Rh5AG175000

At4g26485-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0000364
Physical Location & Seq
Forward (+)
19362247 .. 19364264
2018 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG175000.1

Sequence Viewer

Length: 681 bp
ATGGAAGAGGCTATAGCAGATACTAAACGAGAGAAAAGGATTATGCATTACAGCAGCAATCAGAAGATACTGTTAGTGGGTGAGGGCAACTTCTCTTTTGCTGCTTGTTTAGCCAAAGAGTTTGGCTCAGCGAAGAACATGGTTGCCACTTCTCTTGACTCCAAAGAGTCAGTATTGGCCCAGTATTCAAACGCAGCACCAAGAAACTTGAGAAAATTGGAGAACATGGGATGTGTTATACTGCATGAGGTGGATGTACACACCATGGGGCAACACCCTCTCTTAATCGATCAACTGTTTGATCGGATAGTCTTTAACTTTCCTCATGCTGGTTTCGTTTTTATGGAAAGCAAGAAGAAGAAAACCAAGTTGCATCAGGATTTGGTGAGGAGATTCTTCGCCAGCGCATGTGAGATGCTGAAAGAAAGTGGAGAAGTTCATGTCACTCACAAGACTGCACATCCATTCAGTGAGTGGGAGATAGTGAAATTAGCAGAAGAGGCTGGGCTATATCTGGTTGAGGAAGCATCGTTTTCAAGAGGGGACTATCCCGGTTATTTAAACAAGAGAGGAAGTGGGAAGAAATGCAACCGCACATTTCCTGTTGGACAATGTAGCACCTACAAATTTGCCAAGCTGCCGCTTCTTGAATTTTCATTCACAACATTAAAGATCATGTAA
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

226

Amino Acids

25.62

Weight (kDa)

8.87

Isoelectric Point (pI)

35.76

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
BMT5-like PF10354 24 - 190 7.9e-54 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)
AciI CCGC 2 cut(s) 592, 641
AcsI RAATTY 2 cut(s) 626, 650
AfaI GTAC 1 cut(s) 258
AfiI CCNNNNNNNGG 1 cut(s) 329
AgsI TTSAA 3 cut(s) 189, 537, 650
AluBI AGCT 1 cut(s) 637
AluI AGCT 1 cut(s) 637
AoxI GGCC 1 cut(s) 177
ApeKI GCWGC 4 cut(s) 54, 101, 194, 637
ApoI RAATTY 2 cut(s) 626, 650
AspLEI GCGC 1 cut(s) 407
AspS9I GGNCC 1 cut(s) 178
AsuC2I CCSGG 1 cut(s) 552
AsuHPI GGTGA 2 cut(s) 92, 397
BbvI GCAGC 4 cut(s) 66, 88, 206, 624
BcnI CCSGG 1 cut(s) 552
BfmI CTRYAG 1 cut(s) 12
BisI GCNGC 5 cut(s) 55, 102, 195, 638, 641
BlpI GCTNAGC 1 cut(s) 127
BlsI GCNGC 5 cut(s) 56, 103, 196, 639, 642
Bme1390I CCNGG 1 cut(s) 552
BmgT120I GGNCC 1 cut(s) 178
BmrFI CCNGG 1 cut(s) 552
BmrI ACTGGG 1 cut(s) 175
BmsI GCATC 3 cut(s) 382, 405, 536
BmuI ACTGGG 1 cut(s) 175
BplI GAGNNNNNCTC 2 cut(s) 110, 142
Bpu1102I GCTNAGC 1 cut(s) 127
BpuEI CTTGAG 1 cut(s) 229
BpuMI CCSGG 1 cut(s) 552
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, 460
BseLI CCNNNNNNNGG 1 cut(s) 329
BseMII CTCAG 1 cut(s) 141
BseNI ACTGG 1 cut(s) 181
BseRI GAGGAG 1 cut(s) 403
BseXI GCAGC 4 cut(s) 66, 88, 206, 624
BseYI CCCAGC 1 cut(s) 503
BsgI GTGCAG 1 cut(s) 441
BshFI GGCC 1 cut(s) 179
BshVI ATCGAT 1 cut(s) 288
BsiSI CCGG 1 cut(s) 552
BslFI GGGAC 1 cut(s) 557
BslI CCNNNNNNNGG 1 cut(s) 329
BsmFI GGGAC 1 cut(s) 557
BsnI GGCC 1 cut(s) 179
Bsp1407I TGTACA 1 cut(s) 256
Bsp143I GATC 3 cut(s) 289, 301, 672
Bsp1720I GCTNAGC 1 cut(s) 127
Bsp19I CCATGG 1 cut(s) 264
BspACI CCGC 2 cut(s) 592, 641
BspANI GGCC 1 cut(s) 179
BspCNI CTCAG 1 cut(s) 140
BspDI ATCGAT 1 cut(s) 288
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, 672
BssT1I CCWWGG 1 cut(s) 264
Bst4CI ACNGT 2 cut(s) 72, 297
Bst6I CTCTTC 1 cut(s) 492
BstAUI TGTACA 1 cut(s) 256
BstC8I GCNNGC 1 cut(s) 403
BstDEI CTNAG 1 cut(s) 127
BstDSI CCRYGG 1 cut(s) 264
BstF5I GGATG 3 cut(s) 236, 259, 460
BstHHI GCGC 1 cut(s) 407
BstKTI GATC 3 cut(s) 292, 304, 675
BstMBI GATC 3 cut(s) 289, 301, 672
BstMWI GCNNNNNNNGC 2 cut(s) 110, 500
BstNSI RCATGY 1 cut(s) 411
BstSCI CCNGG 1 cut(s) 550
BstSFI CTRYAG 1 cut(s) 12
BstV1I GCAGC 4 cut(s) 66, 88, 206, 624
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, 460
BtsIMutI CAGTG 1 cut(s) 475
Cac8I GCNNGC 1 cut(s) 403
CfoI GCGC 1 cut(s) 407
Cfr13I GGNCC 1 cut(s) 178
ClaI ATCGAT 1 cut(s) 288
Csp6I GTAC 1 cut(s) 257
CspCI CAANNNNNGTGG 2 cut(s) 136, 171
CviAII CATG 8 cut(s) 139, 226, 245, 265, 326, 408, 440, 676
CviJI RGCY 7 cut(s) 11, 113, 126, 179, 503, 508, 637
CviKI_1 RGCY 7 cut(s) 11, 113, 126, 179, 503, 508, 637
CviQI GTAC 1 cut(s) 257
DdeI CTNAG 1 cut(s) 127
DpnI GATC 3 cut(s) 291, 303, 674
DpnII GATC 3 cut(s) 289, 301, 672
DraI TTTAAA 1 cut(s) 561
Eam1104I CTCTTC 1 cut(s) 492
EarI CTCTTC 1 cut(s) 492
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, 411, 443, 679
FaqI GGGAC 1 cut(s) 557
FatI CATG 8 cut(s) 138, 225, 244, 264, 325, 407, 439, 675
Fnu4HI GCNGC 5 cut(s) 55, 102, 195, 638, 641
FokI GGATG 3 cut(s) 243, 266, 447
Fsp4HI GCNGC 5 cut(s) 55, 102, 195, 638, 641
GlaI GCGC 1 cut(s) 406
GluI GCNGC 5 cut(s) 55, 102, 195, 638, 641
GsaI CCCAGC 1 cut(s) 507
HaeIII GGCC 1 cut(s) 179
HapII CCGG 1 cut(s) 552
HhaI GCGC 1 cut(s) 407
Hin1II CATG 8 cut(s) 142, 229, 248, 268, 329, 411, 443, 679
Hin6I GCGC 1 cut(s) 405
HinP1I GCGC 1 cut(s) 405
HinfI GANTC 3 cut(s) 158, 167, 393
HpaII CCGG 1 cut(s) 552
HphI GGTGA 2 cut(s) 92, 397
Hpy166II GTNNAC 1 cut(s) 259
Hpy188I TCNGA 2 cut(s) 63, 306
Hpy188III TCNNGA 4 cut(s) 155, 377, 537, 647
Hpy8I GTNNAC 1 cut(s) 259
HpyCH4III ACNGT 2 cut(s) 72, 297
HpyCH4V TGCA 5 cut(s) 46, 244, 373, 458, 588
HpyF10VI GCNNNNNNNGC 2 cut(s) 110, 500
HpyF3I CTNAG 1 cut(s) 127
Hsp92II CATG 8 cut(s) 142, 229, 248, 268, 329, 411, 443, 679
HspAI GCGC 1 cut(s) 405
Kzo9I GATC 3 cut(s) 289, 301, 672
LpnPI CCDG 8 cut(s) 194, 315, 362, 415, 489, 500, 565, 615
Lsp1109I GCAGC 4 cut(s) 66, 88, 206, 624
LweI GCATC 3 cut(s) 382, 405, 536
MaeIII GTNAC 1 cut(s) 442
MalI GATC 3 cut(s) 291, 303, 674
MboI GATC 3 cut(s) 289, 301, 672
MboII GAAGA 8 cut(s) 17, 76, 145, 367, 370, 388, 509, 592
MluCI AATT 4 cut(s) 215, 488, 626, 650
MlyI GAGTC 2 cut(s) 152, 176
MmeI TCCRAC 1 cut(s) 586
MnlI CCTC 9 cut(s) 76, 241, 288, 333, 381, 493, 514, 533, 563
Mph1103I ATGCAT 1 cut(s) 48
MseI TTAA 4 cut(s) 284, 315, 560, 668
MspI CCGG 1 cut(s) 552
MspR9I CCNGG 1 cut(s) 552
MwoI GCNNNNNNNGC 2 cut(s) 110, 500
NciI CCSGG 1 cut(s) 552
NcoI CCATGG 1 cut(s) 264
NdeII GATC 3 cut(s) 289, 301, 672
NlaIII CATG 8 cut(s) 142, 229, 248, 268, 329, 411, 443, 679
NmuCI GTSAC 1 cut(s) 442
NsiI ATGCAT 1 cut(s) 48
NspI RCATGY 1 cut(s) 411
PfeI GAWTC 1 cut(s) 393
PkrI GCNGC 5 cut(s) 56, 103, 196, 639, 642
PleI GAGTC 2 cut(s) 152, 175
PpsI GAGTC 2 cut(s) 152, 175
PspFI CCCAGC 1 cut(s) 503
PspPI GGNCC 1 cut(s) 178
RsaI GTAC 1 cut(s) 258
RsaNI GTAC 1 cut(s) 257
SaqAI TTAA 4 cut(s) 284, 315, 560, 668
SatI GCNGC 5 cut(s) 55, 102, 195, 638, 641
Sau3AI GATC 3 cut(s) 289, 301, 672
Sau96I GGNCC 1 cut(s) 178
SchI GAGTC 2 cut(s) 152, 176
ScrFI CCNGG 1 cut(s) 552
SetI ASST 3 cut(s) 252, 623, 639
SfaNI GCATC 3 cut(s) 382, 405, 536
SfcI CTRYAG 1 cut(s) 12
SmlI CTYRAG 1 cut(s) 208
SmoI CTYRAG 1 cut(s) 208
Sse9I AATT 4 cut(s) 215, 488, 626, 650
SsiI CCGC 2 cut(s) 592, 641
StyD4I CCNGG 1 cut(s) 550
StyI CCWWGG 1 cut(s) 264
TaaI ACNGT 2 cut(s) 72, 297
TaqI TCGA 1 cut(s) 288
TasI AATT 4 cut(s) 215, 488, 626, 650
TatI WGTACW 1 cut(s) 256
TauI GCSGC 1 cut(s) 643
TfiI GAWTC 1 cut(s) 393
Tru1I TTAA 4 cut(s) 284, 315, 560, 668
Tru9I TTAA 4 cut(s) 284, 315, 560, 668
TscAI CASTG 1 cut(s) 475
TseFI GTSAC 1 cut(s) 442
TseI GCWGC 4 cut(s) 54, 101, 194, 637
Tsp45I GTSAC 1 cut(s) 442
TspDTI ATGAA 2 cut(s) 428, 645
TspRI CASTG 1 cut(s) 475
XapI RAATTY 2 cut(s) 626, 650
XceI RCATGY 1 cut(s) 411
XcmI CCANNNNNNNNNTGG 1 cut(s) 471
Zsp2I ATGCAT 1 cut(s) 48
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.