Rroxscaffold_5G00386100

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0012271
Physical Location & Seq
Reverse (-)
65042218 .. 65045172
2955 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00386100.1

Sequence Viewer

Length: 978 bp
ATGGCGGTGGCGGACGGCGGAAGAGAGATAGAAACAGAGCTGAGCAAGAAGAAGGAAATGACGCCATGGGAGCAGCACTCTGCCGTCATCAGCATCCCTCGCTTCGACTACAACGCCCCTTCGTCTCTTCTTCATCACTCCCACTCCGGCTTCCTCATCACCTGCCCCATCAAGCGGGAGAAAAGCGCCACTAAAGAAGCAATCTCCCTCTTTGCAAAGTATATTCAGTGCTGTAATAGTAGCGGTAGTGAAGAAAATTCGGCTTCTAAAAGAAGGAAGCTTTCGGAGGAAAATGTGGATGGTGAGGATAGAGTGAATGATAATGATGGTGGTGATGTTGAAGAAGGTGCTTGCTCTCATGTGATGGTGGATACAGATGGAGAGACAGGTCCTCTTCTTAAGCTAGTTAAGCTGACAAAGAGTGGTTTGCTTCTCTTTATTTTCGGCAAAAATGTTTCTCCTGATGTCGTTGGGATTGTTTCAAAGATTGTACAGTCTGTGGAATCCGGGAGCTCTGGTTCACTTCTTTGGTGTAATCGTATTTTCCCTATCCAAGCTACTTGTAGTTTGAATGAAAAGGAACTGCATGAAGTTGTATCAAATCTTGTTCTTCAATTTATGAAAGATAATCAAAAACTTGTGCGGCCCATAAAGTTTGCAATTGGGTATAACAGAAGAGGAATAGAGACAGAATTGAACATTCCAAAAGAAGCCCCAAATGCACTCGAGTTGTTGGACCGTAACAAATGCTTTGCTTTAGTGGCTTCTGCAGTCAAAGATGTTGTATCGGATTCAGTGGTGGACCTCAAAGCTCCAGAGCTCTCTGTTCTTATTGAGCTACTGCCCCTCTCTGGTATACCAAAAGGGTCTTTAGTGGTTGCTGTATCCGTTCTTCCTCAAAATGTTGTTAGTGCAAAGCCAAAGCTATCCATAAAGGCACTGATTTCTGATACCAGGACAAAGGGTGAAAAAGCTTGA
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
THUMP

Protein Analysis

325

Amino Acids

35.29

Weight (kDa)

6.35

Isoelectric Point (pI)

33.89

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0012271)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G09290
fragaria_vesca FvH4_4g35990
malus_domestica MD16G1010000.v1.1
prunus_persica Prupe.1G340600_v2.0.a1 Prupe.1G340600_v2.0.a1 Prupe.1G340600_v2.0.a1
pyrus_communis pycom16g00980
rosa_chinensis RchiOBHm_Chr4g0445621
rosa_laevigata RLG00000005724
rosa_multiflora Rmu_sc0019383.1_g000001
rosa_roxburghii Rroxscaffold_5G00386100
rosa_rugosa Rorug04G0363100 Rorug04G0363200
rosa_samantha Rh4AG424600 Rh4AG425000 Rh4BG436800 Rh4CG451300 Rh4DG433300
rosa_wichuraiana Rw4G036400

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 170
Acc36I ACCTGC 1 cut(s) 170
AccI GTMKAC 1 cut(s) 856
AciI CCGC 6 cut(s) 5, 11, 18, 175, 243, 643
AcsI RAATTY 1 cut(s) 256
AcyI GRCGYC 1 cut(s) 62
AfaI GTAC 1 cut(s) 492
AfiI CCNNNNNNNGG 2 cut(s) 174, 851
AflII CTTAAG 1 cut(s) 398
AgsI TTSAA 5 cut(s) 341, 483, 571, 614, 697
AjnI CCWGG 1 cut(s) 953
AloI GAACNNNNNNTCC 2 cut(s) 502, 534
Alw21I GWGCWC 2 cut(s) 515, 822
Alw26I GTCTC 3 cut(s) 129, 377, 680
Ama87I CYCGRG 1 cut(s) 725
AoxI GGCC 1 cut(s) 644
ApeKI GCWGC 1 cut(s) 73
ApoI RAATTY 1 cut(s) 256
AspLEI GCGC 1 cut(s) 188
AspS9I GGNCC 4 cut(s) 389, 645, 736, 802
AsuC2I CCSGG 1 cut(s) 508
AsuHPI GGTGA 4 cut(s) 151, 314, 344, 977
AvaI CYCGRG 1 cut(s) 725
AvaII GGWCC 3 cut(s) 389, 736, 802
BanII GRGCYC 2 cut(s) 515, 822
BarI GAAGNNNNNNTAC 2 cut(s) 876, 908
Bbv12I GWGCWC 2 cut(s) 515, 822
BbvI GCAGC 1 cut(s) 85
BccI CCATC 5 cut(s) 176, 293, 320, 358, 371
BceAI ACGGC 2 cut(s) 31, 68
BciT130I CCWGG 1 cut(s) 955
BciVI GTATCC 2 cut(s) 364, 895
BcnI CCSGG 1 cut(s) 508
BcoDI GTCTC 3 cut(s) 129, 377, 680
BfaI CTAG 1 cut(s) 404
BfmI CTRYAG 1 cut(s) 768
BfoI RGCGCY 1 cut(s) 189
BfrI CTTAAG 1 cut(s) 398
BfuAI ACCTGC 1 cut(s) 170
BfuI GTATCC 2 cut(s) 364, 895
BisI GCNGC 2 cut(s) 74, 644
BlpI GCTNAGC 1 cut(s) 41
BlsI GCNGC 2 cut(s) 75, 645
Bme1390I CCNGG 2 cut(s) 508, 955
Bme18I GGWCC 3 cut(s) 389, 736, 802
BmeT110I CYCGRG 1 cut(s) 725
BmgT120I GGNCC 4 cut(s) 389, 645, 736, 802
BmrFI CCNGG 2 cut(s) 508, 955
BmsI GCATC 1 cut(s) 102
BplI GAGNNNNNCTC 2 cut(s) 62, 94
BpmI CTGGAG 1 cut(s) 798
Bpu1102I GCTNAGC 1 cut(s) 41
BpuMI CCSGG 1 cut(s) 508
BsaHI GRCGYC 1 cut(s) 62
BsaJI CCNNGG 1 cut(s) 65
BsaXI ACNNNNNCTCC 4 cut(s) 128, 158, 502, 532
Bsc4I CCNNNNNNNGG 2 cut(s) 174, 851
BseBI CCWGG 1 cut(s) 955
BseDI CCNNGG 1 cut(s) 65
BseGI GGATG 2 cut(s) 93, 304
BseLI CCNNNNNNNGG 2 cut(s) 174, 851
BseMII CTCAG 1 cut(s) 32
BseXI GCAGC 1 cut(s) 85
BshFI GGCC 1 cut(s) 646
BsiHKAI GWGCWC 2 cut(s) 515, 822
BsiHKCI CYCGRG 1 cut(s) 725
BsiSI CCGG 2 cut(s) 147, 507
BslI CCNNNNNNNGG 2 cut(s) 174, 851
BsmAI GTCTC 3 cut(s) 129, 377, 680
BsmBI CGTCTC 1 cut(s) 129
BsnI GGCC 1 cut(s) 646
BsoBI CYCGRG 1 cut(s) 725
Bsp1286I GDGCHC 2 cut(s) 515, 822
Bsp1407I TGTACA 1 cut(s) 490
Bsp1720I GCTNAGC 1 cut(s) 41
Bsp19I CCATGG 1 cut(s) 65
BspACI CCGC 6 cut(s) 5, 11, 18, 175, 243, 643
BspANI GGCC 1 cut(s) 646
BspCNI CTCAG 1 cut(s) 33
BspMAI CTGCAG 1 cut(s) 772
BspMI ACCTGC 1 cut(s) 170
BspTI CTTAAG 1 cut(s) 398
BsrGI TGTACA 1 cut(s) 490
BssECI CCNNGG 1 cut(s) 65
BssNAI GTATAC 1 cut(s) 857
BssNI GRCGYC 1 cut(s) 62
BssT1I CCWWGG 1 cut(s) 65
Bst1107I GTATAC 1 cut(s) 857
Bst2UI CCWGG 1 cut(s) 955
Bst4CI ACNGT 2 cut(s) 495, 740
Bst6I CTCTTC 4 cut(s) 16, 132, 399, 670
BstACI GRCGYC 1 cut(s) 62
BstAFI CTTAAG 1 cut(s) 398
BstAUI TGTACA 1 cut(s) 490
BstC8I GCNNGC 1 cut(s) 352
BstDEI CTNAG 1 cut(s) 41
BstDSI CCRYGG 1 cut(s) 65
BstF5I GGATG 2 cut(s) 93, 304
BstH2I RGCGCY 1 cut(s) 189
BstHHI GCGC 1 cut(s) 188
BstMAI GTCTC 3 cut(s) 129, 377, 680
BstMWI GCNNNNNNNGC 5 cut(s) 70, 99, 409, 719, 761
BstNI CCWGG 1 cut(s) 955
BstSCI CCNGG 2 cut(s) 506, 953
BstSFI CTRYAG 1 cut(s) 768
BstV1I GCAGC 1 cut(s) 85
BstZ17I GTATAC 1 cut(s) 857
BsuI GTATCC 2 cut(s) 364, 895
BsuRI GGCC 1 cut(s) 646
BtgI CCRYGG 1 cut(s) 65
BtsCI GGATG 2 cut(s) 93, 304
BtsIMutI CAGTG 3 cut(s) 233, 801, 938
BveI ACCTGC 1 cut(s) 170
Cac8I GCNNGC 1 cut(s) 352
CfoI GCGC 1 cut(s) 188
Cfr13I GGNCC 4 cut(s) 389, 645, 736, 802
CseI GACGC 1 cut(s) 70
Csp6I GTAC 1 cut(s) 491
CviAII CATG 3 cut(s) 66, 359, 587
CviQI GTAC 1 cut(s) 491
DdeI CTNAG 1 cut(s) 41
Eam1104I CTCTTC 4 cut(s) 16, 132, 399, 670
EarI CTCTTC 4 cut(s) 16, 132, 399, 670
EciI GGCGGA 2 cut(s) 26, 33
Ecl136II GAGCTC 2 cut(s) 513, 820
Eco130I CCWWGG 1 cut(s) 65
Eco24I GRGCYC 2 cut(s) 515, 822
Eco47I GGWCC 3 cut(s) 389, 736, 802
Eco53kI GAGCTC 2 cut(s) 513, 820
Eco88I CYCGRG 1 cut(s) 725
EcoICRI GAGCTC 2 cut(s) 513, 820
EcoO109I RGGNCCY 1 cut(s) 389
EcoRII CCWGG 1 cut(s) 953
EcoT14I CCWWGG 1 cut(s) 65
EcoT38I GRGCYC 2 cut(s) 515, 822
ErhI CCWWGG 1 cut(s) 65
Esp3I CGTCTC 1 cut(s) 129
FaeI CATG 3 cut(s) 69, 362, 590
FaiI YATR 9 cut(s) 67, 222, 360, 588, 620, 650, 669, 857, 932
FatI CATG 3 cut(s) 65, 358, 586
FauI CCCGC 1 cut(s) 168
FblI GTMKAC 1 cut(s) 856
Fnu4HI GCNGC 2 cut(s) 74, 644
FokI GGATG 2 cut(s) 80, 311
FriOI GRGCYC 2 cut(s) 515, 822
Fsp4HI GCNGC 2 cut(s) 74, 644
FspBI CTAG 1 cut(s) 404
GlaI GCGC 1 cut(s) 187
GluI GCNGC 2 cut(s) 74, 644
GsuI CTGGAG 1 cut(s) 798
HaeII RGCGCY 1 cut(s) 189
HaeIII GGCC 1 cut(s) 646
HapII CCGG 2 cut(s) 147, 507
HgaI GACGC 1 cut(s) 70
HhaI GCGC 1 cut(s) 188
Hin1I GRCGYC 1 cut(s) 62
Hin1II CATG 3 cut(s) 69, 362, 590
Hin6I GCGC 1 cut(s) 186
HinP1I GCGC 1 cut(s) 186
HindIII AAGCTT 2 cut(s) 278, 972
HinfI GANTC 2 cut(s) 503, 791
HpaII CCGG 2 cut(s) 147, 507
HphI GGTGA 4 cut(s) 151, 314, 344, 977
Hpy166II GTNNAC 3 cut(s) 521, 802, 857
Hpy188I TCNGA 3 cut(s) 286, 790, 949
Hpy188III TCNNGA 2 cut(s) 461, 815
Hpy8I GTNNAC 3 cut(s) 521, 802, 857
HpyAV CCTTC 4 cut(s) 46, 129, 267, 338
HpyCH4III ACNGT 2 cut(s) 495, 740
HpyCH4V TGCA 6 cut(s) 215, 586, 659, 722, 770, 914
HpyF10VI GCNNNNNNNGC 5 cut(s) 70, 99, 409, 719, 761
HpyF3I CTNAG 1 cut(s) 41
Hsp92I GRCGYC 1 cut(s) 62
Hsp92II CATG 3 cut(s) 69, 362, 590
HspAI GCGC 1 cut(s) 186
LmnI GCTCC 3 cut(s) 70, 510, 817
Lsp1109I GCAGC 1 cut(s) 85
LweI GCATC 1 cut(s) 102
MaeI CTAG 1 cut(s) 404
MaeIII GTNAC 1 cut(s) 740
MfeI CAATTG 1 cut(s) 660
MhlI GDGCHC 2 cut(s) 515, 822
MluCI AATT 4 cut(s) 256, 614, 660, 692
MmeI TCCRAC 1 cut(s) 714
MseI TTAA 2 cut(s) 399, 408
MspCI CTTAAG 1 cut(s) 398
MspI CCGG 2 cut(s) 147, 507
MspR9I CCNGG 2 cut(s) 508, 955
MunI CAATTG 1 cut(s) 660
MvaI CCWGG 1 cut(s) 955
MwoI GCNNNNNNNGC 5 cut(s) 70, 99, 409, 719, 761
NciI CCSGG 1 cut(s) 508
NcoI CCATGG 1 cut(s) 65
NlaIII CATG 3 cut(s) 69, 362, 590
PaeR7I CTCGAG 1 cut(s) 725
PaqCI CACCTGC 1 cut(s) 170
PfeI GAWTC 2 cut(s) 503, 791
PfoI TCCNGGA 1 cut(s) 506
PkrI GCNGC 2 cut(s) 75, 645
PpuMI RGGWCCY 1 cut(s) 389
Psp124BI GAGCTC 2 cut(s) 515, 822
Psp5II RGGWCCY 1 cut(s) 389
Psp6I CCWGG 1 cut(s) 953
PspGI CCWGG 1 cut(s) 953
PspPI GGNCC 4 cut(s) 389, 645, 736, 802
PspPPI RGGWCCY 1 cut(s) 389
PspXI VCTCGAGB 1 cut(s) 725
PstI CTGCAG 1 cut(s) 772
RsaI GTAC 1 cut(s) 492
RsaNI GTAC 1 cut(s) 491
SacI GAGCTC 2 cut(s) 515, 822
SaqAI TTAA 2 cut(s) 399, 408
SatI GCNGC 2 cut(s) 74, 644
Sau96I GGNCC 4 cut(s) 389, 645, 736, 802
ScrFI CCNGG 2 cut(s) 508, 955
SduI GDGCHC 2 cut(s) 515, 822
SfaNI GCATC 1 cut(s) 102
SfcI CTRYAG 1 cut(s) 768
Sfr274I CTCGAG 1 cut(s) 725
SinI GGWCC 3 cut(s) 389, 736, 802
SlaI CTCGAG 1 cut(s) 725
SmlI CTYRAG 2 cut(s) 398, 725
SmoI CTYRAG 2 cut(s) 398, 725
Sse9I AATT 4 cut(s) 256, 614, 660, 692
SsiI CCGC 6 cut(s) 5, 11, 18, 175, 243, 643
SspMI CTAG 1 cut(s) 404
SstI GAGCTC 2 cut(s) 515, 822
StyD4I CCNGG 2 cut(s) 506, 953
StyI CCWWGG 1 cut(s) 65
TaaI ACNGT 2 cut(s) 495, 740
TaqI TCGA 2 cut(s) 105, 726
TasI AATT 4 cut(s) 256, 614, 660, 692
TatI WGTACW 1 cut(s) 490
TauI GCSGC 1 cut(s) 646
TfiI GAWTC 2 cut(s) 503, 791
Tru1I TTAA 2 cut(s) 399, 408
Tru9I TTAA 2 cut(s) 399, 408
TscAI CASTG 3 cut(s) 233, 801, 945
TseI GCWGC 1 cut(s) 73
TspDTI ATGAA 4 cut(s) 122, 588, 603, 635
TspGWI ACGGA 1 cut(s) 877
TspRI CASTG 3 cut(s) 233, 801, 945
Vha464I CTTAAG 1 cut(s) 398
VpaK11BI GGWCC 3 cut(s) 389, 736, 802
XapI RAATTY 1 cut(s) 256
XhoI CTCGAG 1 cut(s) 725
XmiI GTMKAC 1 cut(s) 856
XspI CTAG 1 cut(s) 404
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.