Rroxscaffold_1G00054740

At4g26485-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000364
Physical Location & Seq
Reverse (-)
76103056 .. 76104260
1205 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00054740.1

Sequence Viewer

Length: 714 bp
ATGGAAAAGGCTATTGCAGATGCTAAACAAGGGAAACGGATTATGCATTACAGCAGCAATCAGAAGATACTGTTAGTGGGTGAGGGCAATTTCTCTTTTGCTTCTTGTTTAGCTAAAGTATTTGGCTCTGCTAAGAACATGGTTGCCACTTCCCTCGAATCCAGAGAGTCAGTATTGGCCCAGTATTCAAACGCAGCACCAAGAAACTTGAGAAAATTGGAGAACATGGGATGTGTTATACTGCATGAGGTGGATGTACACACCATGGGGCAACACCCTCTCTTAATCGATCGACTGTTTGATCGGATAGTCTTTAACTTTCCTCATGCTGGTTTCGTTTTTATGGAAAGCAAGAAGAAGAAAACCAAGTACTTTATGGAAAACAACAAGAGGCAAATCAAGTTGCATCAGGATTTGGTGAGGAGATTCTTCGCCAGCGCATGTGAGATGCTGAAACAAAGTGGAGAAGTTCATGTCACTCACAAGACCGCACATCCATTCAGTGAGTGGGAGATAGTGAAATTAGCAGGAGAGGCTGGGTTATATCTGGTTGAGGAAGCATCGTTTTCAAGAGAGGATTATCCCGGTTATTTAAACAAGAGAGGAAGTGGGAACAAATGCAACCGCACATTTCCTGTTGGACAATGTAGCACCTACAAATTTGCCAAGCTGCCGCGTCTTGAATTTTCATTCACAACATTAAAGATCATGTAA
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
DUF2431

Protein Analysis

237

Amino Acids

27.03

Weight (kDa)

9.51

Isoelectric Point (pI)

37.77

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
BMT5-like PF10354 24 - 201 8.7e-52 rRNA (uridine-N3-)-methyltransferase BTM5-like
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: OG0000364)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G26485
fragaria_vesca FvH4_3g14860 FvH4_3g14860 FvH4_3g14861 FvH4_3g14862 FvH4_3g14862 FvH4_3g14880 FvH4_3g14880 FvH4_3g14890 FvH4_3g14891 FvH4_3g14892 FvH4_3g14901 FvH4_3g14902
malus_domestica MD05G1233500.v1.1 MD05G1233600.v1.1 MD10G1209900.v1.1 MD10G1210000.v1.1 MD10G1210100.v1.1 MD10G1210300.v1.1 MD10G1210400.v1.1
prunus_persica Prupe.4G132900_v2.0.a1 Prupe.4G133200_v2.0.a1 Prupe.4G133200_v2.0.a1 Prupe.4G133200_v2.0.a1 Prupe.4G133300_v2.0.a1 Prupe.4G133300_v2.0.a1 Prupe.4G133400_v2.0.a1 Prupe.4G133500_v2.0.a1 Prupe.4G133500_v2.0.a1 Prupe.4G133600_v2.0.a1 Prupe.4G133600_v2.0.a1
pyrus_communis pycom05g21110 pycom05g21120 pycom10g17840
rosa_chinensis RchiOBHm_Chr5g0024361 RchiOBHm_Chr5g0024391 RchiOBHm_Chr5g0024411 RchiOBHm_Chr5g0024431 RchiOBHm_Chr5g0024451 RchiOBHm_Chr5g0024461 RchiOBHm_Chr5g0024471 RchiOBHm_Chr5g0024481 RchiOBHm_Chr5g0024501 RchiOBHm_Chr5g0024511
rosa_laevigata RLG00000032799 RLG00000032800 RLG00000032801 RLG00000032802 RLG00000032803
rosa_multiflora Rmu_sc0000761.1_g000010 Rmu_sc0000761.1_g000014 Rmu_sc0000761.1_g000018 Rmu_sc0000761.1_g000025 Rmu_sc0005861.1_g000002 Rmu_sc0005861.1_g000004 Rmu_sc0005861.1_g000007 Rmu_sc0011809.1_g000001 Rmu_sc0011809.1_g000006
rosa_roxburghii Rroxscaffold_1G00054740 Rroxscaffold_1G00054750 Rroxscaffold_1G00054760 Rroxscaffold_1G00054770 Rroxscaffold_1G00054780 Rroxscaffold_1G00054790 Rroxscaffold_1G00054840 Rroxscaffold_1G00055860 Rroxscaffold_3G00237770 Rroxscaffold_6G00389330
rosa_rugosa Rorug05G0083300 Rorug05G0083400 Rorug05G0083400
rosa_samantha Rh5AG174100 Rh5AG174300 Rh5AG174600 Rh5AG174700 Rh5AG175000 Rh5AG175300 Rh5BG171000 Rh5BG171400 Rh5BG171500 Rh5BG171600 Rh5BG171700 Rh5BG172100 Rh5BG172300 Rh5BG172500 Rh5CG187400 Rh5CG187700 Rh5CG187900 Rh5CG188000 Rh5CG188200 Rh5CG188400 Rh5CG188500 Rh5CG188600 Rh5DG173200 Rh5DG173400 Rh5DG173500 Rh5DG173700 Rh5DG173900 Rh5DG174000 Rh5DG174100
rosa_wichuraiana Rw5G015700 Rw5G015730 Rw5G015740 Rw5G015770 Rw5G015790

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 676
AciI CCGC 3 cut(s) 489, 625, 674
AcsI RAATTY 2 cut(s) 659, 683
AfaI GTAC 2 cut(s) 258, 371
AfiI CCNNNNNNNGG 1 cut(s) 329
AgsI TTSAA 3 cut(s) 189, 570, 683
AluBI AGCT 2 cut(s) 113, 670
AluI AGCT 2 cut(s) 113, 670
AoxI GGCC 1 cut(s) 177
ApeKI GCWGC 3 cut(s) 54, 194, 670
ApoI RAATTY 2 cut(s) 659, 683
AspLEI GCGC 1 cut(s) 440
AspS9I GGNCC 1 cut(s) 178
AsuC2I CCSGG 1 cut(s) 585
AsuHPI GGTGA 2 cut(s) 92, 430
BbvI GCAGC 3 cut(s) 66, 206, 657
BcnI CCSGG 1 cut(s) 585
BisI GCNGC 4 cut(s) 55, 195, 671, 674
BlsI GCNGC 4 cut(s) 56, 196, 672, 675
BmcAI AGTACT 1 cut(s) 371
Bme1390I CCNGG 1 cut(s) 585
BmgT120I GGNCC 1 cut(s) 178
BmrFI CCNGG 1 cut(s) 585
BmrI ACTGGG 1 cut(s) 175
BmsI GCATC 4 cut(s) 10, 415, 438, 569
BmuI ACTGGG 1 cut(s) 175
BpuEI CTTGAG 1 cut(s) 229
BpuMI CCSGG 1 cut(s) 585
Bsa29I ATCGAT 1 cut(s) 288
BsaJI CCNNGG 1 cut(s) 264
Bsc4I CCNNNNNNNGG 1 cut(s) 329
Bse1I ACTGG 1 cut(s) 181
BseCI ATCGAT 1 cut(s) 288
BseDI CCNNGG 1 cut(s) 264
BseGI GGATG 3 cut(s) 236, 259, 493
BseLI CCNNNNNNNGG 1 cut(s) 329
BseNI ACTGG 1 cut(s) 181
BseRI GAGGAG 1 cut(s) 436
BseXI GCAGC 3 cut(s) 66, 206, 657
BseYI CCCAGC 1 cut(s) 536
Bsh1236I CGCG 1 cut(s) 676
Bsh1285I CGRYCG 1 cut(s) 292
BshFI GGCC 1 cut(s) 179
BshVI ATCGAT 1 cut(s) 288
BsiEI CGRYCG 1 cut(s) 292
BsiSI CCGG 1 cut(s) 585
BslI CCNNNNNNNGG 1 cut(s) 329
BsnI GGCC 1 cut(s) 179
Bsp1407I TGTACA 1 cut(s) 256
Bsp143I GATC 3 cut(s) 289, 301, 705
Bsp19I CCATGG 1 cut(s) 264
BspACI CCGC 3 cut(s) 489, 625, 674
BspANI GGCC 1 cut(s) 179
BspDI ATCGAT 1 cut(s) 288
BspFNI CGCG 1 cut(s) 676
BsrGI TGTACA 1 cut(s) 256
BsrI ACTGG 1 cut(s) 181
BssECI CCNNGG 1 cut(s) 264
BssMI GATC 3 cut(s) 289, 301, 705
BssT1I CCWWGG 1 cut(s) 264
Bst4CI ACNGT 2 cut(s) 72, 297
BstAUI TGTACA 1 cut(s) 256
BstC8I GCNNGC 1 cut(s) 436
BstDEI CTNAG 1 cut(s) 132
BstDSI CCRYGG 1 cut(s) 264
BstF5I GGATG 3 cut(s) 236, 259, 493
BstFNI CGCG 1 cut(s) 676
BstHHI GCGC 1 cut(s) 440
BstKTI GATC 3 cut(s) 292, 304, 708
BstMBI GATC 3 cut(s) 289, 301, 705
BstMCI CGRYCG 1 cut(s) 292
BstMWI GCNNNNNNNGC 1 cut(s) 533
BstNSI RCATGY 1 cut(s) 444
BstSCI CCNGG 1 cut(s) 583
BstUI CGCG 1 cut(s) 676
BstV1I GCAGC 3 cut(s) 66, 206, 657
Bsu15I ATCGAT 1 cut(s) 288
BsuRI GGCC 1 cut(s) 179
BsuTUI ATCGAT 1 cut(s) 288
BtgI CCRYGG 1 cut(s) 264
BtsCI GGATG 3 cut(s) 236, 259, 493
BtsIMutI CAGTG 1 cut(s) 508
Cac8I GCNNGC 1 cut(s) 436
CfoI GCGC 1 cut(s) 440
Cfr13I GGNCC 1 cut(s) 178
ClaI ATCGAT 1 cut(s) 288
CseI GACGC 1 cut(s) 665
Csp6I GTAC 2 cut(s) 257, 370
CviAII CATG 8 cut(s) 139, 226, 245, 265, 326, 441, 473, 709
CviJI RGCY 6 cut(s) 11, 113, 126, 179, 536, 670
CviKI_1 RGCY 6 cut(s) 11, 113, 126, 179, 536, 670
CviQI GTAC 2 cut(s) 257, 370
DdeI CTNAG 1 cut(s) 132
DpnI GATC 3 cut(s) 291, 303, 707
DpnII GATC 3 cut(s) 289, 301, 705
DraI TTTAAA 1 cut(s) 594
Eco130I CCWWGG 1 cut(s) 264
EcoT14I CCWWGG 1 cut(s) 264
EcoT22I ATGCAT 1 cut(s) 48
ErhI CCWWGG 1 cut(s) 264
FaeI CATG 8 cut(s) 142, 229, 248, 268, 329, 444, 476, 712
FatI CATG 8 cut(s) 138, 225, 244, 264, 325, 440, 472, 708
Fnu4HI GCNGC 4 cut(s) 55, 195, 671, 674
FokI GGATG 3 cut(s) 243, 266, 480
Fsp4HI GCNGC 4 cut(s) 55, 195, 671, 674
GlaI GCGC 1 cut(s) 439
GluI GCNGC 4 cut(s) 55, 195, 671, 674
GsaI CCCAGC 1 cut(s) 540
HaeIII GGCC 1 cut(s) 179
HapII CCGG 1 cut(s) 585
HgaI GACGC 1 cut(s) 665
HhaI GCGC 1 cut(s) 440
Hin1II CATG 8 cut(s) 142, 229, 248, 268, 329, 444, 476, 712
Hin6I GCGC 1 cut(s) 438
HinP1I GCGC 1 cut(s) 438
HinfI GANTC 3 cut(s) 158, 167, 426
HpaII CCGG 1 cut(s) 585
HphI GGTGA 2 cut(s) 92, 430
Hpy166II GTNNAC 1 cut(s) 259
Hpy188I TCNGA 2 cut(s) 63, 306
Hpy188III TCNNGA 4 cut(s) 162, 410, 570, 680
Hpy8I GTNNAC 1 cut(s) 259
HpyCH4III ACNGT 2 cut(s) 72, 297
HpyCH4V TGCA 5 cut(s) 17, 46, 244, 406, 621
HpyF10VI GCNNNNNNNGC 1 cut(s) 533
HpyF3I CTNAG 1 cut(s) 132
Hsp92II CATG 8 cut(s) 142, 229, 248, 268, 329, 444, 476, 712
HspAI GCGC 1 cut(s) 438
Kzo9I GATC 3 cut(s) 289, 301, 705
Lsp1109I GCAGC 3 cut(s) 66, 206, 657
LweI GCATC 4 cut(s) 10, 415, 438, 569
MaeIII GTNAC 1 cut(s) 475
MalI GATC 3 cut(s) 291, 303, 707
MboI GATC 3 cut(s) 289, 301, 705
MboII GAAGA 4 cut(s) 76, 367, 370, 421
MluCI AATT 5 cut(s) 88, 215, 521, 659, 683
MlyI GAGTC 1 cut(s) 176
MmeI TCCRAC 1 cut(s) 619
Mph1103I ATGCAT 1 cut(s) 48
MseI TTAA 4 cut(s) 284, 315, 593, 701
MspI CCGG 1 cut(s) 585
MspR9I CCNGG 1 cut(s) 585
MvnI CGCG 1 cut(s) 676
MwoI GCNNNNNNNGC 1 cut(s) 533
NciI CCSGG 1 cut(s) 585
NcoI CCATGG 1 cut(s) 264
NdeII GATC 3 cut(s) 289, 301, 705
NlaIII CATG 8 cut(s) 142, 229, 248, 268, 329, 444, 476, 712
NmuCI GTSAC 1 cut(s) 475
NsiI ATGCAT 1 cut(s) 48
NspI RCATGY 1 cut(s) 444
PfeI GAWTC 2 cut(s) 158, 426
PkrI GCNGC 4 cut(s) 56, 196, 672, 675
Ple19I CGATCG 1 cut(s) 292
PleI GAGTC 1 cut(s) 175
PpsI GAGTC 1 cut(s) 175
PspFI CCCAGC 1 cut(s) 536
PspPI GGNCC 1 cut(s) 178
PvuI CGATCG 1 cut(s) 292
RsaI GTAC 2 cut(s) 258, 371
RsaNI GTAC 2 cut(s) 257, 370
SaqAI TTAA 4 cut(s) 284, 315, 593, 701
SatI GCNGC 4 cut(s) 55, 195, 671, 674
Sau3AI GATC 3 cut(s) 289, 301, 705
Sau96I GGNCC 1 cut(s) 178
ScaI AGTACT 1 cut(s) 371
SchI GAGTC 1 cut(s) 176
ScrFI CCNGG 1 cut(s) 585
SetI ASST 4 cut(s) 115, 252, 656, 672
SfaNI GCATC 4 cut(s) 10, 415, 438, 569
SmlI CTYRAG 1 cut(s) 208
SmoI CTYRAG 1 cut(s) 208
Sse9I AATT 5 cut(s) 88, 215, 521, 659, 683
SsiI CCGC 3 cut(s) 489, 625, 674
StyD4I CCNGG 1 cut(s) 583
StyI CCWWGG 1 cut(s) 264
TaaI ACNGT 2 cut(s) 72, 297
TaqI TCGA 3 cut(s) 156, 288, 292
TasI AATT 5 cut(s) 88, 215, 521, 659, 683
TatI WGTACW 2 cut(s) 256, 369
TauI GCSGC 1 cut(s) 676
TfiI GAWTC 2 cut(s) 158, 426
Tru1I TTAA 4 cut(s) 284, 315, 593, 701
Tru9I TTAA 4 cut(s) 284, 315, 593, 701
TscAI CASTG 1 cut(s) 508
TseFI GTSAC 1 cut(s) 475
TseI GCWGC 3 cut(s) 54, 194, 670
Tsp45I GTSAC 1 cut(s) 475
TspDTI ATGAA 2 cut(s) 461, 678
TspGWI ACGGA 1 cut(s) 52
TspRI CASTG 1 cut(s) 508
XapI RAATTY 2 cut(s) 659, 683
XceI RCATGY 1 cut(s) 444
XcmI CCANNNNNNNNNTGG 2 cut(s) 373, 504
ZrmI AGTACT 1 cut(s) 371
Zsp2I ATGCAT 1 cut(s) 48
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.