Rh4CG335900

Pectate lyase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4C
OG0013798
Physical Location & Seq
Forward (+)
59590585 .. 59593046
2462 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4CG335900.1

Sequence Viewer

Length: 1104 bp
ATGAGGAGCATTAATGCGTCTCGAAGGAGTTTGGGTTTTCTTTCATGCGGAAGCGGAAACCCCATCGACGATTGCTGGAGGTGCGACCCCAAATGGGAGCAGAACCGGCAGAGACTCGCCGACTGCGCAATCGGGTTCGGAAAGCACGCCATTGGAGGCAGAGACGGCAAAATCTACGTCGTCACCGACGCCGGCGACCACCCTGTCAACCCAAAACCCGGGACTCTCCGCTACGCCGTCATCCAAGACGAGCCGTTATGGATCATCTTCAAAGGTGACATGACCATCACCCTGAAAGAGGAGCTGATGATGAACTCGTTCAAGACCATCGACGGCCGAGGAGCCAATGTACACATCGCCGGCGGGCCTTGCATTACTATTCAATACGTCACCAATATCATAATCCACGGCTTGAACATCCACGACTGCAAGCAAGGCGGGAATGCTTATGTTAGAGACTCTCCTAGCCATTATGGGTGGAGGACTTTGTCCGACGGAGACGGGGTCTCGATTTTCGGGGGAAGCCATGTTTGGGTGGATCATTGCTCTCTCTCCAACTGCCGTGATGGTCTCATTGATGCGATTCATGGCTCTACGGCTATTACGATTTCCAACAATTACATGACGCACCATAACAAGGTCATGTTGTTGGGTCACAGTGACACTTACACGCAGGACAAGAACATGCAGGTCACTATTGCGTTCAATCACTTTGGAGAAGGCCTTGTTCAAAGGATGCCAAGGTGTAGGCATGGAAATTTTCATGTGGTGAACAATGACTATACACATTGGGAAATGTATGCAATTGGGGGTAGTGCTTCTCCAACTATCAACAGCCAAGGGAATAGGTTTCTTGCACCTAATGATAGATTTAACAAAGAGGTGACTAAACATGAGGATGCACCACAGAATGAGTGGAGCAAATGGAACTGGAGATCTTCAGGGGATTTACTGATGAATGGTGCATTTTTCACAGCGTCTGGTGCAGGAGCTTCTTCGAGTTACGCCAAGGCTTCGAGTTTGGGTGCAAGGCCATCTTCCCTAGTGAGCTCAATCACAGCTGGTGCTGGTTCACTCAAATGTAAGAAGGGCTCACGTTGCTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00040 ko02024 map00040 map02024
Pfam Domains
Protein Families
Pec_lyase_C

Protein Analysis

367

Amino Acids

40.21

Weight (kDa)

8.59

Isoelectric Point (pI)

35.42

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pectate_lyase_4 PF00544 100 - 301 5.2e-21 Pectate lyase
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: OG0013798)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G67750
fragaria_vesca FvH4_4g25110
malus_domestica MD13G1106200.v1.1 MD16G1106400.v1.1
prunus_persica Prupe.1G239900_v2.0.a1 Prupe.1G239900_v2.0.a1
pyrus_communis pycom13g09220 pycom16g09060
rosa_chinensis RchiOBHm_Chr4g0432291
rosa_laevigata RLG00000006855
rosa_multiflora Rmu_sc0001084.1_g000044
rosa_roxburghii Rroxscaffold_5G00373750
rosa_rugosa Rorug04G0256800
rosa_samantha Rh4BG320700 Rh4CG335900 Rh4DG316200
rosa_wichuraiana Rw4G027220

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 203
Acc16I TGCGCA 1 cut(s) 127
Acc36I ACCTGC 1 cut(s) 679
AciI CCGC 5 cut(s) 48, 54, 229, 363, 438
AclWI GGATC 2 cut(s) 269, 546
AcoI YGGCCR 1 cut(s) 334
AcsI RAATTY 1 cut(s) 757
AcuI CTGAAG 1 cut(s) 924
AcyI GRCGYC 1 cut(s) 189
AfaI GTAC 1 cut(s) 351
AfiI CCNNNNNNNGG 5 cut(s) 94, 218, 298, 532, 637
AgsI TTSAA 6 cut(s) 271, 322, 383, 415, 706, 731
AjuI GAANNNNNNNTTGG 2 cut(s) 514, 546
AluBI AGCT 4 cut(s) 304, 992, 1050, 1061
AluI AGCT 4 cut(s) 304, 992, 1050, 1061
Alw21I GWGCWC 1 cut(s) 1052
Alw26I GTCTC 7 cut(s) 24, 106, 156, 450, 492, 511, 575
AlwI GGATC 2 cut(s) 269, 546
AlwNI CAGNNNCTG 1 cut(s) 980
Ama87I CYCGRG 1 cut(s) 218
AoxI GGCC 4 cut(s) 334, 365, 721, 1031
ApoI RAATTY 1 cut(s) 757
ArsI GACNNNNNNTTYG 2 cut(s) 162, 194
AseI ATTAAT 1 cut(s) 12
Asp700I GAANNNNTTC 1 cut(s) 317
AspLEI GCGC 1 cut(s) 128
AspS9I GGNCC 1 cut(s) 365
AsuC2I CCSGG 2 cut(s) 219, 220
AsuHPI GGTGA 6 cut(s) 175, 280, 287, 382, 781, 895
AvaI CYCGRG 1 cut(s) 218
BanII GRGCYC 2 cut(s) 1052, 1094
Bbv12I GWGCWC 1 cut(s) 1052
BccI CCATC 5 cut(s) 71, 293, 335, 560, 1042
BceAI ACGGC 7 cut(s) 181, 221, 238, 349, 424, 546, 612
BcnI CCSGG 2 cut(s) 219, 220
BcoDI GTCTC 7 cut(s) 24, 106, 156, 450, 492, 511, 575
BfaI CTAG 2 cut(s) 465, 1043
BfuAI ACCTGC 1 cut(s) 679
BglII AGATCT 1 cut(s) 935
Bme1390I CCNGG 2 cut(s) 219, 220
BmeT110I CYCGRG 1 cut(s) 218
BmgT120I GGNCC 1 cut(s) 365
BmiI GGNNCC 1 cut(s) 343
BmrFI CCNGG 2 cut(s) 219, 220
BmsI GCATC 3 cut(s) 568, 726, 889
BpmI CTGGAG 2 cut(s) 97, 952
BpuMI CCSGG 2 cut(s) 219, 220
BsaHI GRCGYC 1 cut(s) 189
BsaI GGTCTC 2 cut(s) 511, 575
BsaJI CCNNGG 6 cut(s) 218, 337, 406, 740, 838, 1008
BsaXI ACNNNNNCTCC 6 cut(s) 19, 49, 333, 363, 489, 519
Bsc4I CCNNNNNNNGG 5 cut(s) 94, 218, 298, 532, 637
Bse118I RCCGGY 3 cut(s) 105, 191, 359
Bse1I ACTGG 1 cut(s) 935
Bse3DI GCAATG 1 cut(s) 541
BseDI CCNNGG 6 cut(s) 218, 337, 406, 740, 838, 1008
BseGI GGATG 4 cut(s) 240, 417, 741, 904
BseLI CCNNNNNNNGG 5 cut(s) 94, 218, 298, 532, 637
BseMI GCAATG 1 cut(s) 541
BseNI ACTGG 1 cut(s) 935
BseRI GAGGAG 3 cut(s) 19, 314, 354
BseX3I CGGCCG 1 cut(s) 334
BsgI GTGCAG 1 cut(s) 1005
Bsh1285I CGRYCG 1 cut(s) 337
BshFI GGCC 4 cut(s) 336, 367, 723, 1033
BsiEI CGRYCG 1 cut(s) 337
BsiHKAI GWGCWC 1 cut(s) 1052
BsiHKCI CYCGRG 1 cut(s) 218
BsiSI CCGG 4 cut(s) 106, 192, 219, 360
BslFI GGGAC 1 cut(s) 235
BslI CCNNNNNNNGG 5 cut(s) 94, 218, 298, 532, 637
BsmAI GTCTC 7 cut(s) 24, 106, 156, 450, 492, 511, 575
BsmBI CGTCTC 3 cut(s) 24, 156, 492
BsmFI GGGAC 1 cut(s) 235
BsmI GAATGC 1 cut(s) 448
BsnI GGCC 4 cut(s) 336, 367, 723, 1033
Bso31I GGTCTC 2 cut(s) 511, 575
BsoBI CYCGRG 1 cut(s) 218
Bsp1286I GDGCHC 2 cut(s) 1052, 1094
Bsp1407I TGTACA 1 cut(s) 349
Bsp143I GATC 3 cut(s) 261, 538, 935
BspACI CCGC 5 cut(s) 48, 54, 229, 363, 438
BspANI GGCC 4 cut(s) 336, 367, 723, 1033
BspLI GGNNCC 1 cut(s) 343
BspMI ACCTGC 1 cut(s) 679
BspPI GGATC 2 cut(s) 269, 546
BspTNI GGTCTC 2 cut(s) 511, 575
BsrDI GCAATG 1 cut(s) 541
BsrFI RCCGGY 3 cut(s) 105, 191, 359
BsrGI TGTACA 1 cut(s) 349
BsrI ACTGG 1 cut(s) 935
BssAI RCCGGY 3 cut(s) 105, 191, 359
BssECI CCNNGG 6 cut(s) 218, 337, 406, 740, 838, 1008
BssMI GATC 3 cut(s) 261, 538, 935
BssNI GRCGYC 1 cut(s) 189
BssT1I CCWWGG 3 cut(s) 740, 838, 1008
Bst4CI ACNGT 1 cut(s) 659
BstACI GRCGYC 1 cut(s) 189
BstAUI TGTACA 1 cut(s) 349
BstC8I GCNNGC 5 cut(s) 147, 193, 361, 365, 431
BstDSI CCRYGG 1 cut(s) 406
BstENI CCTNNNNNAGG 1 cut(s) 296
BstF5I GGATG 4 cut(s) 240, 417, 741, 904
BstHHI GCGC 1 cut(s) 128
BstKTI GATC 3 cut(s) 264, 541, 938
BstMAI GTCTC 7 cut(s) 24, 106, 156, 450, 492, 511, 575
BstMBI GATC 3 cut(s) 261, 538, 935
BstMCI CGRYCG 1 cut(s) 337
BstMWI GCNNNNNNNGC 8 cut(s) 81, 106, 125, 165, 369, 435, 983, 1098
BstNSI RCATGY 1 cut(s) 688
BstSCI CCNGG 2 cut(s) 217, 218
BstX2I RGATCY 1 cut(s) 935
BstYI RGATCY 1 cut(s) 935
BstZI CGGCCG 1 cut(s) 334
BsuRI GGCC 4 cut(s) 336, 367, 723, 1033
BtgI CCRYGG 1 cut(s) 406
BtgZI GCGATG 1 cut(s) 340
BtsCI GGATG 4 cut(s) 240, 417, 741, 904
BtsIMutI CAGTG 1 cut(s) 664
BveI ACCTGC 1 cut(s) 679
Cac8I GCNNGC 5 cut(s) 147, 193, 361, 365, 431
CaiI CAGNNNCTG 1 cut(s) 980
CfoI GCGC 1 cut(s) 128
Cfr10I RCCGGY 3 cut(s) 105, 191, 359
Cfr13I GGNCC 1 cut(s) 365
Cfr9I CCCGGG 1 cut(s) 218
CseI GACGC 4 cut(s) 6, 197, 634, 966
Csp6I GTAC 1 cut(s) 350
CviQI GTAC 1 cut(s) 350
DpnI GATC 3 cut(s) 263, 540, 937
DpnII GATC 3 cut(s) 261, 538, 935
DrdI GACNNNNNNGTC 1 cut(s) 203
DseDI GACNNNNNNGTC 1 cut(s) 203
EaeI YGGCCR 1 cut(s) 334
EagI CGGCCG 1 cut(s) 334
Ecl136II GAGCTC 1 cut(s) 1050
EclXI CGGCCG 1 cut(s) 334
Eco130I CCWWGG 3 cut(s) 740, 838, 1008
Eco147I AGGCCT 1 cut(s) 723
Eco24I GRGCYC 2 cut(s) 1052, 1094
Eco31I GGTCTC 2 cut(s) 511, 575
Eco52I CGGCCG 1 cut(s) 334
Eco53kI GAGCTC 1 cut(s) 1050
Eco57I CTGAAG 1 cut(s) 924
Eco88I CYCGRG 1 cut(s) 218
EcoICRI GAGCTC 1 cut(s) 1050
EcoNI CCTNNNNNAGG 1 cut(s) 296
EcoT14I CCWWGG 3 cut(s) 740, 838, 1008
EcoT38I GRGCYC 2 cut(s) 1052, 1094
ErhI CCWWGG 3 cut(s) 740, 838, 1008
Esp3I CGTCTC 3 cut(s) 24, 156, 492
FalI AAGNNNNNCTT 2 cut(s) 1021, 1053
FaqI GGGAC 1 cut(s) 235
FauI CCCGC 2 cut(s) 356, 431
FokI GGATG 4 cut(s) 227, 404, 748, 911
FriOI GRGCYC 2 cut(s) 1052, 1094
FspBI CTAG 2 cut(s) 465, 1043
FspI TGCGCA 1 cut(s) 127
GlaI GCGC 1 cut(s) 127
GsuI CTGGAG 2 cut(s) 97, 952
HaeIII GGCC 4 cut(s) 336, 367, 723, 1033
HapII CCGG 4 cut(s) 106, 192, 219, 360
HgaI GACGC 4 cut(s) 6, 197, 634, 966
HhaI GCGC 1 cut(s) 128
Hin1I GRCGYC 1 cut(s) 189
Hin6I GCGC 1 cut(s) 126
HinP1I GCGC 1 cut(s) 126
HincII GTYRAC 1 cut(s) 208
HindII GTYRAC 1 cut(s) 208
HinfI GANTC 4 cut(s) 114, 223, 458, 583
HpaII CCGG 4 cut(s) 106, 192, 219, 360
HphI GGTGA 6 cut(s) 175, 280, 287, 382, 781, 895
Hpy166II GTNNAC 4 cut(s) 208, 352, 772, 1073
Hpy188I TCNGA 2 cut(s) 140, 493
Hpy188III TCNNGA 3 cut(s) 21, 322, 508
Hpy8I GTNNAC 4 cut(s) 208, 352, 772, 1073
Hpy99I CGWCG 5 cut(s) 71, 182, 191, 335, 497
HpyAV CCTTC 3 cut(s) 18, 713, 1081
HpyCH4III ACNGT 1 cut(s) 659
HpyCH4IV ACGT 3 cut(s) 177, 387, 1096
HpyCH4V TGCA 9 cut(s) 372, 429, 688, 803, 857, 902, 965, 986, 1028
HpyF10VI GCNNNNNNNGC 8 cut(s) 81, 106, 125, 165, 369, 435, 983, 1098
HpySE526I ACGT 3 cut(s) 177, 387, 1096
Hsp92I GRCGYC 1 cut(s) 189
HspAI GCGC 1 cut(s) 126
KroI GCCGGC 2 cut(s) 191, 359
KroNI GCCGGC 2 cut(s) 193, 361
Kzo9I GATC 3 cut(s) 261, 538, 935
LmnI GCTCC 6 cut(s) 6, 97, 301, 341, 918, 989
LweI GCATC 3 cut(s) 568, 726, 889
MaeI CTAG 2 cut(s) 465, 1043
MaeII ACGT 3 cut(s) 177, 387, 1096
MaeIII GTNAC 8 cut(s) 181, 275, 388, 653, 659, 691, 883, 1001
MalI GATC 3 cut(s) 263, 540, 937
MboI GATC 3 cut(s) 261, 538, 935
MboII GAAGA 4 cut(s) 259, 930, 987, 1029
MfeI CAATTG 1 cut(s) 804
MflI RGATCY 1 cut(s) 935
MhlI GDGCHC 2 cut(s) 1052, 1094
MluCI AATT 3 cut(s) 616, 757, 804
MlyI GAGTC 3 cut(s) 108, 217, 452
MmeI TCCRAC 4 cut(s) 516, 579, 636, 848
MnlI CCTC 7 cut(s) 72, 149, 292, 332, 474, 874, 889
MreI CGCCGGCG 2 cut(s) 191, 359
MroNI GCCGGC 2 cut(s) 191, 359
MroXI GAANNNNTTC 1 cut(s) 317
MseI TTAA 2 cut(s) 12, 873
MslI CAYNNNNRTG 2 cut(s) 897, 1078
MspA1I CMGCKG 1 cut(s) 1061
MspI CCGG 4 cut(s) 106, 192, 219, 360
MspR9I CCNGG 2 cut(s) 219, 220
MunI CAATTG 1 cut(s) 804
Mva1269I GAATGC 1 cut(s) 448
MwoI GCNNNNNNNGC 8 cut(s) 81, 106, 125, 165, 369, 435, 983, 1098
NaeI GCCGGC 2 cut(s) 193, 361
NciI CCSGG 2 cut(s) 219, 220
NdeII GATC 3 cut(s) 261, 538, 935
NgoMIV GCCGGC 2 cut(s) 191, 359
NlaIV GGNNCC 1 cut(s) 343
NmeAIII GCCGAG 1 cut(s) 362
NmuCI GTSAC 7 cut(s) 181, 275, 388, 653, 659, 691, 883
NsbI TGCGCA 1 cut(s) 127
NspI RCATGY 1 cut(s) 688
PceI AGGCCT 1 cut(s) 723
PcsI WCGNNNNNNNCGW 2 cut(s) 183, 602
PctI GAATGC 1 cut(s) 448
PdiI GCCGGC 2 cut(s) 193, 361
PdmI GAANNNNTTC 1 cut(s) 317
PfeI GAWTC 1 cut(s) 583
PflFI GACNNNGTC 2 cut(s) 487, 503
PleI GAGTC 3 cut(s) 108, 217, 452
PpsI GAGTC 3 cut(s) 108, 217, 452
PshBI ATTAAT 1 cut(s) 12
Psp124BI GAGCTC 1 cut(s) 1052
PspN4I GGNNCC 1 cut(s) 343
PspPI GGNCC 1 cut(s) 365
PstNI CAGNNNCTG 1 cut(s) 980
PsuI RGATCY 1 cut(s) 935
PsyI GACNNNGTC 2 cut(s) 487, 503
PvuII CAGCTG 1 cut(s) 1061
RsaI GTAC 1 cut(s) 351
RsaNI GTAC 1 cut(s) 350
RseI CAYNNNNRTG 2 cut(s) 897, 1078
SacI GAGCTC 1 cut(s) 1052
SaqAI TTAA 2 cut(s) 12, 873
Sau3AI GATC 3 cut(s) 261, 538, 935
Sau96I GGNCC 1 cut(s) 365
SchI GAGTC 3 cut(s) 108, 217, 452
ScrFI CCNGG 2 cut(s) 219, 220
SduI GDGCHC 2 cut(s) 1052, 1094
SfaNI GCATC 3 cut(s) 568, 726, 889
SgrAI CRCCGGYG 2 cut(s) 191, 359
SmaI CCCGGG 1 cut(s) 220
SmiMI CAYNNNNRTG 2 cut(s) 897, 1078
Sse9I AATT 3 cut(s) 616, 757, 804
SseBI AGGCCT 1 cut(s) 723
SsiI CCGC 5 cut(s) 48, 54, 229, 363, 438
SspMI CTAG 2 cut(s) 465, 1043
SstI GAGCTC 1 cut(s) 1052
StuI AGGCCT 1 cut(s) 723
StyD4I CCNGG 2 cut(s) 217, 218
StyI CCWWGG 3 cut(s) 740, 838, 1008
TaaI ACNGT 1 cut(s) 659
TaiI ACGT 3 cut(s) 180, 390, 1099
TaqI TCGA 6 cut(s) 22, 66, 330, 509, 998, 1016
TasI AATT 3 cut(s) 616, 757, 804
TatI WGTACW 1 cut(s) 349
TfiI GAWTC 1 cut(s) 583
Tru1I TTAA 2 cut(s) 12, 873
Tru9I TTAA 2 cut(s) 12, 873
TscAI CASTG 1 cut(s) 664
TseFI GTSAC 7 cut(s) 181, 275, 388, 653, 659, 691, 883
Tsp45I GTSAC 7 cut(s) 181, 275, 388, 653, 659, 691, 883
TspDTI ATGAA 5 cut(s) 33, 326, 575, 752, 971
TspGWI ACGGA 1 cut(s) 510
TspMI CCCGGG 1 cut(s) 218
TspRI CASTG 1 cut(s) 664
Tth111I GACNNNGTC 2 cut(s) 487, 503
VspI ATTAAT 1 cut(s) 12
XagI CCTNNNNNAGG 1 cut(s) 296
XapI RAATTY 1 cut(s) 757
XceI RCATGY 1 cut(s) 688
XcmI CCANNNNNNNNNTGG 1 cut(s) 912
XmaI CCCGGG 1 cut(s) 218
XmnI GAANNNNTTC 1 cut(s) 317
XspI CTAG 2 cut(s) 465, 1043
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.