Rroxscaffold_6G00426240

trigalactosyldiacylglycerol 3

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0014402
Physical Location & Seq
Forward (+)
47048377 .. 47055979
7603 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00426240.1

Sequence Viewer

Length: 1032 bp
ATGGTTTCTCTGTCAAATTCAGTGTTGTTTCCTGTGACTACATCCAATGGCATTTCTCGGCCGGCTAGGTTTCCAAAGACGATCAATTTGTGTAGTTATAAGCAGAAGAGAGAGCCCAGAAACATTGTTTGTGCTTGTATGGCGCCTCCCCAGAACTATGAATCCTTTGCAGCAAAATTCGAGGATTCATTGAAATCAGAGGATTTATCCACAGTAAGAGAACCCGAGGATGACTCTGATGTTCTGATTGAGTGCAGAGACGTCCATAAGTCATTTGGTGAGAAGGATATATTGAGAGGTGTGAGCTTCAAGATTAGACATGGCGAAGCAGTTGGAATAATTGGTCCTTCTGGCACTGGGAAATCTACAGTTTTAAAGATTATGGCAGGTCTTCTTGCGCCTGACAAGGGAGAGGTATACATTCGAGGTCGAAAGAGGGATGGTTTGATCAGCGATGAGGAGTTATCTGGTCTTCGAATTGGATTGGTGTTTCAGAGTGCTGCACTTTTTGATTCGTTGACTGTTCGTGAAAATGTTGGTTTCCTTCTGTATGAAAATTCAAGCATGCCCGAGGAACAAATTTCAAGGCTCGTGACTGATAGCTTGGCTGCTGTTGGGTTAAAGGGAGTTGAGGATCGATTACCATCGGAGCTGTCTGGTGGAATGAAGAAAAGAGTTGCATTGGCTCGATCTATAATTTGTGATACCACAAAGGAAGCCATAGAGCCAGAGGTGCTCTTATATGATGAACCAACAGCTGGACTTGATCCGATTGCATCTACTGTTGTAGAAGACCTCATCCGCTCTGTCCATACAGAAGGGCAGGCAGTGTCAGAGAAGTCTGGGCAGATTGCATCTTACGTTGTTGTAACTCACCAACATAGCACCATCAGACGAGCTGTTGACAGGTTATTGTTTCTGTATGAGGGCAAGATAGTCTGGCAAGGAATGACTGATGAATTCACGACCTCAACAAATCCAATCGTTCAACAGTTTGCATCTGGGAGCTTGGATGGCCCAATTAAATACTAG

Protein Analysis

343

Amino Acids

37.56

Weight (kDa)

5.46

Isoelectric Point (pI)

44.52

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
ABC_tran PF00005 98 - 253 7.8e-31 ABC transporter
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: OG0014402)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G65410
fragaria_vesca FvH4_6g00670 FvH4_6g00670
malus_domestica MD04G1243700.v1.1 MD12G1259300.v1.1
prunus_persica Prupe.6G359900_v2.0.a1
pyrus_communis pycom04g21440 pycom12g23770
rosa_chinensis RchiOBHm_Chr3g0448111
rosa_laevigata RLG00000025946
rosa_multiflora Rmu_sc0005969.1_g000027
rosa_roxburghii Rroxscaffold_6G00426240
rosa_rugosa Rorug02G0608200
rosa_samantha Rh3AG007700 Rh3CG007400 Rh3DG007900
rosa_wichuraiana Rw3G000620

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 99
AatII GACGTC 1 cut(s) 264
Acc36I ACCTGC 1 cut(s) 377
AccB1I GGYRCC 1 cut(s) 142
AccB7I CCANNNNNTGG 1 cut(s) 758
AccBSI CCGCTC 1 cut(s) 804
AccI GTMKAC 1 cut(s) 417
AciI CCGC 1 cut(s) 802
AclWI GGATC 2 cut(s) 642, 761
AcoI YGGCCR 1 cut(s) 59
AcsI RAATTY 5 cut(s) 16, 176, 556, 579, 959
AcyI GRCGYC 2 cut(s) 143, 261
AfiI CCNNNNNNNGG 2 cut(s) 407, 758
AgsI TTSAA 5 cut(s) 193, 310, 561, 585, 989
AloI GAACNNNNNNTCC 2 cut(s) 146, 178
AluBI AGCT 6 cut(s) 306, 603, 652, 758, 899, 1008
AluI AGCT 6 cut(s) 306, 603, 652, 758, 899, 1008
Alw21I GWGCWC 1 cut(s) 738
Alw26I GTCTC 1 cut(s) 252
AlwI GGATC 2 cut(s) 642, 761
Ama87I CYCGRG 2 cut(s) 224, 569
AoxI GGCC 2 cut(s) 59, 1015
ApeKI GCWGC 3 cut(s) 170, 500, 608
ApoI RAATTY 5 cut(s) 16, 176, 556, 579, 959
ArsI GACNNNNNNTTYG 2 cut(s) 70, 102
AspLEI GCGC 2 cut(s) 145, 400
AspS9I GGNCC 2 cut(s) 344, 1016
AsuHPI GGTGA 2 cut(s) 290, 866
AsuII TTCGAA 1 cut(s) 475
AvaI CYCGRG 2 cut(s) 224, 569
AvaII GGWCC 1 cut(s) 344
BanI GGYRCC 1 cut(s) 142
BanII GRGCYC 1 cut(s) 117
BauI CACGAG 1 cut(s) 590
BbsI GAAGAC 3 cut(s) 383, 464, 798
Bbv12I GWGCWC 1 cut(s) 738
BbvI GCAGC 3 cut(s) 182, 487, 595
BccI CCATC 4 cut(s) 434, 652, 896, 1007
BclI TGATCA 1 cut(s) 447
BcoDI GTCTC 1 cut(s) 252
BfaI CTAG 2 cut(s) 66, 1030
BfmI CTRYAG 1 cut(s) 366
BfoI RGCGCY 1 cut(s) 146
BfuAI ACCTGC 1 cut(s) 377
BisI GCNGC 3 cut(s) 171, 501, 609
BlsI GCNGC 3 cut(s) 172, 502, 610
Bme18I GGWCC 1 cut(s) 344
BmeT110I CYCGRG 2 cut(s) 224, 569
BmgT120I GGNCC 2 cut(s) 344, 1016
BmiI GGNNCC 1 cut(s) 144
BmrI ACTGGG 1 cut(s) 366
BmsI GCATC 3 cut(s) 785, 863, 1007
BmuI ACTGGG 1 cut(s) 366
BpiI GAAGAC 3 cut(s) 383, 464, 798
BplI GAGNNNNNCTC 2 cut(s) 218, 250
Bpu14I TTCGAA 1 cut(s) 475
Bsa29I ATCGAT 1 cut(s) 637
BsaBI GATNNNNATC 1 cut(s) 643
BsaHI GRCGYC 2 cut(s) 143, 261
BsaJI CCNNGG 2 cut(s) 225, 570
Bsc4I CCNNNNNNNGG 2 cut(s) 407, 758
Bse118I RCCGGY 1 cut(s) 61
Bse1I ACTGG 1 cut(s) 361
Bse8I GATNNNNATC 1 cut(s) 643
BseCI ATCGAT 1 cut(s) 637
BseDI CCNNGG 2 cut(s) 225, 570
BseGI GGATG 5 cut(s) 41, 235, 445, 798, 1018
BseJI GATNNNNATC 1 cut(s) 643
BseLI CCNNNNNNNGG 2 cut(s) 407, 758
BseNI ACTGG 1 cut(s) 361
BseRI GAGGAG 1 cut(s) 473
BseX3I CGGCCG 1 cut(s) 59
BseXI GCAGC 3 cut(s) 182, 487, 595
BsgI GTGCAG 2 cut(s) 274, 486
Bsh1285I CGRYCG 1 cut(s) 62
BshFI GGCC 2 cut(s) 61, 1017
BshNI GGYRCC 1 cut(s) 142
BshVI ATCGAT 1 cut(s) 637
BsiEI CGRYCG 1 cut(s) 62
BsiHKAI GWGCWC 1 cut(s) 738
BsiHKCI CYCGRG 2 cut(s) 224, 569
BsiSI CCGG 1 cut(s) 62
BslI CCNNNNNNNGG 2 cut(s) 407, 758
BsmAI GTCTC 1 cut(s) 252
BsmBI CGTCTC 1 cut(s) 252
BsnI GGCC 2 cut(s) 61, 1017
BsoBI CYCGRG 2 cut(s) 224, 569
Bsp119I TTCGAA 1 cut(s) 475
Bsp1286I GDGCHC 2 cut(s) 117, 738
Bsp143I GATC 5 cut(s) 81, 447, 634, 689, 766
BspACI CCGC 1 cut(s) 802
BspANI GGCC 2 cut(s) 61, 1017
BspDI ATCGAT 1 cut(s) 637
BspLI GGNNCC 1 cut(s) 144
BspMI ACCTGC 1 cut(s) 377
BspPI GGATC 2 cut(s) 642, 761
BspT104I TTCGAA 1 cut(s) 475
BspT107I GGYRCC 1 cut(s) 142
BsrBI CCGCTC 1 cut(s) 804
BsrFI RCCGGY 1 cut(s) 61
BsrI ACTGG 1 cut(s) 361
BssAI RCCGGY 1 cut(s) 61
BssECI CCNNGG 2 cut(s) 225, 570
BssMI GATC 5 cut(s) 81, 447, 634, 689, 766
BssNAI GTATAC 1 cut(s) 418
BssNI GRCGYC 2 cut(s) 143, 261
BssSI CACGAG 1 cut(s) 590
Bst1107I GTATAC 1 cut(s) 418
Bst2BI CACGAG 1 cut(s) 590
Bst4CI ACNGT 5 cut(s) 214, 370, 523, 784, 993
Bst6I CTCTTC 1 cut(s) 101
BstACI GRCGYC 2 cut(s) 143, 261
BstBI TTCGAA 1 cut(s) 475
BstC8I GCNNGC 3 cut(s) 63, 566, 825
BstF5I GGATG 5 cut(s) 41, 235, 445, 798, 1018
BstH2I RGCGCY 1 cut(s) 146
BstHHI GCGC 2 cut(s) 145, 400
BstKTI GATC 5 cut(s) 84, 450, 637, 692, 769
BstMAI GTCTC 1 cut(s) 252
BstMBI GATC 5 cut(s) 81, 447, 634, 689, 766
BstMCI CGRYCG 1 cut(s) 62
BstMWI GCNNNNNNNGC 3 cut(s) 140, 733, 1014
BstNSI RCATGY 1 cut(s) 568
BstSFI CTRYAG 1 cut(s) 366
BstV1I GCAGC 3 cut(s) 182, 487, 595
BstV2I GAAGAC 3 cut(s) 383, 464, 798
BstZ17I GTATAC 1 cut(s) 418
BstZI CGGCCG 1 cut(s) 59
Bsu15I ATCGAT 1 cut(s) 637
BsuRI GGCC 2 cut(s) 61, 1017
BsuTUI ATCGAT 1 cut(s) 637
BtgZI GCGATG 1 cut(s) 468
BtsCI GGATG 5 cut(s) 41, 235, 445, 798, 1018
BtsI GCAGTG 1 cut(s) 834
BtsIMutI CAGTG 3 cut(s) 27, 354, 834
BveI ACCTGC 1 cut(s) 377
Cac8I GCNNGC 3 cut(s) 63, 566, 825
CfoI GCGC 2 cut(s) 145, 400
Cfr10I RCCGGY 1 cut(s) 61
Cfr13I GGNCC 2 cut(s) 344, 1016
ClaI ATCGAT 1 cut(s) 637
CviAII CATG 2 cut(s) 320, 565
DinI GGCGCC 1 cut(s) 144
DpnI GATC 5 cut(s) 83, 449, 636, 691, 768
DpnII GATC 5 cut(s) 81, 447, 634, 689, 766
DraI TTTAAA 1 cut(s) 375
EaeI YGGCCR 1 cut(s) 59
EagI CGGCCG 1 cut(s) 59
Eam1104I CTCTTC 1 cut(s) 101
EarI CTCTTC 1 cut(s) 101
EclXI CGGCCG 1 cut(s) 59
Eco24I GRGCYC 1 cut(s) 117
Eco47I GGWCC 1 cut(s) 344
Eco52I CGGCCG 1 cut(s) 59
Eco88I CYCGRG 2 cut(s) 224, 569
EcoRI GAATTC 1 cut(s) 959
EcoT38I GRGCYC 1 cut(s) 117
EgeI GGCGCC 1 cut(s) 144
EheI GGCGCC 1 cut(s) 144
Esp3I CGTCTC 1 cut(s) 252
FaeI CATG 2 cut(s) 323, 568
FatI CATG 2 cut(s) 319, 564
FbaI TGATCA 1 cut(s) 447
FblI GTMKAC 1 cut(s) 417
Fnu4HI GCNGC 3 cut(s) 171, 501, 609
FokI GGATG 5 cut(s) 28, 242, 452, 785, 1025
FriOI GRGCYC 1 cut(s) 117
Fsp4HI GCNGC 3 cut(s) 171, 501, 609
FspBI CTAG 2 cut(s) 66, 1030
GlaI GCGC 2 cut(s) 144, 399
GluI GCNGC 3 cut(s) 171, 501, 609
HaeII RGCGCY 1 cut(s) 146
HaeIII GGCC 2 cut(s) 61, 1017
HapII CCGG 1 cut(s) 62
HhaI GCGC 2 cut(s) 145, 400
Hin1I GRCGYC 2 cut(s) 143, 261
Hin1II CATG 2 cut(s) 323, 568
Hin6I GCGC 2 cut(s) 143, 398
HinP1I GCGC 2 cut(s) 143, 398
HincII GTYRAC 2 cut(s) 519, 904
HindII GTYRAC 2 cut(s) 519, 904
HinfI GANTC 4 cut(s) 161, 185, 233, 512
HpaII CCGG 1 cut(s) 62
HphI GGTGA 2 cut(s) 290, 866
Hpy166II GTNNAC 3 cut(s) 418, 519, 904
Hpy188I TCNGA 8 cut(s) 199, 238, 246, 495, 649, 771, 835, 893
Hpy188III TCNNGA 4 cut(s) 310, 527, 592, 964
Hpy8I GTNNAC 3 cut(s) 418, 519, 904
HpyAV CCTTC 4 cut(s) 277, 357, 554, 812
HpyCH4III ACNGT 5 cut(s) 214, 370, 523, 784, 993
HpyCH4IV ACGT 2 cut(s) 261, 861
HpyCH4V TGCA 7 cut(s) 170, 255, 503, 680, 776, 854, 998
HpyF10VI GCNNNNNNNGC 3 cut(s) 140, 733, 1014
HpySE526I ACGT 2 cut(s) 261, 861
Hsp92I GRCGYC 2 cut(s) 143, 261
Hsp92II CATG 2 cut(s) 323, 568
HspAI GCGC 2 cut(s) 143, 398
KasI GGCGCC 1 cut(s) 142
KroI GCCGGC 1 cut(s) 61
KroNI GCCGGC 1 cut(s) 63
Ksp22I TGATCA 1 cut(s) 447
Kzo9I GATC 5 cut(s) 81, 447, 634, 689, 766
LmnI GCTCC 2 cut(s) 649, 1005
Lsp1109I GCAGC 3 cut(s) 182, 487, 595
LweI GCATC 3 cut(s) 785, 863, 1007
MaeI CTAG 2 cut(s) 66, 1030
MaeII ACGT 2 cut(s) 261, 861
MaeIII GTNAC 3 cut(s) 34, 592, 868
MalI GATC 5 cut(s) 83, 449, 636, 691, 768
MbiI CCGCTC 1 cut(s) 804
MboI GATC 5 cut(s) 81, 447, 634, 689, 766
MboII GAAGA 5 cut(s) 118, 383, 464, 679, 803
MhlI GDGCHC 2 cut(s) 117, 738
Mly113I GGCGCC 1 cut(s) 143
MlyI GAGTC 1 cut(s) 227
MmeI TCCRAC 1 cut(s) 313
MroNI GCCGGC 1 cut(s) 61
MseI TTAA 3 cut(s) 374, 620, 1023
MspA1I CMGCKG 1 cut(s) 758
MspI CCGG 1 cut(s) 62
MwoI GCNNNNNNNGC 3 cut(s) 140, 733, 1014
NaeI GCCGGC 1 cut(s) 63
NarI GGCGCC 1 cut(s) 143
NdeII GATC 5 cut(s) 81, 447, 634, 689, 766
NgoMIV GCCGGC 1 cut(s) 61
NlaIII CATG 2 cut(s) 323, 568
NlaIV GGNNCC 1 cut(s) 144
NmeAIII GCCGAG 1 cut(s) 37
NmuCI GTSAC 2 cut(s) 34, 592
NspI RCATGY 1 cut(s) 568
NspV TTCGAA 1 cut(s) 475
PaeI GCATGC 1 cut(s) 568
PdiI GCCGGC 1 cut(s) 63
PfeI GAWTC 3 cut(s) 161, 185, 512
PflMI CCANNNNNTGG 1 cut(s) 758
PkrI GCNGC 3 cut(s) 172, 502, 610
PleI GAGTC 1 cut(s) 227
PluTI GGCGCC 1 cut(s) 146
PpsI GAGTC 1 cut(s) 227
PsiI TTATAA 1 cut(s) 99
PspN4I GGNNCC 1 cut(s) 144
PspPI GGNCC 2 cut(s) 344, 1016
PvuII CAGCTG 1 cut(s) 758
SaqAI TTAA 3 cut(s) 374, 620, 1023
SatI GCNGC 3 cut(s) 171, 501, 609
Sau3AI GATC 5 cut(s) 81, 447, 634, 689, 766
Sau96I GGNCC 2 cut(s) 344, 1016
SchI GAGTC 1 cut(s) 227
SduI GDGCHC 2 cut(s) 117, 738
SfaNI GCATC 3 cut(s) 785, 863, 1007
SfcI CTRYAG 1 cut(s) 366
SfoI GGCGCC 1 cut(s) 144
SfuI TTCGAA 1 cut(s) 475
SinI GGWCC 1 cut(s) 344
SphI GCATGC 1 cut(s) 568
SsiI CCGC 1 cut(s) 802
SspDI GGCGCC 1 cut(s) 142
SspMI CTAG 2 cut(s) 66, 1030
TaaI ACNGT 5 cut(s) 214, 370, 523, 784, 993
TaiI ACGT 2 cut(s) 264, 864
TaqI TCGA 6 cut(s) 180, 424, 430, 475, 637, 688
TfiI GAWTC 3 cut(s) 161, 185, 512
Tru1I TTAA 3 cut(s) 374, 620, 1023
Tru9I TTAA 3 cut(s) 374, 620, 1023
TscAI CASTG 3 cut(s) 27, 361, 834
TseFI GTSAC 2 cut(s) 34, 592
TseI GCWGC 3 cut(s) 170, 500, 608
Tsp45I GTSAC 2 cut(s) 34, 592
TspDTI ATGAA 6 cut(s) 174, 177, 567, 680, 762, 972
TspRI CASTG 3 cut(s) 27, 361, 834
Van91I CCANNNNNTGG 1 cut(s) 758
VpaK11BI GGWCC 1 cut(s) 344
XapI RAATTY 5 cut(s) 16, 176, 556, 579, 959
XceI RCATGY 1 cut(s) 568
XcmI CCANNNNNNNNNTGG 1 cut(s) 272
XmiI GTMKAC 1 cut(s) 417
XspI CTAG 2 cut(s) 66, 1030
ZraI GACGTC 1 cut(s) 262
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.