s) 413
MspI CCGG 2 cut(s) 50, 381
MspR9I CCNGG 2 cut(s) 267, 381
MunI CAATTG 1 cut(s) 398
MvaI CCWGG 1 cut(s) 267
MvnI CGCG 1 cut(s) 413
MwoI GCNNNNNNNGC 2 cut(s) 242, 410
NciI CCSGG 1 cut(s) 381
NdeII GATC 3 cut(s) 163, 202, 278
NlaIII CATG 8 cut(s) 70, 203, 285, 323, 345, 518, 527, 574
NlaIV GGNNCC 1 cut(s) 337
NmuCI GTSAC 1 cut(s) 370
PfeI GAWTC 2 cut(s) 53, 349
PfoI TCCNGGA 1 cut(s) 379
PkrI GCNGC 2 cut(s) 412, 415
PleI GAGTC 3 cut(s) 310, 367, 526
PpsI GAGTC 3 cut(s) 310, 367, 526
Psp6I CCWGG 1 cut(s) 265
PspGI CCWGG 1 cut(s) 265
PspN4I GGNNCC 1 cut(s) 337
RsaI GTAC 3 cut(s) 198, 209, 554
RsaNI GTAC 3 cut(s) 197, 208, 553
SacII CCGCGG 1 cut(s) 414
SaqAI TTAA 2 cut(s) 36, 444
SatI GCNGC 2 cut(s) 411, 414
Sau3AI GATC 3 cut(s) 163, 202, 278
SchI GAGTC 3 cut(s) 310, 367, 526
ScrFI CCNGG 2 cut(s) 267, 381
SetI ASST 6 cut(s) 12, 213, 247, 309, 484, 493
SfcI CTRYAG 1 cut(s) 504
Sfr303I CCGCGG 1 cut(s) 414
SgrBI CCGCGG 1 cut(s) 414
SmlI CTYRAG 1 cut(s) 144
SmoI CTYRAG 1 cut(s) 144
SpeI ACTAGT 1 cut(s) 193
Sse9I AATT 6 cut(s) 37, 61, 130, 398, 428, 519
SsiI CCGC 2 cut(s) 411, 413
SspMI CTAG 1 cut(s) 194
StyD4I CCNGG 2 cut(s) 265, 379
TaaI ACNGT 2 cut(s) 180, 471
TaiI ACGT 1 cut(s) 213
TasI AATT 6 cut(s) 37, 61, 130, 398, 428, 519
TatI WGTACW 1 cut(s) 196
TauI GCSGC 2 cut(s) 413, 416
TfiI GAWTC 2 cut(s) 53, 349
Tru1I TTAA 2 cut(s) 36, 444
Tru9I TTAA 2 cut(s) 36, 444
TscAI CASTG 2 cut(s) 183, 549
TseFI GTSAC 1 cut(s) 370
Tsp45I GTSAC 1 cut(s) 370
TspDTI ATGAA 3 cut(s) 218, 512, 587
TspRI CASTG 2 cut(s) 183, 549
XapI RAATTY 1 cut(s) 519
XspI CTAG 1 cut(s) 194
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.