Rw2G002420

Hydrophobic seed protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr2
OG0014898
Physical Location & Seq
Forward (+)
1991167 .. 1992817
1651 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw2G002420.1

Sequence Viewer

Length: 876 bp
ATGGAGTCCAGTAAACTCAATGCTCTCTTCTTCATCTTCATGCTCGTCATTTCCTCGGCCGCTCCGATTCTCGGGTGCCCTACTTGCGGCAAAAAGCCTCCTCCCAAGCACACTAAGCCTAAGACCCCCAAGGGCCCTATTACAGTCCCTCCCATTGTGAAACCCCCAGTCACAGTCCCACCTATCAAACCACCAGTGACAATACCACCCATCGTCAAACCACCAATCACCATCCCCCCCGTCATCCCTCCCATTGTCAAACCACCAATCACCATCCCCCCCGTCATCCCTCCCATTGTCAAACCACCAATCACAATCCCACCAGTAATCCCTCCCATCGTAAAACCACCAATTAAAATCCCACCCGTCATCCCTCCCATTGTCAAACCACCAATCACAATCCCACCAGTCATCCCTCCCGTCATAAAACCACCAATCAAAATCCCACCAGTGATTCCACCAATAGTGAAACCGCCAATCACATTACCACCAGTGGTAATCCCTCCAGTGATTCCCCCCATTGTCAAACCACCAGTGGAGATTCCCCCAATCACCACCAAGCCCCCGAGCCCCGGGACACCGTGCCCCCCACCACCTGGGACACCAGCTCCCAAGGACACTTGCCCCATCGACACACTGAAGCTCGGAGCTTGCGTGGATCTCCTCGGTGGGTTGGTTCACGTTGGGGAAGGTGACCCCGTGGTGAACGAGTGCTGCCCGGTGCTCTCAGGACTTGTTGAACTTGAAGCTGCAGTGTGCTTGTGCACCACCCTTAAACTCAAGCTTCTCAACCTCAACATCTTCGTCCCTATTGCTCTTGAGCTCCTTGTCACTTGTGGCAAGAGCCCTCCTCCTGGTTTCACCTGCTCTATCTAG
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
Hydrophob_seed

Protein Analysis

291

Amino Acids

30.25

Weight (kDa)

9.41

Isoelectric Point (pI)

47.35

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LTP_2 PF14368 205 - 289 6.4e-06 Probable lipid transfer
Hydrophob_seed PF14547 207 - 290 1.7e-26 Hydrophobic seed protein
Tryp_alpha_amyl PF00234 208 - 289 9.4e-12 Protease inhibitor/seed storage/LTP family
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: OG0014898)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G10940 AT2G10940
fragaria_vesca FvH4_1g02570
malus_domestica MD02G1023200.v1.1 MD15G1166100.v1.1
prunus_persica Prupe.7G248900_v2.0.a1 Prupe.7G248900_v2.0.a1
rosa_chinensis RchiOBHm_Chr2g0087601
rosa_laevigata RLG00000015883
rosa_multiflora Rmu_sc0002299.1_g000028
rosa_rugosa Rorug01G0476900
rosa_samantha Rh2AG030500 Rh2BG030300 Rh2CG030700 Rh2DG030500
rosa_wichuraiana Rw2G002420

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 872
Acc36I ACCTGC 1 cut(s) 872
AccB1I GGYRCC 1 cut(s) 75
AccB7I CCANNNNNTGG 1 cut(s) 596
AccBSI CCGCTC 1 cut(s) 62
AciI CCGC 3 cut(s) 60, 87, 473
AclWI GGATC 1 cut(s) 666
AcoI YGGCCR 1 cut(s) 57
AcuI CTGAAG 1 cut(s) 659
AfiI CCNNNNNNNGG 5 cut(s) 71, 86, 572, 596, 854
AgsI TTSAA 2 cut(s) 740, 746
AjnI CCWGG 2 cut(s) 595, 853
AluBI AGCT 6 cut(s) 608, 643, 650, 749, 784, 823
AluI AGCT 6 cut(s) 608, 643, 650, 749, 784, 823
Alw21I GWGCWC 3 cut(s) 726, 767, 825
Alw44I GTGCAC 1 cut(s) 763
AlwI GGATC 1 cut(s) 666
Ama87I CYCGRG 3 cut(s) 71, 565, 572
AoxI GGCC 2 cut(s) 57, 133
ApaI GGGCCC 1 cut(s) 137
ApaLI GTGCAC 1 cut(s) 763
ApeKI GCWGC 2 cut(s) 714, 749
AspS9I GGNCC 2 cut(s) 133, 134
AsuC2I CCSGG 3 cut(s) 573, 574, 719
AsuHPI GGTGA 6 cut(s) 220, 262, 544, 704, 715, 853
AvaI CYCGRG 3 cut(s) 71, 565, 572
BaeGI GKGCMC 4 cut(s) 80, 137, 587, 767
BanI GGYRCC 1 cut(s) 75
BanII GRGCYC 4 cut(s) 137, 572, 825, 848
Bbv12I GWGCWC 3 cut(s) 726, 767, 825
BbvI GCAGC 2 cut(s) 701, 736
BccI CCATC 5 cut(s) 218, 239, 281, 344, 635
BciT130I CCWGG 2 cut(s) 597, 855
BcnI CCSGG 3 cut(s) 573, 574, 719
BfaI CTAG 1 cut(s) 874
BfmI CTRYAG 1 cut(s) 750
BfuAI ACCTGC 1 cut(s) 872
BisI GCNGC 4 cut(s) 60, 88, 715, 750
BlsI GCNGC 4 cut(s) 61, 89, 716, 751
Bme1390I CCNGG 5 cut(s) 573, 574, 597, 719, 855
BmeT110I CYCGRG 3 cut(s) 71, 565, 572
BmgT120I GGNCC 2 cut(s) 133, 134
BmiI GGNNCC 2 cut(s) 77, 135
BmrFI CCNGG 5 cut(s) 573, 574, 597, 719, 855
BmrI ACTGGG 1 cut(s) 161
BmuI ACTGGG 1 cut(s) 161
BplI GAGNNNNNCTC 2 cut(s) 835, 867
BpmI CTGGAG 1 cut(s) 489
BpuEI CTTGAG 2 cut(s) 764, 839
BpuMI CCSGG 3 cut(s) 573, 574, 719
BsaJI CCNNGG 8 cut(s) 54, 129, 571, 572, 596, 612, 664, 699
BsaXI ACNNNNNCTCC 6 cut(s) 133, 163, 592, 622, 639, 669
Bsc4I CCNNNNNNNGG 5 cut(s) 71, 86, 572, 596, 854
Bse1I ACTGG 9 cut(s) 9, 167, 194, 323, 407, 449, 491, 506, 533
BseBI CCWGG 2 cut(s) 597, 855
BseDI CCNNGG 8 cut(s) 54, 129, 571, 572, 596, 612, 664, 699
BseGI GGATG 6 cut(s) 231, 243, 273, 285, 369, 411
BseLI CCNNNNNNNGG 5 cut(s) 71, 86, 572, 596, 854
BseMII CTCAG 1 cut(s) 741
BseNI ACTGG 9 cut(s) 9, 167, 194, 323, 407, 449, 491, 506, 533
BseRI GAGGAG 3 cut(s) 90, 653, 840
BseSI GKGCMC 4 cut(s) 80, 137, 587, 767
BseX3I CGGCCG 1 cut(s) 57
BseXI GCAGC 2 cut(s) 701, 736
Bsh1285I CGRYCG 1 cut(s) 60
BshFI GGCC 2 cut(s) 59, 135
BshNI GGYRCC 1 cut(s) 75
BsiEI CGRYCG 1 cut(s) 60
BsiHKAI GWGCWC 3 cut(s) 726, 767, 825
BsiHKCI CYCGRG 3 cut(s) 71, 565, 572
BsiSI CCGG 2 cut(s) 573, 719
BslFI GGGAC 5 cut(s) 131, 161, 589, 613, 791
BslI CCNNNNNNNGG 5 cut(s) 71, 86, 572, 596, 854
BsmFI GGGAC 5 cut(s) 131, 161, 589, 613, 791
BsnI GGCC 2 cut(s) 59, 135
BsoBI CYCGRG 3 cut(s) 71, 565, 572
Bsp120I GGGCCC 1 cut(s) 133
Bsp1286I GDGCHC 8 cut(s) 80, 137, 572, 587, 726, 767, 825, 848
Bsp143I GATC 1 cut(s) 658
BspACI CCGC 3 cut(s) 60, 87, 473
BspANI GGCC 2 cut(s) 59, 135
BspCNI CTCAG 1 cut(s) 740
BspLI GGNNCC 2 cut(s) 77, 135
BspMAI CTGCAG 1 cut(s) 754
BspMI ACCTGC 1 cut(s) 872
BspPI GGATC 1 cut(s) 666
BspT107I GGYRCC 1 cut(s) 75
BsrBI CCGCTC 1 cut(s) 62
BsrI ACTGG 9 cut(s) 9, 167, 194, 323, 407, 449, 491, 506, 533
BssECI CCNNGG 8 cut(s) 54, 129, 571, 572, 596, 612, 664, 699
BssMI GATC 1 cut(s) 658
BssT1I CCWWGG 2 cut(s) 129, 612
Bst2UI CCWGG 2 cut(s) 597, 855
Bst4CI ACNGT 3 cut(s) 145, 175, 582
Bst6I CTCTTC 1 cut(s) 32
BstC8I GCNNGC 1 cut(s) 652
BstDEI CTNAG 3 cut(s) 114, 120, 727
BstDSI CCRYGG 1 cut(s) 699
BstEII GGTNACC 1 cut(s) 692
BstF5I GGATG 6 cut(s) 231, 243, 273, 285, 369, 411
BstKTI GATC 1 cut(s) 661
BstMBI GATC 1 cut(s) 658
BstMCI CGRYCG 1 cut(s) 60
BstMWI GCNNNNNNNGC 2 cut(s) 84, 115
BstNI CCWGG 2 cut(s) 597, 855
BstPI GGTNACC 1 cut(s) 692
BstSCI CCNGG 5 cut(s) 571, 572, 595, 717, 853
BstSFI CTRYAG 1 cut(s) 750
BstSLI GKGCMC 4 cut(s) 80, 137, 587, 767
BstV1I GCAGC 2 cut(s) 701, 736
BstX2I RGATCY 1 cut(s) 658
BstYI RGATCY 1 cut(s) 658
BstZI CGGCCG 1 cut(s) 57
BsuRI GGCC 2 cut(s) 59, 135
BtgI CCRYGG 1 cut(s) 699
BtsCI GGATG 6 cut(s) 231, 243, 273, 285, 369, 411
BtsI GCAGTG 1 cut(s) 759
BtsIMutI CAGTG 7 cut(s) 201, 456, 498, 513, 540, 635, 759
BveI ACCTGC 1 cut(s) 872
Cac8I GCNNGC 1 cut(s) 652
Cfr13I GGNCC 2 cut(s) 133, 134
Cfr9I CCCGGG 1 cut(s) 572
CviAII CATG 1 cut(s) 40
DdeI CTNAG 3 cut(s) 114, 120, 727
DpnI GATC 1 cut(s) 660
DpnII GATC 1 cut(s) 658
EaeI YGGCCR 1 cut(s) 57
EagI CGGCCG 1 cut(s) 57
Eam1104I CTCTTC 1 cut(s) 32
EarI CTCTTC 1 cut(s) 32
Ecl136II GAGCTC 1 cut(s) 823
EclXI CGGCCG 1 cut(s) 57
Eco130I CCWWGG 2 cut(s) 129, 612
Eco24I GRGCYC 4 cut(s) 137, 572, 825, 848
Eco52I CGGCCG 1 cut(s) 57
Eco53kI GAGCTC 1 cut(s) 823
Eco57I CTGAAG 1 cut(s) 659
Eco88I CYCGRG 3 cut(s) 71, 565, 572
Eco91I GGTNACC 1 cut(s) 692
EcoICRI GAGCTC 1 cut(s) 823
EcoO109I RGGNCCY 2 cut(s) 133, 134
EcoO65I GGTNACC 1 cut(s) 692
EcoRII CCWGG 2 cut(s) 595, 853
EcoT14I CCWWGG 2 cut(s) 129, 612
EcoT38I GRGCYC 4 cut(s) 137, 572, 825, 848
ErhI CCWWGG 2 cut(s) 129, 612
FaeI CATG 1 cut(s) 43
FaiI YATR 2 cut(s) 41, 425
FaqI GGGAC 5 cut(s) 131, 161, 589, 613, 791
FatI CATG 1 cut(s) 39
Fnu4HI GCNGC 4 cut(s) 60, 88, 715, 750
FokI GGATG 6 cut(s) 218, 230, 260, 272, 356, 398
FriOI GRGCYC 4 cut(s) 137, 572, 825, 848
Fsp4HI GCNGC 4 cut(s) 60, 88, 715, 750
FspBI CTAG 1 cut(s) 874
GluI GCNGC 4 cut(s) 60, 88, 715, 750
GsuI CTGGAG 1 cut(s) 489
HaeIII GGCC 2 cut(s) 59, 135
HapII CCGG 2 cut(s) 573, 719
Hin1II CATG 1 cut(s) 43
HindIII AAGCTT 1 cut(s) 782
HinfI GANTC 5 cut(s) 5, 67, 454, 511, 541
HpaII CCGG 2 cut(s) 573, 719
HphI GGTGA 6 cut(s) 220, 262, 544, 704, 715, 853
Hpy166II GTNNAC 4 cut(s) 14, 679, 706, 765
Hpy188I TCNGA 2 cut(s) 66, 647
Hpy188III TCNNGA 2 cut(s) 729, 818
Hpy8I GTNNAC 4 cut(s) 14, 679, 706, 765
HpyAV CCTTC 1 cut(s) 683
HpyCH4III ACNGT 3 cut(s) 145, 175, 582
HpyCH4IV ACGT 1 cut(s) 681
HpyCH4V TGCA 2 cut(s) 752, 765
HpyF10VI GCNNNNNNNGC 2 cut(s) 84, 115
HpyF3I CTNAG 3 cut(s) 114, 120, 727
HpySE526I ACGT 1 cut(s) 681
Hsp92II CATG 1 cut(s) 43
Kzo9I GATC 1 cut(s) 658
LmnI GCTCC 4 cut(s) 67, 613, 647, 828
Lsp1109I GCAGC 2 cut(s) 701, 736
MaeI CTAG 1 cut(s) 874
MaeII ACGT 1 cut(s) 681
MaeIII GTNAC 4 cut(s) 169, 196, 692, 829
MalI GATC 1 cut(s) 660
MbiI CCGCTC 1 cut(s) 62
MboI GATC 1 cut(s) 658
MboII GAAGA 4 cut(s) 19, 22, 28, 793
MflI RGATCY 1 cut(s) 658
MhlI GDGCHC 8 cut(s) 80, 137, 572, 587, 726, 767, 825, 848
MluCI AATT 1 cut(s) 351
MlyI GAGTC 1 cut(s) 14
MseI TTAA 2 cut(s) 354, 774
MslI CAYNNNNRTG 1 cut(s) 38
MspI CCGG 2 cut(s) 573, 719
MspR9I CCNGG 5 cut(s) 573, 574, 597, 719, 855
MvaI CCWGG 2 cut(s) 597, 855
MwoI GCNNNNNNNGC 2 cut(s) 84, 115
NciI CCSGG 3 cut(s) 573, 574, 719
NdeII GATC 1 cut(s) 658
NlaIII CATG 1 cut(s) 43
NlaIV GGNNCC 2 cut(s) 77, 135
NmeAIII GCCGAG 1 cut(s) 35
NmuCI GTSAC 4 cut(s) 169, 196, 692, 829
PaqCI CACCTGC 1 cut(s) 872
PcsI WCGNNNNNNNCGW 2 cut(s) 62, 651
PfeI GAWTC 4 cut(s) 67, 454, 511, 541
PflMI CCANNNNNTGG 1 cut(s) 596
PkrI GCNGC 4 cut(s) 61, 89, 716, 751
PleI GAGTC 1 cut(s) 13
PpsI GAGTC 1 cut(s) 13
Psp124BI GAGCTC 1 cut(s) 825
Psp6I CCWGG 2 cut(s) 595, 853
PspEI GGTNACC 1 cut(s) 692
PspGI CCWGG 2 cut(s) 595, 853
PspN4I GGNNCC 2 cut(s) 77, 135
PspOMI GGGCCC 1 cut(s) 133
PspPI GGNCC 2 cut(s) 133, 134
PstI CTGCAG 1 cut(s) 754
PsuI RGATCY 1 cut(s) 658
RseI CAYNNNNRTG 1 cut(s) 38
SacI GAGCTC 1 cut(s) 825
SaqAI TTAA 2 cut(s) 354, 774
SatI GCNGC 4 cut(s) 60, 88, 715, 750
Sau3AI GATC 1 cut(s) 658
Sau96I GGNCC 2 cut(s) 133, 134
SchI GAGTC 1 cut(s) 14
ScrFI CCNGG 5 cut(s) 573, 574, 597, 719, 855
SduI GDGCHC 8 cut(s) 80, 137, 572, 587, 726, 767, 825, 848
SfcI CTRYAG 1 cut(s) 750
SmaI CCCGGG 1 cut(s) 574
SmiMI CAYNNNNRTG 1 cut(s) 38
SmlI CTYRAG 2 cut(s) 779, 818
SmoI CTYRAG 2 cut(s) 779, 818
Sse9I AATT 1 cut(s) 351
SsiI CCGC 3 cut(s) 60, 87, 473
SspMI CTAG 1 cut(s) 874
SstI GAGCTC 1 cut(s) 825
StyD4I CCNGG 5 cut(s) 571, 572, 595, 717, 853
StyI CCWWGG 2 cut(s) 129, 612
TaaI ACNGT 3 cut(s) 145, 175, 582
TaiI ACGT 1 cut(s) 684
TaqI TCGA 1 cut(s) 630
TasI AATT 1 cut(s) 351
TauI GCSGC 2 cut(s) 62, 90
TfiI GAWTC 4 cut(s) 67, 454, 511, 541
Tru1I TTAA 2 cut(s) 354, 774
Tru9I TTAA 2 cut(s) 354, 774
TscAI CASTG 7 cut(s) 201, 456, 498, 513, 540, 642, 759
TseFI GTSAC 4 cut(s) 169, 196, 692, 829
TseI GCWGC 2 cut(s) 714, 749
Tsp45I GTSAC 4 cut(s) 169, 196, 692, 829
TspDTI ATGAA 2 cut(s) 22, 28
TspMI CCCGGG 1 cut(s) 572
TspRI CASTG 7 cut(s) 201, 456, 498, 513, 540, 642, 759
Van91I CCANNNNNTGG 1 cut(s) 596
VneI GTGCAC 1 cut(s) 763
XmaI CCCGGG 1 cut(s) 572
XspI CTAG 1 cut(s) 874
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.