Rh6BG029300

Exopolygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6B
OG0000434
Physical Location & Seq
Reverse (-)
4404679 .. 4405578
900 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6BG029300.1

Sequence Viewer

Length: 900 bp
ATGCAACCATCACAGCACCCGGAGAGAGTGTTAAGTGTTAACACAGACGGTATCCACATTGCACGTTCAACGATGGTCACCGTCGCCAACACGAGCATCAGAACTGGAGATGATTGTATTTCCATCGGTGATGGGACTTCACAACTTAAATTTACCAACGTGACTTGCGGACCAGGCCATGGCATAAGCATTGGAAGCCTCGGAGGGCATCGCGATGAACAACCTGTAACTGGCGTCATAATCAAGAATGTAACATTCAATAATACGCAGAATGGTGCAAGAATCAAGACTTGGCCGGCCTCTTATGCCGGGCTTGTGTCAGATATACACTATGAGGATATTACCATGGTTAATGTCAGCAACCCGATCATTATAGACCAAGAGTACTGCCCATGGAATTTGTGCAACAAGCAGATTCCTTCAAAAGTTAAGATCAGTAATGTGAGCTTCAAGAACATTAAAGGCACGTCCACAACTCCGCTTGCGGTAAATTTTATTTGTAGCAGGAGCGTGCCATGCGAGAATGTGGATATTTCCGGCATTGATCTCACGTATACTGGACACAAAGGACTAATTAATTCACATTGCTCCAATGTCAAACTCCCTACGATTGTTAACGTGACAAAGGCTCTTGCTTGTGGTAACCATCCACCAATAATTACATCAAAGAACCACTCCAAGAGTCATACTTCAACAATTAGTCGATCAAAGAATTACCAGACCGAGACGAAAAACCAGATTGATTCTGTTGTAGGGAATGAGCCAACCAGAGGTCATCATCGTAAGTATGGTCTGATTGCGACGTCCTCGGCCCCAGAAAGAGATTATTACTTTTCAACAGTGTCGTCCTCCGCTCCAAAGAGTCGCAGTACTTATGGGTGGCTACAACCGATGCCATAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005576 GO:0005618 GO:0005623 GO:0030312 GO:0044464 GO:0071944
KEGG Pathways
Metabolic & Signaling
ko00040 ko01100 map00040 map01100
Pfam Domains
Protein Families
Glyco_hydro_28

Protein Analysis

299

Amino Acids

32.47

Weight (kDa)

9.07

Isoelectric Point (pI)

33.85

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 12 - 200 5.3e-67 Glycosyl hydrolases family 28
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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Orthologous Genes (Group: OG0000434)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G07820 AT3G07830 AT3G07840 AT5G48140
fragaria_vesca FvH4_1g26811 FvH4_2g02350 FvH4_6g41380 FvH4_6g41380 FvH4_6g41380 FvH4_6g41430 FvH4_6g41740 FvH4_6g43060 FvH4_7g02910
malus_domestica MD00G1117700.v1.1 MD00G1117800.v1.1 MD00G1117900.v1.1 MD09G1120000.v1.1 MD09G1120100.v1.1 MD09G1120200.v1.1 MD09G1120300.v1.1 MD12G1142000.v1.1 MD13G1218300.v1.1 MD13G1220100.v1.1 MD13G1220200.v1.1 MD16G1223300.v1.1 MD16G1223500.v1.1 MD16G1223600.v1.1 MD17G1110800.v1.1
prunus_persica Prupe.1G044900_v2.0.a1 Prupe.1G045000_v2.0.a1 Prupe.1G167700_v2.0.a1 Prupe.2G005600_v2.0.a1 Prupe.2G005700_v2.0.a1 Prupe.2G008600_v2.0.a1 Prupe.2G009200_v2.0.a1 Prupe.2G009300_v2.0.a1 Prupe.2G009400_v2.0.a1 Prupe.3G109100_v2.0.a1 Prupe.3G109200_v2.0.a1 Prupe.3G109400_v2.0.a1 Prupe.3G109500_v2.0.a1 Prupe.3G109700_v2.0.a1 Prupe.3G203300_v2.0.a1 Prupe.3G203600_v2.0.a1 Prupe.3G203900_v2.0.a1 Prupe.3G204000_v2.0.a1 Prupe.3G204100_v2.0.a1 Prupe.3G204200_v2.0.a1
pyrus_communis pycom09g04480 pycom09g04490 pycom09g04500 pycom12g13680
rosa_chinensis RchiOBHm_Chr1g0323871 RchiOBHm_Chr2g0156921 RchiOBHm_Chr2g0159061 RchiOBHm_Chr6g0246271 RchiOBHm_Chr6g0246281
rosa_laevigata RLG00000015266 RLG00000020954 RLG00000021134 RLG00000030246 RLG00000030250 RLG00000030295
rosa_multiflora Rmu_co8098394.1_g000001 Rmu_co8404671.1_g000001 Rmu_sc0000507.1_g000021 Rmu_sc0001066.1_g000011 Rmu_sc0001066.1_g000015 Rmu_sc0009451.1_g000001 Rmu_ssc0000408.1_g000005
rosa_roxburghii Rroxscaffold_2G00090810 Rroxscaffold_2G00092580 Rroxscaffold_4G00326280 Rroxscaffold_7G00214720
rosa_rugosa Rorug01G0040400 Rorug02G0457200 Rorug05G0520000
rosa_samantha Rh1AG057700 Rh1BG048800 Rh1CG059100 Rh1DG063000 Rh2AG522900 Rh2BG536200 Rh2BG553200 Rh2CG507800 Rh2DG545200 Rh6AG034100 Rh6BG029300 Rh6DG028700
rosa_wichuraiana Rw0G023110 Rw1G004930 Rw2G043170 Rw2G044730 Rw6G002760 Rw6G002920

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 806
AccB7I CCANNNNNTGG 1 cut(s) 179
AccBSI CCGCTC 1 cut(s) 854
AccI GTMKAC 1 cut(s) 554
AccII CGCG 1 cut(s) 213
AciI CCGC 4 cut(s) 168, 479, 485, 852
AcoI YGGCCR 1 cut(s) 293
AcsI RAATTY 3 cut(s) 149, 397, 490
AcyI GRCGYC 2 cut(s) 234, 803
AfaI GTAC 2 cut(s) 386, 871
AfiI CCNNNNNNNGG 3 cut(s) 179, 230, 770
AgsI TTSAA 6 cut(s) 69, 259, 423, 451, 693, 837
AjiI CACGTC 1 cut(s) 468
AjnI CCWGG 1 cut(s) 172
AjuI GAANNNNNNNTTGG 2 cut(s) 274, 306
AluBI AGCT 1 cut(s) 447
AluI AGCT 1 cut(s) 447
Alw26I GTCTC 1 cut(s) 719
AoxI GGCC 4 cut(s) 175, 293, 297, 810
ApoI RAATTY 3 cut(s) 149, 397, 490
AseI ATTAAT 1 cut(s) 576
AspS9I GGNCC 2 cut(s) 170, 811
AsuC2I CCSGG 2 cut(s) 20, 310
AsuHPI GGTGA 2 cut(s) 70, 140
AvaII GGWCC 1 cut(s) 170
BauI CACGAG 1 cut(s) 91
BccI CCATC 5 cut(s) 16, 67, 125, 131, 654
BciT130I CCWGG 1 cut(s) 174
BciVI GTATCC 1 cut(s) 62
BcnI CCSGG 2 cut(s) 20, 310
BcoDI GTCTC 1 cut(s) 719
BfuI GTATCC 1 cut(s) 62
BmcAI AGTACT 2 cut(s) 386, 871
Bme1390I CCNGG 3 cut(s) 20, 174, 310
Bme18I GGWCC 1 cut(s) 170
BmgBI CACGTC 1 cut(s) 468
BmgT120I GGNCC 2 cut(s) 170, 811
BmiI GGNNCC 1 cut(s) 813
BmrFI CCNGG 3 cut(s) 20, 174, 310
BmsI GCATC 3 cut(s) 105, 217, 882
BpmI CTGGAG 1 cut(s) 126
BpuMI CCSGG 2 cut(s) 20, 310
BsaAI YACGTR 1 cut(s) 552
BsaHI GRCGYC 2 cut(s) 234, 803
BsaJI CCNNGG 5 cut(s) 178, 199, 345, 392, 807
BsaXI ACNNNNNCTCC 2 cut(s) 14, 44
Bsc4I CCNNNNNNNGG 3 cut(s) 179, 230, 770
Bse118I RCCGGY 1 cut(s) 295
Bse1I ACTGG 3 cut(s) 109, 235, 562
Bse3DI GCAATG 2 cut(s) 57, 583
BseBI CCWGG 1 cut(s) 174
BseDI CCNNGG 5 cut(s) 178, 199, 345, 392, 807
BseGI GGATG 1 cut(s) 646
BseLI CCNNNNNNNGG 3 cut(s) 179, 230, 770
BseMI GCAATG 2 cut(s) 57, 583
BseNI ACTGG 3 cut(s) 109, 235, 562
Bsh1236I CGCG 1 cut(s) 213
BshFI GGCC 4 cut(s) 177, 295, 299, 812
BsiSI CCGG 4 cut(s) 20, 296, 309, 537
BslFI GGGAC 1 cut(s) 148
BslI CCNNNNNNNGG 3 cut(s) 179, 230, 770
BsmAI GTCTC 1 cut(s) 719
BsmBI CGTCTC 1 cut(s) 719
BsmFI GGGAC 1 cut(s) 148
BsnI GGCC 4 cut(s) 177, 295, 299, 812
Bsp143I GATC 4 cut(s) 366, 432, 544, 704
Bsp19I CCATGG 3 cut(s) 178, 345, 392
Bsp68I TCGCGA 1 cut(s) 213
BspACI CCGC 4 cut(s) 168, 479, 485, 852
BspANI GGCC 4 cut(s) 177, 295, 299, 812
BspFNI CGCG 1 cut(s) 213
BspLI GGNNCC 1 cut(s) 813
BsrBI CCGCTC 1 cut(s) 854
BsrDI GCAATG 2 cut(s) 57, 583
BsrFI RCCGGY 1 cut(s) 295
BsrI ACTGG 3 cut(s) 109, 235, 562
BssAI RCCGGY 1 cut(s) 295
BssECI CCNNGG 5 cut(s) 178, 199, 345, 392, 807
BssMI GATC 4 cut(s) 366, 432, 544, 704
BssNAI GTATAC 1 cut(s) 555
BssNI GRCGYC 2 cut(s) 234, 803
BssSI CACGAG 1 cut(s) 91
BssT1I CCWWGG 3 cut(s) 178, 345, 392
Bst1107I GTATAC 1 cut(s) 555
Bst2BI CACGAG 1 cut(s) 91
Bst2UI CCWGG 1 cut(s) 174
Bst4CI ACNGT 3 cut(s) 50, 82, 841
BstACI GRCGYC 2 cut(s) 234, 803
BstBAI YACGTR 1 cut(s) 552
BstC8I GCNNGC 3 cut(s) 297, 483, 512
BstDSI CCRYGG 3 cut(s) 178, 345, 392
BstEII GGTNACC 2 cut(s) 76, 641
BstF5I GGATG 1 cut(s) 646
BstFNI CGCG 1 cut(s) 213
BstKTI GATC 4 cut(s) 369, 435, 547, 707
BstMAI GTCTC 1 cut(s) 719
BstMBI GATC 4 cut(s) 366, 432, 544, 704
BstMWI GCNNNNNNNGC 4 cut(s) 174, 195, 305, 516
BstNI CCWGG 1 cut(s) 174
BstPI GGTNACC 2 cut(s) 76, 641
BstSCI CCNGG 3 cut(s) 18, 172, 308
BstUI CGCG 1 cut(s) 213
BstZ17I GTATAC 1 cut(s) 555
BsuI GTATCC 1 cut(s) 62
BsuRI GGCC 4 cut(s) 177, 295, 299, 812
BtgI CCRYGG 3 cut(s) 178, 345, 392
BtgZI GCGATG 2 cut(s) 194, 228
BtrI CACGTC 1 cut(s) 468
BtsCI GGATG 1 cut(s) 646
BtsIMutI CAGTG 1 cut(s) 846
BtuMI TCGCGA 1 cut(s) 213
Cac8I GCNNGC 3 cut(s) 297, 483, 512
Cfr10I RCCGGY 1 cut(s) 295
Cfr13I GGNCC 2 cut(s) 170, 811
CseI GACGC 1 cut(s) 223
Csp6I GTAC 2 cut(s) 385, 870
CviAII CATG 4 cut(s) 179, 346, 393, 516
CviQI GTAC 2 cut(s) 385, 870
DpnI GATC 4 cut(s) 368, 434, 546, 706
DpnII GATC 4 cut(s) 366, 432, 544, 704
EaeI YGGCCR 1 cut(s) 293
Eco130I CCWWGG 3 cut(s) 178, 345, 392
Eco47I GGWCC 1 cut(s) 170
Eco91I GGTNACC 2 cut(s) 76, 641
EcoO65I GGTNACC 2 cut(s) 76, 641
EcoRII CCWGG 1 cut(s) 172
EcoT14I CCWWGG 3 cut(s) 178, 345, 392
ErhI CCWWGG 3 cut(s) 178, 345, 392
Esp3I CGTCTC 1 cut(s) 719
FaeI CATG 4 cut(s) 182, 349, 396, 519
FaqI GGGAC 1 cut(s) 148
FatI CATG 4 cut(s) 178, 345, 392, 515
FblI GTMKAC 1 cut(s) 554
FokI GGATG 1 cut(s) 633
FseI GGCCGGCC 1 cut(s) 299
GsuI CTGGAG 1 cut(s) 126
HaeIII GGCC 4 cut(s) 177, 295, 299, 812
HapII CCGG 4 cut(s) 20, 296, 309, 537
HgaI GACGC 1 cut(s) 223
Hin1I GRCGYC 2 cut(s) 234, 803
Hin1II CATG 4 cut(s) 182, 349, 396, 519
HincII GTYRAC 2 cut(s) 40, 616
HindII GTYRAC 2 cut(s) 40, 616
HinfI GANTC 5 cut(s) 282, 415, 682, 743, 862
HpaI GTTAAC 2 cut(s) 40, 616
HpaII CCGG 4 cut(s) 20, 296, 309, 537
HphI GGTGA 2 cut(s) 70, 140
Hpy166II GTNNAC 4 cut(s) 40, 471, 555, 616
Hpy188I TCNGA 4 cut(s) 101, 203, 322, 795
Hpy188III TCNNGA 4 cut(s) 212, 244, 286, 451
Hpy8I GTNNAC 4 cut(s) 40, 471, 555, 616
Hpy99I CGWCG 2 cut(s) 86, 805
HpyAV CCTTC 1 cut(s) 429
HpyCH4III ACNGT 3 cut(s) 50, 82, 841
HpyCH4IV ACGT 6 cut(s) 64, 159, 467, 551, 618, 803
HpyCH4V TGCA 4 cut(s) 4, 62, 278, 405
HpyF10VI GCNNNNNNNGC 4 cut(s) 174, 195, 305, 516
HpySE526I ACGT 6 cut(s) 64, 159, 467, 551, 618, 803
Hsp92I GRCGYC 2 cut(s) 234, 803
Hsp92II CATG 4 cut(s) 182, 349, 396, 519
KroI GCCGGC 1 cut(s) 295
KroNI GCCGGC 1 cut(s) 297
KspAI GTTAAC 2 cut(s) 40, 616
Kzo9I GATC 4 cut(s) 366, 432, 544, 704
LmnI GCTCC 3 cut(s) 507, 593, 859
LweI GCATC 3 cut(s) 105, 217, 882
MaeII ACGT 6 cut(s) 64, 159, 467, 551, 618, 803
MaeIII GTNAC 6 cut(s) 76, 160, 226, 250, 619, 641
MalI GATC 4 cut(s) 368, 434, 546, 706
MbiI CCGCTC 1 cut(s) 854
MboI GATC 4 cut(s) 366, 432, 544, 704
MluCI AATT 8 cut(s) 149, 397, 490, 573, 577, 657, 696, 712
MlyI GAGTC 2 cut(s) 691, 871
MnlI CCTC 7 cut(s) 197, 209, 310, 328, 764, 817, 859
MroNI GCCGGC 1 cut(s) 295
MseI TTAA 8 cut(s) 32, 39, 147, 351, 429, 459, 576, 615
MslI CAYNNNNRTG 1 cut(s) 213
MspI CCGG 4 cut(s) 20, 296, 309, 537
MspR9I CCNGG 3 cut(s) 20, 174, 310
MvaI CCWGG 1 cut(s) 174
MvnI CGCG 1 cut(s) 213
MwoI GCNNNNNNNGC 4 cut(s) 174, 195, 305, 516
NaeI GCCGGC 1 cut(s) 297
NciI CCSGG 2 cut(s) 20, 310
NcoI CCATGG 3 cut(s) 178, 345, 392
NdeII GATC 4 cut(s) 366, 432, 544, 704
NgoMIV GCCGGC 1 cut(s) 295
NlaIII CATG 4 cut(s) 182, 349, 396, 519
NlaIV GGNNCC 1 cut(s) 813
NmeAIII GCCGAG 1 cut(s) 788
NmuCI GTSAC 3 cut(s) 76, 160, 619
NruI TCGCGA 1 cut(s) 213
PdiI GCCGGC 1 cut(s) 297
PfeI GAWTC 3 cut(s) 282, 415, 743
PflMI CCANNNNNTGG 1 cut(s) 179
PleI GAGTC 2 cut(s) 690, 870
PpsI GAGTC 2 cut(s) 690, 870
Ppu21I YACGTR 1 cut(s) 552
PshBI ATTAAT 1 cut(s) 576
Psp6I CCWGG 1 cut(s) 172
PspEI GGTNACC 2 cut(s) 76, 641
PspGI CCWGG 1 cut(s) 172
PspN4I GGNNCC 1 cut(s) 813
PspPI GGNCC 2 cut(s) 170, 811
RigI GGCCGGCC 1 cut(s) 299
RruI TCGCGA 1 cut(s) 213
RsaI GTAC 2 cut(s) 386, 871
RsaNI GTAC 2 cut(s) 385, 870
RseI CAYNNNNRTG 1 cut(s) 213
SaqAI TTAA 8 cut(s) 32, 39, 147, 351, 429, 459, 576, 615
Sau3AI GATC 4 cut(s) 366, 432, 544, 704
Sau96I GGNCC 2 cut(s) 170, 811
ScaI AGTACT 2 cut(s) 386, 871
SchI GAGTC 2 cut(s) 691, 871
ScrFI CCNGG 3 cut(s) 20, 174, 310
SetI ASST 9 cut(s) 67, 162, 226, 449, 470, 554, 621, 775, 806
SfaNI GCATC 3 cut(s) 105, 217, 882
SinI GGWCC 1 cut(s) 170
SmiMI CAYNNNNRTG 1 cut(s) 213
Sse9I AATT 8 cut(s) 149, 397, 490, 573, 577, 657, 696, 712
SsiI CCGC 4 cut(s) 168, 479, 485, 852
StyD4I CCNGG 3 cut(s) 18, 172, 308
StyI CCWWGG 3 cut(s) 178, 345, 392
TaaI ACNGT 3 cut(s) 50, 82, 841
TaiI ACGT 6 cut(s) 67, 162, 470, 554, 621, 806
TaqI TCGA 1 cut(s) 703
TaqII GACCGA 1 cut(s) 737
TasI AATT 8 cut(s) 149, 397, 490, 573, 577, 657, 696, 712
TatI WGTACW 2 cut(s) 384, 869
TfiI GAWTC 3 cut(s) 282, 415, 743
Tru1I TTAA 8 cut(s) 32, 39, 147, 351, 429, 459, 576, 615
Tru9I TTAA 8 cut(s) 32, 39, 147, 351, 429, 459, 576, 615
TscAI CASTG 1 cut(s) 846
TseFI GTSAC 3 cut(s) 76, 160, 619
Tsp45I GTSAC 3 cut(s) 76, 160, 619
TspDTI ATGAA 1 cut(s) 231
TspRI CASTG 1 cut(s) 846
Van91I CCANNNNNTGG 1 cut(s) 179
VpaK11BI GGWCC 1 cut(s) 170
VspI ATTAAT 1 cut(s) 576
XapI RAATTY 3 cut(s) 149, 397, 490
XmiI GTMKAC 1 cut(s) 554
ZraI GACGTC 1 cut(s) 804
ZrmI AGTACT 2 cut(s) 386, 871
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.