Rh5DG174000

At4g26485-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0000364
Physical Location & Seq
Reverse (-)
18684696 .. 18685509
814 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG174000.1

Sequence Viewer

Length: 465 bp
ATGGCACAAGAGAAAAGAATTGTGCATTATAGCAGCTCTCAGAAGATACTCTTGGTGGGTGAGGGAGACTTTTCCTTTGCTGCTTGTTTAGCCACAGCATTTGACTCTGCTGCCAACATAGTTGCTACCTCACTCAACTCCAGAGGTTACTTGAGAGGTTCTTTTTCATCAGAAAGCGATAAATCTCAAATTCTTGCACATAAGAACTTGGTCAAGGGATACTTCATGAGTGCACATCAAATGCTGTGTAGCCGTGGACAAATTCATGTGACACACAAGACAAAATTTCCTTTTACAGAGTGGGAAATAGTGAATTTGGCAAAGGTGGCTGGGTTATATCTGGTTGAAGAAGAAACATTCTACCCATGGCAATATCCAGGTTACGTAAATAAACGAGGAGCTGGGAACTGCGATGAAAGCTTTAGACTTGGAATGTCTAGCACCTTCAAATTTGCTAAGTACTAG
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

154

Amino Acids

17.29

Weight (kDa)

8.96

Isoelectric Point (pI)

57.51

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
BMT5-like PF10354 17 - 52 1.8e-08 rRNA (uridine-N3-)-methyltransferase BTM5-like
BMT5-like PF10354 57 - 132 4.2e-17 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)
AcsI RAATTY 5 cut(s) 189, 261, 284, 313, 449
AfaI GTAC 1 cut(s) 461
AgsI TTSAA 2 cut(s) 347, 448
AjnI CCWGG 1 cut(s) 376
AjuI GAANNNNNNNTTGG 2 cut(s) 35, 67
AluBI AGCT 3 cut(s) 36, 401, 420
AluI AGCT 3 cut(s) 36, 401, 420
Alw21I GWGCWC 1 cut(s) 235
Alw26I GTCTC 1 cut(s) 60
Alw44I GTGCAC 1 cut(s) 231
ApaLI GTGCAC 1 cut(s) 231
ApeKI GCWGC 3 cut(s) 33, 80, 110
ApoI RAATTY 5 cut(s) 189, 261, 284, 313, 449
ArsI GACNNNNNNTTYG 2 cut(s) 59, 91
AsuHPI GGTGA 1 cut(s) 71
BaeGI GKGCMC 1 cut(s) 235
Bbv12I GWGCWC 1 cut(s) 235
BbvI GCAGC 3 cut(s) 45, 67, 97
BceAI ACGGC 1 cut(s) 237
BciT130I CCWGG 1 cut(s) 378
BciVI GTATCC 1 cut(s) 212
BcoDI GTCTC 1 cut(s) 60
BfaI CTAG 2 cut(s) 438, 463
BfuI GTATCC 1 cut(s) 212
BisI GCNGC 3 cut(s) 34, 81, 111
BlsI GCNGC 3 cut(s) 35, 82, 112
BmcAI AGTACT 1 cut(s) 461
Bme1390I CCNGG 1 cut(s) 378
BmrFI CCNGG 1 cut(s) 378
BpmI CTGGAG 1 cut(s) 124
BpuEI CTTGAG 1 cut(s) 172
BsaAI YACGTR 1 cut(s) 385
BsaJI CCNNGG 2 cut(s) 253, 365
BseBI CCWGG 1 cut(s) 378
BseDI CCNNGG 2 cut(s) 253, 365
BseMII CTCAG 1 cut(s) 53
BseRI GAGGAG 1 cut(s) 411
BseSI GKGCMC 1 cut(s) 235
BseXI GCAGC 3 cut(s) 45, 67, 97
BseYI CCCAGC 2 cut(s) 329, 401
BsiHKAI GWGCWC 1 cut(s) 235
BsmAI GTCTC 1 cut(s) 60
Bsp1286I GDGCHC 1 cut(s) 235
Bsp19I CCATGG 1 cut(s) 365
BspCNI CTCAG 1 cut(s) 52
BspHI TCATGA 1 cut(s) 225
BssECI CCNNGG 2 cut(s) 253, 365
BssT1I CCWWGG 1 cut(s) 365
Bst2UI CCWGG 1 cut(s) 378
BstBAI YACGTR 1 cut(s) 385
BstDEI CTNAG 2 cut(s) 39, 456
BstDSI CCRYGG 2 cut(s) 253, 365
BstMAI GTCTC 1 cut(s) 60
BstMWI GCNNNNNNNGC 3 cut(s) 89, 326, 417
BstNI CCWGG 1 cut(s) 378
BstSCI CCNGG 1 cut(s) 376
BstSLI GKGCMC 1 cut(s) 235
BstSNI TACGTA 1 cut(s) 385
BstV1I GCAGC 3 cut(s) 45, 67, 97
BsuI GTATCC 1 cut(s) 212
BtgI CCRYGG 2 cut(s) 253, 365
BtgZI GCGATG 1 cut(s) 426
CciI TCATGA 1 cut(s) 225
Csp6I GTAC 1 cut(s) 460
CspCI CAANNNNNGTGG 2 cut(s) 82, 117
CviAII CATG 3 cut(s) 226, 266, 366
CviJI RGCY 6 cut(s) 36, 92, 252, 329, 401, 420
CviKI_1 RGCY 6 cut(s) 36, 92, 252, 329, 401, 420
CviQI GTAC 1 cut(s) 460
DdeI CTNAG 2 cut(s) 39, 456
Eco105I TACGTA 1 cut(s) 385
Eco130I CCWWGG 1 cut(s) 365
EcoRII CCWGG 1 cut(s) 376
EcoT14I CCWWGG 1 cut(s) 365
ErhI CCWWGG 1 cut(s) 365
FaeI CATG 3 cut(s) 229, 269, 369
FaiI YATR 7 cut(s) 30, 119, 201, 227, 267, 337, 367
FalI AAGNNNNNCTT 4 cut(s) 35, 67, 206, 238
FatI CATG 3 cut(s) 225, 265, 365
Fnu4HI GCNGC 3 cut(s) 34, 81, 111
Fsp4HI GCNGC 3 cut(s) 34, 81, 111
FspBI CTAG 2 cut(s) 438, 463
GluI GCNGC 3 cut(s) 34, 81, 111
GsaI CCCAGC 2 cut(s) 333, 405
GsuI CTGGAG 1 cut(s) 124
Hin1II CATG 3 cut(s) 229, 269, 369
HindIII AAGCTT 1 cut(s) 418
HinfI GANTC 1 cut(s) 104
HphI GGTGA 1 cut(s) 71
Hpy166II GTNNAC 2 cut(s) 233, 257
Hpy188I TCNGA 2 cut(s) 42, 172
Hpy188III TCNNGA 2 cut(s) 141, 226
Hpy8I GTNNAC 2 cut(s) 233, 257
HpyAV CCTTC 1 cut(s) 454
HpyCH4IV ACGT 1 cut(s) 384
HpyCH4V TGCA 3 cut(s) 25, 197, 233
HpyF10VI GCNNNNNNNGC 3 cut(s) 89, 326, 417
HpyF3I CTNAG 2 cut(s) 39, 456
HpySE526I ACGT 1 cut(s) 384
Hsp92II CATG 3 cut(s) 229, 269, 369
LmnI GCTCC 1 cut(s) 398
LpnPI CCDG 6 cut(s) 154, 315, 326, 363, 387, 390
Lsp1109I GCAGC 3 cut(s) 45, 67, 97
MaeI CTAG 2 cut(s) 438, 463
MaeII ACGT 1 cut(s) 384
MaeIII GTNAC 3 cut(s) 146, 268, 380
MboII GAAGA 3 cut(s) 55, 359, 362
MhlI GDGCHC 1 cut(s) 235
MluCI AATT 6 cut(s) 18, 189, 261, 284, 313, 449
MlyI GAGTC 1 cut(s) 98
MnlI CCTC 5 cut(s) 55, 137, 139, 149, 389
MspR9I CCNGG 1 cut(s) 378
MvaI CCWGG 1 cut(s) 378
MwoI GCNNNNNNNGC 3 cut(s) 89, 326, 417
NcoI CCATGG 1 cut(s) 365
NlaIII CATG 3 cut(s) 229, 269, 369
NmuCI GTSAC 1 cut(s) 268
PagI TCATGA 1 cut(s) 225
PkrI GCNGC 3 cut(s) 35, 82, 112
PleI GAGTC 1 cut(s) 98
PpsI GAGTC 1 cut(s) 98
Ppu21I YACGTR 1 cut(s) 385
Psp6I CCWGG 1 cut(s) 376
PspFI CCCAGC 2 cut(s) 329, 401
PspGI CCWGG 1 cut(s) 376
RsaI GTAC 1 cut(s) 461
RsaNI GTAC 1 cut(s) 460
SatI GCNGC 3 cut(s) 34, 81, 111
ScaI AGTACT 1 cut(s) 461
SchI GAGTC 1 cut(s) 98
ScrFI CCNGG 1 cut(s) 378
SduI GDGCHC 1 cut(s) 235
SmlI CTYRAG 1 cut(s) 151
SmoI CTYRAG 1 cut(s) 151
SnaBI TACGTA 1 cut(s) 385
Sse9I AATT 6 cut(s) 18, 189, 261, 284, 313, 449
SspMI CTAG 2 cut(s) 438, 463
StyD4I CCNGG 1 cut(s) 376
StyI CCWWGG 1 cut(s) 365
TaiI ACGT 1 cut(s) 387
TasI AATT 6 cut(s) 18, 189, 261, 284, 313, 449
TatI WGTACW 1 cut(s) 459
TseFI GTSAC 1 cut(s) 268
TseI GCWGC 3 cut(s) 33, 80, 110
Tsp45I GTSAC 1 cut(s) 268
TspDTI ATGAA 4 cut(s) 156, 214, 254, 429
VneI GTGCAC 1 cut(s) 231
XapI RAATTY 5 cut(s) 189, 261, 284, 313, 449
XspI CTAG 2 cut(s) 438, 463
ZrmI AGTACT 1 cut(s) 461
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.