RchiOBHm_Chr4g0436881

Exopolygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
4
OG0002146
Physical Location & Seq
Reverse (-)
60065319 .. 60066400
1082 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ40518

Sequence Viewer

Length: 861 bp
ATGACGCCGTCCGGGACATCCAGAGGGTTCGTTCGGCAACTGCAGCGCCTCTATCGCTGCTTGATCAAGGTCGGAAAAGGGACGTCCACACTATTTTTGGGTTGCAGACGCCCGCTTTTGATTGAGCATACATTGAGGTTAGATTTTGTTTCTCATGCAAGCATCCGCCAAATAACATTTCTCAACAGCAAGAACACCCACATCAAAATTTTCACATGCAGTGTTGTAGTAATTAGCAACATCAACATATCGGCTCCCGGCGACAGTCCCAACACTGACGGAATCAAAGTAAGTAATTCCAAATACATCCAAATCTTGGATTCAGTGATATCCGTAGGGGACGACTGCATAGCGTGCCTTCCCAATTCAAAGAACATCAACATAACTAGAGTTCACTGTGGACCTGGACATGGATTTAGCATCGGAAGCATTTCTCGTGGTGCTGTTACTAATTTGAACATAAGAAACAGCAGTTTAGTTGGTACTCAGAATGGAGTGAGAATCAAGACAAAGGCTTATCCATCTCAGCCAGGCAACGTTGCATATATTACATTTGAGCACATTGAAATGGATAATGTCGGCAACCCCATCATCATTGATCAAAACTATTGCCCTGATCACGGATGTAGCGGGAAGGAATCCTCACAAGTTCAGATTAAAAATGTTAAGTTTAATAACATTTGGGGAACTTCAAGAACAAAGACTGCAGTTAATTTCAACTGCAGCCAAAGTAAACCTTGCCATGAGATTGAGCTGAGAGACATCGACCTAAATTATAGAGACGGAGGACCTGCGAATTCGTCATGTTCATATGTGGATGGCAAAGCTTATGGCAAACAAAACCCTCCTTCTTGCTTATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00040 ko01100 map00040 map01100
Pfam Domains
Protein Families
Glyco_hydro_28

Protein Analysis

286

Amino Acids

31.23

Weight (kDa)

9.23

Isoelectric Point (pI)

45.45

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 43 - 274 3.3e-71 Glycosyl hydrolases family 28
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

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 859
AatII GACGTC 1 cut(s) 86
Acc36I ACCTGC 1 cut(s) 799
AccB7I CCANNNNNTGG 1 cut(s) 316
AciI CCGC 3 cut(s) 113, 166, 630
AclI AACGTT 1 cut(s) 537
AcsI RAATTY 2 cut(s) 207, 796
AcyI GRCGYC 3 cut(s) 5, 83, 109
AfaI GTAC 1 cut(s) 484
AfiI CCNNNNNNNGG 3 cut(s) 316, 410, 620
AgsI TTSAA 5 cut(s) 369, 457, 566, 693, 718
AjnI CCWGG 2 cut(s) 403, 529
AjuI GAANNNNNNNTTGG 2 cut(s) 162, 194
AluBI AGCT 2 cut(s) 754, 827
AluI AGCT 2 cut(s) 754, 827
Alw21I GWGCWC 1 cut(s) 561
Alw26I GTCTC 2 cut(s) 753, 774
ApeKI GCWGC 3 cut(s) 43, 57, 723
ApoI RAATTY 2 cut(s) 207, 796
Asp700I GAANNNNTTC 1 cut(s) 430
AspLEI GCGC 1 cut(s) 48
AspS9I GGNCC 2 cut(s) 401, 788
AsuC2I CCSGG 2 cut(s) 13, 258
AvaII GGWCC 2 cut(s) 401, 788
BauI CACGAG 1 cut(s) 435
Bbv12I GWGCWC 1 cut(s) 561
BbvI GCAGC 3 cut(s) 44, 55, 735
BccI CCATC 3 cut(s) 529, 596, 812
BciT130I CCWGG 2 cut(s) 405, 531
BclI TGATCA 3 cut(s) 63, 598, 616
BcnI CCSGG 2 cut(s) 13, 258
BcoDI GTCTC 2 cut(s) 753, 774
BfaI CTAG 1 cut(s) 387
BfmI CTRYAG 3 cut(s) 41, 705, 721
BfoI RGCGCY 1 cut(s) 49
BfuAI ACCTGC 1 cut(s) 799
BisI GCNGC 3 cut(s) 44, 58, 724
BlsI GCNGC 3 cut(s) 45, 59, 725
Bme1390I CCNGG 4 cut(s) 13, 258, 405, 531
Bme18I GGWCC 2 cut(s) 401, 788
BmgT120I GGNCC 2 cut(s) 401, 788
BmiI GGNNCC 1 cut(s) 255
BmrFI CCNGG 4 cut(s) 13, 258, 405, 531
BmsI GCATC 2 cut(s) 171, 429
BpuMI CCSGG 2 cut(s) 13, 258
BsaHI GRCGYC 3 cut(s) 5, 83, 109
Bsc4I CCNNNNNNNGG 3 cut(s) 316, 410, 620
BseBI CCWGG 2 cut(s) 405, 531
BseGI GGATG 5 cut(s) 17, 162, 306, 629, 823
BseLI CCNNNNNNNGG 3 cut(s) 316, 410, 620
BseMII CTCAG 3 cut(s) 500, 539, 746
BseXI GCAGC 3 cut(s) 44, 55, 735
BsiHKAI GWGCWC 1 cut(s) 561
BsiSI CCGG 2 cut(s) 12, 258
BslFI GGGAC 4 cut(s) 28, 94, 252, 353
BslI CCNNNNNNNGG 3 cut(s) 316, 410, 620
BsmAI GTCTC 2 cut(s) 753, 774
BsmBI CGTCTC 1 cut(s) 774
BsmFI GGGAC 4 cut(s) 28, 94, 252, 353
Bsp1286I GDGCHC 1 cut(s) 561
Bsp143I GATC 3 cut(s) 63, 598, 616
BspACI CCGC 3 cut(s) 113, 166, 630
BspCNI CTCAG 3 cut(s) 499, 538, 747
BspLI GGNNCC 1 cut(s) 255
BspMAI CTGCAG 3 cut(s) 45, 709, 725
BspMI ACCTGC 1 cut(s) 799
BssMI GATC 3 cut(s) 63, 598, 616
BssNI GRCGYC 3 cut(s) 5, 83, 109
BssSI CACGAG 1 cut(s) 435
Bst2BI CACGAG 1 cut(s) 435
Bst2UI CCWGG 2 cut(s) 405, 531
Bst4CI ACNGT 2 cut(s) 266, 398
BstACI GRCGYC 3 cut(s) 5, 83, 109
BstAPI GCANNNNNTGC 1 cut(s) 354
BstC8I GCNNGC 3 cut(s) 113, 160, 355
BstDEI CTNAG 3 cut(s) 486, 525, 755
BstF5I GGATG 5 cut(s) 17, 162, 306, 629, 823
BstH2I RGCGCY 1 cut(s) 49
BstHHI GCGC 1 cut(s) 48
BstKTI GATC 3 cut(s) 66, 601, 619
BstMAI GTCTC 2 cut(s) 753, 774
BstMBI GATC 3 cut(s) 63, 598, 616
BstMWI GCNNNNNNNGC 4 cut(s) 43, 54, 354, 426
BstNI CCWGG 2 cut(s) 405, 531
BstNSI RCATGY 1 cut(s) 219
BstSCI CCNGG 4 cut(s) 11, 256, 403, 529
BstSFI CTRYAG 3 cut(s) 41, 705, 721
BstV1I GCAGC 3 cut(s) 44, 55, 735
BtsCI GGATG 5 cut(s) 17, 162, 306, 629, 823
BtsI GCAGTG 1 cut(s) 226
BtsIMutI CAGTG 4 cut(s) 226, 273, 330, 394
BveI ACCTGC 1 cut(s) 799
Cac8I GCNNGC 3 cut(s) 113, 160, 355
CfoI GCGC 1 cut(s) 48
Cfr13I GGNCC 2 cut(s) 401, 788
CseI GACGC 2 cut(s) 13, 117
Csp6I GTAC 1 cut(s) 483
CviAII CATG 5 cut(s) 155, 216, 410, 743, 804
CviJI RGCY 6 cut(s) 254, 515, 529, 726, 754, 827
CviKI_1 RGCY 6 cut(s) 254, 515, 529, 726, 754, 827
CviQI GTAC 1 cut(s) 483
DdeI CTNAG 3 cut(s) 486, 525, 755
DpnI GATC 3 cut(s) 65, 600, 618
DpnII GATC 3 cut(s) 63, 598, 616
EciI GGCGGA 1 cut(s) 155
Eco32I GATATC 1 cut(s) 330
Eco47I GGWCC 2 cut(s) 401, 788
EcoO109I RGGNCCY 1 cut(s) 788
EcoRI GAATTC 1 cut(s) 796
EcoRII CCWGG 2 cut(s) 403, 529
EcoRV GATATC 1 cut(s) 330
Esp3I CGTCTC 1 cut(s) 774
FaeI CATG 5 cut(s) 158, 219, 413, 746, 807
FalI AAGNNNNNCTT 2 cut(s) 721, 753
FaqI GGGAC 4 cut(s) 28, 94, 252, 353
FatI CATG 5 cut(s) 154, 215, 409, 742, 803
FauI CCCGC 2 cut(s) 120, 623
FauNDI CATATG 1 cut(s) 811
FbaI TGATCA 3 cut(s) 63, 598, 616
Fnu4HI GCNGC 3 cut(s) 44, 58, 724
FokI GGATG 5 cut(s) 4, 149, 293, 636, 830
Fsp4HI GCNGC 3 cut(s) 44, 58, 724
FspBI CTAG 1 cut(s) 387
GlaI GCGC 1 cut(s) 47
GluI GCNGC 3 cut(s) 44, 58, 724
HaeII RGCGCY 1 cut(s) 49
HapII CCGG 2 cut(s) 12, 258
HgaI GACGC 2 cut(s) 13, 117
HhaI GCGC 1 cut(s) 48
Hin1I GRCGYC 3 cut(s) 5, 83, 109
Hin1II CATG 5 cut(s) 158, 219, 413, 746, 807
Hin6I GCGC 1 cut(s) 46
HinP1I GCGC 1 cut(s) 46
HindIII AAGCTT 1 cut(s) 825
HinfI GANTC 4 cut(s) 282, 320, 501, 638
HpaII CCGG 2 cut(s) 12, 258
Hpy166II GTNNAC 4 cut(s) 87, 394, 401, 734
Hpy188I TCNGA 4 cut(s) 74, 425, 489, 654
Hpy188III TCNNGA 3 cut(s) 21, 505, 693
Hpy8I GTNNAC 4 cut(s) 87, 394, 401, 734
HpyAV CCTTC 3 cut(s) 368, 628, 858
HpyCH4III ACNGT 2 cut(s) 266, 398
HpyCH4IV ACGT 2 cut(s) 83, 537
HpyCH4V TGCA 8 cut(s) 43, 105, 158, 219, 348, 542, 707, 723
HpyF10VI GCNNNNNNNGC 4 cut(s) 43, 54, 354, 426
HpyF3I CTNAG 3 cut(s) 486, 525, 755
HpySE526I ACGT 2 cut(s) 83, 537
Hsp92I GRCGYC 3 cut(s) 5, 83, 109
Hsp92II CATG 5 cut(s) 158, 219, 413, 746, 807
HspAI GCGC 1 cut(s) 46
Ksp22I TGATCA 3 cut(s) 63, 598, 616
Kzo9I GATC 3 cut(s) 63, 598, 616
LmnI GCTCC 1 cut(s) 259
LpnPI CCDG 9 cut(s) 25, 34, 271, 390, 417, 516, 543, 627, 804
Lsp1109I GCAGC 3 cut(s) 44, 55, 735
LweI GCATC 2 cut(s) 171, 429
MaeI CTAG 1 cut(s) 387
MaeII ACGT 2 cut(s) 83, 537
MaeIII GTNAC 1 cut(s) 445
MalI GATC 3 cut(s) 65, 600, 618
MboI GATC 3 cut(s) 63, 598, 616
MhlI GDGCHC 1 cut(s) 561
MluCI AATT 8 cut(s) 207, 231, 295, 364, 451, 712, 772, 796
MmeI TCCRAC 1 cut(s) 52
MnlI CCTC 6 cut(s) 17, 59, 129, 652, 779, 855
MroXI GAANNNNTTC 1 cut(s) 430
MseI TTAA 4 cut(s) 657, 666, 672, 711
MslI CAYNNNNRTG 1 cut(s) 566
MspI CCGG 2 cut(s) 12, 258
MspR9I CCNGG 4 cut(s) 13, 258, 405, 531
MvaI CCWGG 2 cut(s) 405, 531
MwoI GCNNNNNNNGC 4 cut(s) 43, 54, 354, 426
NciI CCSGG 2 cut(s) 13, 258
NdeI CATATG 1 cut(s) 811
NdeII GATC 3 cut(s) 63, 598, 616
NlaIII CATG 5 cut(s) 158, 219, 413, 746, 807
NlaIV GGNNCC 1 cut(s) 255
NspI RCATGY 1 cut(s) 219
PdmI GAANNNNTTC 1 cut(s) 430
PfeI GAWTC 4 cut(s) 282, 320, 501, 638
PflFI GACNNNGTC 1 cut(s) 7
PflMI CCANNNNNTGG 1 cut(s) 316
PfoI TCCNGGA 1 cut(s) 11
PkrI GCNGC 3 cut(s) 45, 59, 725
PpuMI RGGWCCY 1 cut(s) 788
PsiI TTATAA 1 cut(s) 859
Psp1406I AACGTT 1 cut(s) 537
Psp5II RGGWCCY 1 cut(s) 788
Psp6I CCWGG 2 cut(s) 403, 529
PspGI CCWGG 2 cut(s) 403, 529
PspN4I GGNNCC 1 cut(s) 255
PspPI GGNCC 2 cut(s) 401, 788
PspPPI RGGWCCY 1 cut(s) 788
PstI CTGCAG 3 cut(s) 45, 709, 725
PsyI GACNNNGTC 1 cut(s) 7
RsaI GTAC 1 cut(s) 484
RsaNI GTAC 1 cut(s) 483
RseI CAYNNNNRTG 1 cut(s) 566
SaqAI TTAA 4 cut(s) 657, 666, 672, 711
SatI GCNGC 3 cut(s) 44, 58, 724
Sau3AI GATC 3 cut(s) 63, 598, 616
Sau96I GGNCC 2 cut(s) 401, 788
ScrFI CCNGG 4 cut(s) 13, 258, 405, 531
SduI GDGCHC 1 cut(s) 561
SfaNI GCATC 2 cut(s) 171, 429
SfcI CTRYAG 3 cut(s) 41, 705, 721
SinI GGWCC 2 cut(s) 401, 788
SmiMI CAYNNNNRTG 1 cut(s) 566
Sse9I AATT 8 cut(s) 207, 231, 295, 364, 451, 712, 772, 796
SsiI CCGC 3 cut(s) 113, 166, 630
SspMI CTAG 1 cut(s) 387
StyD4I CCNGG 4 cut(s) 11, 256, 403, 529
TaaI ACNGT 2 cut(s) 266, 398
TaiI ACGT 2 cut(s) 86, 540
TaqI TCGA 1 cut(s) 765
TasI AATT 8 cut(s) 207, 231, 295, 364, 451, 712, 772, 796
TfiI GAWTC 4 cut(s) 282, 320, 501, 638
Tru1I TTAA 4 cut(s) 657, 666, 672, 711
Tru9I TTAA 4 cut(s) 657, 666, 672, 711
TscAI CASTG 4 cut(s) 226, 280, 330, 401
TseI GCWGC 3 cut(s) 43, 57, 723
TspDTI ATGAA 1 cut(s) 798
TspGWI ACGGA 4 cut(s) 294, 322, 636, 798
TspRI CASTG 4 cut(s) 226, 280, 330, 401
Tth111I GACNNNGTC 1 cut(s) 7
Van91I CCANNNNNTGG 1 cut(s) 316
VpaK11BI GGWCC 2 cut(s) 401, 788
XapI RAATTY 2 cut(s) 207, 796
XceI RCATGY 1 cut(s) 219
XcmI CCANNNNNNNNNTGG 1 cut(s) 94
XmnI GAANNNNTTC 1 cut(s) 430
XspI CTAG 1 cut(s) 387
ZraI GACGTC 1 cut(s) 84
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.