Rh2DG500100

Rhamnogalacturonate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2D
OG0021339
Physical Location & Seq
Forward (+)
71979876 .. 71987667
7792 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2DG500100.1

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
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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.