Rroxscaffold_6G00389330

At4g26485-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0000364
Physical Location & Seq
Forward (+)
2842881 .. 2856097
13217 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00389330.1

Sequence Viewer

Length: 504 bp
ATGCGTAGTACTTCCGAAGTGGATGTGCACGAGAATGAGCCAACACCCTTTTCGAGTTGTTTTCGGTTTGATCGAATAATCTACAATTTTCCTCATGCCGGTTACTTGTACGGTCAATCTTCATCCGAGCACAACCAGTTTCAAATTTGGTTCCATCAGGATTTGGTGAGGGGATTCTTCAAGAATGCGCGTGAAATGCTTACCGAAATAGGAGAAATTCATGTGACACACAAGACAACATATCCTTTCGGTCGATGGGAAATAGTGAAGTTAGCGGGAGAGTTAGCAAATGATCGGTTGCTCACCATTTGGATCGAATGGCATCTGTCTGCTGAGCCGCGTCATGTGATGACAAATCTTGAGGAGAAGCTCATTGATGAGGAAGTGGATGAGATGATTTGCGAGACCGATGTTGATGGTGATCATTCGGAAATGGGATCTTTTGGGTTGAGTGCGGGAAAAACACGAGGTCAAAAGGGTTGGATAAATTTAGTTTATCCGTAA
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

167

Amino Acids

19.46

Weight (kDa)

5.1

Isoelectric Point (pI)

38.43

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
BMT5-like PF10354 5 - 94 8.1e-20 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 2 cut(s) 190, 340
AciI CCGC 3 cut(s) 275, 338, 455
AclWI GGATC 2 cut(s) 320, 445
AcsI RAATTY 3 cut(s) 144, 216, 487
AfaI GTAC 2 cut(s) 10, 110
AfiI CCNNNNNNNGG 1 cut(s) 98
AgsI TTSAA 2 cut(s) 143, 181
AjuI GAANNNNNNNTTGG 2 cut(s) 34, 66
AluBI AGCT 1 cut(s) 370
AluI AGCT 1 cut(s) 370
Alw21I GWGCWC 2 cut(s) 30, 132
Alw26I GTCTC 1 cut(s) 398
Alw44I GTGCAC 1 cut(s) 26
AlwI GGATC 2 cut(s) 320, 445
ApaLI GTGCAC 1 cut(s) 26
ApoI RAATTY 3 cut(s) 144, 216, 487
AspLEI GCGC 1 cut(s) 190
AsuHPI GGTGA 3 cut(s) 178, 295, 431
BaeGI GKGCMC 1 cut(s) 30
BauI CACGAG 2 cut(s) 29, 465
Bbv12I GWGCWC 2 cut(s) 30, 132
BccI CCATC 3 cut(s) 162, 249, 410
BclI TGATCA 1 cut(s) 421
BcoDI GTCTC 1 cut(s) 398
BisI GCNGC 1 cut(s) 338
BlpI GCTNAGC 1 cut(s) 333
BlsI GCNGC 1 cut(s) 339
BmcAI AGTACT 1 cut(s) 10
BmiI GGNNCC 1 cut(s) 152
BmsI GCATC 1 cut(s) 331
Bpu1102I GCTNAGC 1 cut(s) 333
BpuEI CTTGAG 1 cut(s) 380
BsaBI GATNNNNATC 1 cut(s) 420
BsaI GGTCTC 1 cut(s) 398
Bsc4I CCNNNNNNNGG 1 cut(s) 98
Bse118I RCCGGY 1 cut(s) 98
Bse1I ACTGG 1 cut(s) 136
Bse8I GATNNNNATC 1 cut(s) 420
BseGI GGATG 3 cut(s) 28, 122, 394
BseJI GATNNNNATC 1 cut(s) 420
BseLI CCNNNNNNNGG 1 cut(s) 98
BseMII CTCAG 1 cut(s) 324
BseNI ACTGG 1 cut(s) 136
BseRI GAGGAG 1 cut(s) 377
BseSI GKGCMC 1 cut(s) 30
Bsh1236I CGCG 2 cut(s) 190, 340
Bsh1285I CGRYCG 1 cut(s) 253
BsiEI CGRYCG 1 cut(s) 253
BsiHKAI GWGCWC 2 cut(s) 30, 132
BsiSI CCGG 1 cut(s) 99
BslI CCNNNNNNNGG 1 cut(s) 98
BsmAI GTCTC 1 cut(s) 398
BsmI GAATGC 1 cut(s) 190
Bso31I GGTCTC 1 cut(s) 398
Bsp1286I GDGCHC 2 cut(s) 30, 132
Bsp143I GATC 5 cut(s) 70, 292, 312, 421, 437
Bsp1720I GCTNAGC 1 cut(s) 333
BspACI CCGC 3 cut(s) 275, 338, 455
BspCNI CTCAG 1 cut(s) 325
BspFNI CGCG 2 cut(s) 190, 340
BspLI GGNNCC 1 cut(s) 152
BspPI GGATC 2 cut(s) 320, 445
BspTNI GGTCTC 1 cut(s) 398
BsrFI RCCGGY 1 cut(s) 98
BsrI ACTGG 1 cut(s) 136
BssAI RCCGGY 1 cut(s) 98
BssMI GATC 5 cut(s) 70, 292, 312, 421, 437
BssSI CACGAG 2 cut(s) 29, 465
Bst2BI CACGAG 2 cut(s) 29, 465
Bst4CI ACNGT 1 cut(s) 113
BstDEI CTNAG 1 cut(s) 333
BstF5I GGATG 3 cut(s) 28, 122, 394
BstFNI CGCG 2 cut(s) 190, 340
BstHHI GCGC 1 cut(s) 190
BstKTI GATC 5 cut(s) 73, 295, 315, 424, 440
BstMAI GTCTC 1 cut(s) 398
BstMBI GATC 5 cut(s) 70, 292, 312, 421, 437
BstMCI CGRYCG 1 cut(s) 253
BstMWI GCNNNNNNNGC 1 cut(s) 196
BstSLI GKGCMC 1 cut(s) 30
BstUI CGCG 2 cut(s) 190, 340
BstX2I RGATCY 1 cut(s) 437
BstYI RGATCY 1 cut(s) 437
BtsCI GGATG 3 cut(s) 28, 122, 394
CfoI GCGC 1 cut(s) 190
Cfr10I RCCGGY 1 cut(s) 98
CseI GACGC 1 cut(s) 329
Csp6I GTAC 2 cut(s) 9, 109
CviAII CATG 3 cut(s) 95, 221, 344
CviJI RGCY 3 cut(s) 40, 337, 370
CviKI_1 RGCY 3 cut(s) 40, 337, 370
CviQI GTAC 2 cut(s) 9, 109
DdeI CTNAG 1 cut(s) 333
DpnI GATC 5 cut(s) 72, 294, 314, 423, 439
DpnII GATC 5 cut(s) 70, 292, 312, 421, 437
Eco31I GGTCTC 1 cut(s) 398
FaeI CATG 3 cut(s) 98, 224, 347
FaiI YATR 4 cut(s) 96, 222, 241, 345
FatI CATG 3 cut(s) 94, 220, 343
FauI CCCGC 2 cut(s) 268, 448
FbaI TGATCA 1 cut(s) 421
Fnu4HI GCNGC 1 cut(s) 338
FokI GGATG 3 cut(s) 35, 109, 401
Fsp4HI GCNGC 1 cut(s) 338
GlaI GCGC 1 cut(s) 189
GluI GCNGC 1 cut(s) 338
HapII CCGG 1 cut(s) 99
HgaI GACGC 1 cut(s) 329
HhaI GCGC 1 cut(s) 190
Hin1II CATG 3 cut(s) 98, 224, 347
Hin6I GCGC 1 cut(s) 188
HinP1I GCGC 1 cut(s) 188
HinfI GANTC 1 cut(s) 174
HpaII CCGG 1 cut(s) 99
HphI GGTGA 3 cut(s) 178, 295, 431
Hpy166II GTNNAC 1 cut(s) 28
Hpy188I TCNGA 3 cut(s) 16, 127, 430
Hpy188III TCNNGA 3 cut(s) 158, 181, 359
Hpy8I GTNNAC 1 cut(s) 28
HpyCH4III ACNGT 1 cut(s) 113
HpyCH4V TGCA 1 cut(s) 28
HpyF10VI GCNNNNNNNGC 1 cut(s) 196
HpyF3I CTNAG 1 cut(s) 333
Hsp92II CATG 3 cut(s) 98, 224, 347
HspAI GCGC 1 cut(s) 188
Ksp22I TGATCA 1 cut(s) 421
Kzo9I GATC 5 cut(s) 70, 292, 312, 421, 437
LpnPI CCDG 3 cut(s) 112, 143, 149
LweI GCATC 1 cut(s) 331
MaeIII GTNAC 2 cut(s) 101, 223
MalI GATC 5 cut(s) 72, 294, 314, 423, 439
MboI GATC 5 cut(s) 70, 292, 312, 421, 437
MboII GAAGA 2 cut(s) 111, 169
MflI RGATCY 1 cut(s) 437
MhlI GDGCHC 2 cut(s) 30, 132
MluCI AATT 4 cut(s) 85, 144, 216, 487
MmeI TCCRAC 1 cut(s) 461
MnlI CCTC 5 cut(s) 102, 162, 355, 373, 461
MslI CAYNNNNRTG 1 cut(s) 33
MspI CCGG 1 cut(s) 99
Mva1269I GAATGC 1 cut(s) 190
MvnI CGCG 2 cut(s) 190, 340
MwoI GCNNNNNNNGC 1 cut(s) 196
NdeII GATC 5 cut(s) 70, 292, 312, 421, 437
NlaIII CATG 3 cut(s) 98, 224, 347
NlaIV GGNNCC 1 cut(s) 152
NmuCI GTSAC 1 cut(s) 223
PcsI WCGNNNNNNNCGW 1 cut(s) 70
PctI GAATGC 1 cut(s) 190
PfeI GAWTC 1 cut(s) 174
PkrI GCNGC 1 cut(s) 339
PspN4I GGNNCC 1 cut(s) 152
PsuI RGATCY 1 cut(s) 437
RsaI GTAC 2 cut(s) 10, 110
RsaNI GTAC 2 cut(s) 9, 109
RseI CAYNNNNRTG 1 cut(s) 33
SatI GCNGC 1 cut(s) 338
Sau3AI GATC 5 cut(s) 70, 292, 312, 421, 437
ScaI AGTACT 1 cut(s) 10
SduI GDGCHC 2 cut(s) 30, 132
SetI ASST 2 cut(s) 372, 472
SfaNI GCATC 1 cut(s) 331
SmiMI CAYNNNNRTG 1 cut(s) 33
SmlI CTYRAG 1 cut(s) 359
SmoI CTYRAG 1 cut(s) 359
Sse9I AATT 4 cut(s) 85, 144, 216, 487
SsiI CCGC 3 cut(s) 275, 338, 455
TaaI ACNGT 1 cut(s) 113
TaqI TCGA 4 cut(s) 53, 73, 253, 315
TaqII GACCGA 2 cut(s) 239, 422
TasI AATT 4 cut(s) 85, 144, 216, 487
TatI WGTACW 1 cut(s) 8
TauI GCSGC 1 cut(s) 340
TfiI GAWTC 1 cut(s) 174
TseFI GTSAC 1 cut(s) 223
Tsp45I GTSAC 1 cut(s) 223
TspDTI ATGAA 2 cut(s) 111, 209
TspGWI ACGGA 1 cut(s) 489
VneI GTGCAC 1 cut(s) 26
XapI RAATTY 3 cut(s) 144, 216, 487
ZrmI AGTACT 1 cut(s) 10
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.