Rh5CG188400

At4g26485-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5C
OG0000364
Physical Location & Seq
Forward (+)
18793646 .. 18795657
2012 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5CG188400.1

Sequence Viewer

Length: 741 bp
ATGGAAGTCTTTGGGTTTGAGAAGCGTATCAAGCACTACACCAGCTATCAGACAATACTCTTGGTCAGAGAAGGAGACTTCTCCTTTGCCGTTGCCTTAGCCAGAGCTTTCGGCTCTTCCACCAAGATGATCGCTACTTCTCTCGACACCAGAGAGTCATTGAGGGAGAAGTATTCAAAGGCTATGAGCAATGTGATGGAATTGGAGAACAGGGGATGCAGAGTACTTCATGAAGTGGATGTGCACAGAATGAGCCAACACCCTTTTCTGAGTTGTATTCGGTTTGATCGAATAATCTACAATTTTCCTCATGCCGGTTACTTGCACGGTCAATCATCATCCGAGCACAACCAGTCTCAAATTTGGTTCCATCAGGATTTGGTGAGGGGATTCTTCAAGAATGCGCGTGAAATGCTTACCGAAATAGGAGAAATTCATGTGACACACAAGACAACATATCCTTTCAGTCGATGGGAAATAGTTAAGTTAGCAGAAGAGGATGGGTTGTATTTGCTTCAGGAAGAAAAGTTCTCAAAATGGGATTACCCAGGTTATGAAAATAAGAGAGGAGCTGGGTTATGTGATCAAACTTTTCCTGTTGGAGAATGTAGCACCTTCAAATTTGGGAAGCTATTGTACCATTCTACCCCTTCCAGTTACTACATTGACTTGGTTCGGGCTTACGGTCAGGATTCTCGAAATAACGGTCCTTACATGCACCACTGCCATTCTTTTATATAA
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

246

Amino Acids

28.75

Weight (kDa)

7.24

Isoelectric Point (pI)

55.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
BMT5-like PF10354 20 - 189 2e-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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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) 406
AcsI RAATTY 3 cut(s) 360, 432, 620
AcuI CTGAAG 1 cut(s) 500
AfaI GTAC 2 cut(s) 225, 638
AfiI CCNNNNNNNGG 1 cut(s) 314
AgsI TTSAA 3 cut(s) 177, 397, 619
AjnI CCWGG 1 cut(s) 547
AjuI GAANNNNNNNTTGG 2 cut(s) 249, 281
AloI GAACNNNNNNTCC 2 cut(s) 512, 544
AluBI AGCT 4 cut(s) 45, 107, 572, 631
AluI AGCT 4 cut(s) 45, 107, 572, 631
Alw21I GWGCWC 2 cut(s) 246, 348
Alw26I GTCTC 2 cut(s) 69, 360
Alw44I GTGCAC 1 cut(s) 242
ApaLI GTGCAC 1 cut(s) 242
ApoI RAATTY 3 cut(s) 360, 432, 620
ArsI GACNNNNNNTTYG 4 cut(s) 68, 100, 691, 723
AspLEI GCGC 1 cut(s) 406
AspS9I GGNCC 1 cut(s) 707
AsuHPI GGTGA 1 cut(s) 394
AvaII GGWCC 1 cut(s) 707
BaeGI GKGCMC 1 cut(s) 246
BarI GAAGNNNNNNTAC 2 cut(s) 620, 652
Bbv12I GWGCWC 2 cut(s) 246, 348
BccI CCATC 4 cut(s) 190, 378, 465, 494
BceAI ACGGC 1 cut(s) 74
BciT130I CCWGG 1 cut(s) 549
BclI TGATCA 1 cut(s) 583
BcoDI GTCTC 2 cut(s) 69, 360
BmcAI AGTACT 1 cut(s) 225
Bme1390I CCNGG 1 cut(s) 549
Bme18I GGWCC 1 cut(s) 707
BmgT120I GGNCC 1 cut(s) 707
BmiI GGNNCC 1 cut(s) 368
BmrFI CCNGG 1 cut(s) 549
BmsI GCATC 1 cut(s) 206
Bpu10I CCTNAGC 1 cut(s) 97
BsaJI CCNNGG 1 cut(s) 547
Bsc4I CCNNNNNNNGG 1 cut(s) 314
Bse118I RCCGGY 1 cut(s) 314
Bse1I ACTGG 2 cut(s) 352, 654
Bse3DI GCAATG 1 cut(s) 196
BseBI CCWGG 1 cut(s) 549
BseDI CCNNGG 1 cut(s) 547
BseGI GGATG 4 cut(s) 221, 244, 338, 505
BseLI CCNNNNNNNGG 1 cut(s) 314
BseMI GCAATG 1 cut(s) 196
BseMII CTCAG 1 cut(s) 260
BseNI ACTGG 2 cut(s) 352, 654
BseRI GAGGAG 1 cut(s) 582
BseSI GKGCMC 1 cut(s) 246
BseYI CCCAGC 1 cut(s) 572
Bsh1236I CGCG 1 cut(s) 406
BsiHKAI GWGCWC 2 cut(s) 246, 348
BsiSI CCGG 1 cut(s) 315
BslI CCNNNNNNNGG 1 cut(s) 314
BsmAI GTCTC 2 cut(s) 69, 360
BsmI GAATGC 1 cut(s) 406
Bsp1286I GDGCHC 2 cut(s) 246, 348
Bsp143I GATC 3 cut(s) 129, 286, 583
BspCNI CTCAG 1 cut(s) 261
BspFNI CGCG 1 cut(s) 406
BspHI TCATGA 1 cut(s) 229
BspLI GGNNCC 1 cut(s) 368
BspQI GCTCTTC 1 cut(s) 121
BsrDI GCAATG 1 cut(s) 196
BsrFI RCCGGY 1 cut(s) 314
BsrI ACTGG 2 cut(s) 352, 654
BssAI RCCGGY 1 cut(s) 314
BssECI CCNNGG 1 cut(s) 547
BssMI GATC 3 cut(s) 129, 286, 583
Bst2UI CCWGG 1 cut(s) 549
Bst4CI ACNGT 3 cut(s) 329, 686, 707
Bst6I CTCTTC 2 cut(s) 121, 489
BstDEI CTNAG 2 cut(s) 97, 269
BstF5I GGATG 4 cut(s) 221, 244, 338, 505
BstFNI CGCG 1 cut(s) 406
BstHHI GCGC 1 cut(s) 406
BstKTI GATC 3 cut(s) 132, 289, 586
BstMAI GTCTC 2 cut(s) 69, 360
BstMBI GATC 3 cut(s) 129, 286, 583
BstMWI GCNNNNNNNGC 2 cut(s) 31, 412
BstNI CCWGG 1 cut(s) 549
BstNSI RCATGY 1 cut(s) 718
BstSCI CCNGG 1 cut(s) 547
BstSLI GKGCMC 1 cut(s) 246
BstUI CGCG 1 cut(s) 406
BtsCI GGATG 4 cut(s) 221, 244, 338, 505
BtsI GCAGTG 1 cut(s) 721
BtsIMutI CAGTG 1 cut(s) 721
CciI TCATGA 1 cut(s) 229
CfoI GCGC 1 cut(s) 406
Cfr10I RCCGGY 1 cut(s) 314
Cfr13I GGNCC 1 cut(s) 707
Csp6I GTAC 2 cut(s) 224, 637
CviAII CATG 4 cut(s) 230, 311, 437, 715
CviJI RGCY 9 cut(s) 45, 101, 107, 114, 182, 255, 572, 631, 680
CviKI_1 RGCY 9 cut(s) 45, 101, 107, 114, 182, 255, 572, 631, 680
CviQI GTAC 2 cut(s) 224, 637
DdeI CTNAG 2 cut(s) 97, 269
DpnI GATC 3 cut(s) 131, 288, 585
DpnII GATC 3 cut(s) 129, 286, 583
Eam1104I CTCTTC 2 cut(s) 121, 489
EarI CTCTTC 2 cut(s) 121, 489
Eco47I GGWCC 1 cut(s) 707
Eco57I CTGAAG 1 cut(s) 500
EcoRII CCWGG 1 cut(s) 547
FaeI CATG 4 cut(s) 233, 314, 440, 718
FatI CATG 4 cut(s) 229, 310, 436, 714
FbaI TGATCA 1 cut(s) 583
FokI GGATG 4 cut(s) 228, 251, 325, 512
GlaI GCGC 1 cut(s) 405
GsaI CCCAGC 1 cut(s) 576
HapII CCGG 1 cut(s) 315
HhaI GCGC 1 cut(s) 406
Hin1II CATG 4 cut(s) 233, 314, 440, 718
Hin6I GCGC 1 cut(s) 404
HinP1I GCGC 1 cut(s) 404
HinfI GANTC 3 cut(s) 155, 390, 692
HpaII CCGG 1 cut(s) 315
HphI GGTGA 1 cut(s) 394
Hpy166II GTNNAC 1 cut(s) 244
Hpy188I TCNGA 4 cut(s) 51, 68, 270, 343
Hpy188III TCNNGA 7 cut(s) 143, 230, 374, 397, 518, 689, 696
Hpy8I GTNNAC 1 cut(s) 244
HpyAV CCTTC 3 cut(s) 65, 625, 660
HpyCH4III ACNGT 3 cut(s) 329, 686, 707
HpyCH4V TGCA 4 cut(s) 219, 244, 325, 718
HpyF10VI GCNNNNNNNGC 2 cut(s) 31, 412
HpyF3I CTNAG 2 cut(s) 97, 269
Hsp92II CATG 4 cut(s) 233, 314, 440, 718
HspAI GCGC 1 cut(s) 404
Ksp22I TGATCA 1 cut(s) 583
Kzo9I GATC 3 cut(s) 129, 286, 583
LguI GCTCTTC 1 cut(s) 121
LmnI GCTCC 1 cut(s) 569
LweI GCATC 1 cut(s) 206
MaeIII GTNAC 3 cut(s) 317, 439, 656
MalI GATC 3 cut(s) 131, 288, 585
MboI GATC 3 cut(s) 129, 286, 583
MboII GAAGA 4 cut(s) 108, 385, 506, 533
MhlI GDGCHC 2 cut(s) 246, 348
MluCI AATT 5 cut(s) 200, 301, 360, 432, 620
MlyI GAGTC 1 cut(s) 164
MmeI TCCRAC 1 cut(s) 580
MnlI CCTC 5 cut(s) 156, 318, 378, 490, 560
MseI TTAA 1 cut(s) 483
MslI CAYNNNNRTG 1 cut(s) 125
MspI CCGG 1 cut(s) 315
MspR9I CCNGG 1 cut(s) 549
Mva1269I GAATGC 1 cut(s) 406
MvaI CCWGG 1 cut(s) 549
MvnI CGCG 1 cut(s) 406
MwoI GCNNNNNNNGC 2 cut(s) 31, 412
NdeII GATC 3 cut(s) 129, 286, 583
NlaIII CATG 4 cut(s) 233, 314, 440, 718
NlaIV GGNNCC 1 cut(s) 368
NmuCI GTSAC 1 cut(s) 439
NspI RCATGY 1 cut(s) 718
PagI TCATGA 1 cut(s) 229
PciSI GCTCTTC 1 cut(s) 121
PcsI WCGNNNNNNNCGW 1 cut(s) 286
PctI GAATGC 1 cut(s) 406
PfeI GAWTC 2 cut(s) 390, 692
PleI GAGTC 1 cut(s) 163
PpsI GAGTC 1 cut(s) 163
Psp6I CCWGG 1 cut(s) 547
PspFI CCCAGC 1 cut(s) 572
PspGI CCWGG 1 cut(s) 547
PspN4I GGNNCC 1 cut(s) 368
PspPI GGNCC 1 cut(s) 707
RsaI GTAC 2 cut(s) 225, 638
RsaNI GTAC 2 cut(s) 224, 637
RseI CAYNNNNRTG 1 cut(s) 125
SapI GCTCTTC 1 cut(s) 121
SaqAI TTAA 1 cut(s) 483
Sau3AI GATC 3 cut(s) 129, 286, 583
Sau96I GGNCC 1 cut(s) 707
ScaI AGTACT 1 cut(s) 225
SchI GAGTC 1 cut(s) 164
ScrFI CCNGG 1 cut(s) 549
SduI GDGCHC 2 cut(s) 246, 348
SetI ASST 6 cut(s) 47, 109, 553, 574, 617, 633
SfaNI GCATC 1 cut(s) 206
SinI GGWCC 1 cut(s) 707
SmiMI CAYNNNNRTG 1 cut(s) 125
Sse9I AATT 5 cut(s) 200, 301, 360, 432, 620
StyD4I CCNGG 1 cut(s) 547
TaaI ACNGT 3 cut(s) 329, 686, 707
TaqI TCGA 4 cut(s) 144, 289, 469, 697
TasI AATT 5 cut(s) 200, 301, 360, 432, 620
TatI WGTACW 1 cut(s) 223
TfiI GAWTC 2 cut(s) 390, 692
Tru1I TTAA 1 cut(s) 483
Tru9I TTAA 1 cut(s) 483
TscAI CASTG 1 cut(s) 728
TseFI GTSAC 1 cut(s) 439
Tsp45I GTSAC 1 cut(s) 439
TspDTI ATGAA 4 cut(s) 218, 246, 425, 570
TspRI CASTG 1 cut(s) 728
VneI GTGCAC 1 cut(s) 242
VpaK11BI GGWCC 1 cut(s) 707
XapI RAATTY 3 cut(s) 360, 432, 620
XceI RCATGY 1 cut(s) 718
ZrmI AGTACT 1 cut(s) 225
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.