Rh5DG173500

At4g26485-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0000364
Physical Location & Seq
Forward (+)
18617980 .. 18619338
1359 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG173500.1

Sequence Viewer

Length: 765 bp
ATGGAAGTCTTTGGGTTTGAGAAGCGTATCAAGCACTACACCAACTATCAGAGAATACTCTTGGTCGGAGAAGGGGACTTCTCCTTTGCCGTTTCCTTAGCCAGAGCTTTCGGCTCTTCCACCAAGATGATCGCTACTTCTCTCGACACCAGAGGGGAGCTGATCAAATATTCAAAAGCTATGAGCAATTTGAGGGAGTTGGAGAGCAGAGGATGCCAAATTTTGCATGGGGTGGATGTCAACACCATGCTCCATCACCCTGAACTTATTAACAAACAGTTTGATCGAATAATTTATAACTTTCCTCATGCTGGTTACTTAAAAGGCCGCCGTCATTCATCAGAAAAGAATAAGTCCCAAATTTTGTTGCATCAGAGTTTGGTGAGGGGATACTTCATGAACTCACGGGAGATGCTGACTAAAAATGGAGAAATTCATGTCACACACAAGACATCATATCCTTTTAGTGAGTGGGAAATAGTGGAGTTAGCAGAGGAGGCTGAGTTATTCTTGGTTAAAGAAGAAGAGTTTTACAAACTGGATTATCTGGGATATGAAAACAAGAGAGGAGATGGGATTTGCGATGAGTCATTCCCGGTTGGGAAGTCTAGCACCTTCATCTTCGCCAAGCGGTTGTACCCTAATAGGAGGTTCCACCCAGGTACTTTGAGTATCAGTACATGGCCTGCTGATATAATAGATATGGCTTGCACCTATTTAGATAGCTTGGAGATGAAGAAATCCAACCGCGGCCATAAAGCCTAG
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

254

Amino Acids

29.39

Weight (kDa)

8.6

Isoelectric Point (pI)

45.38

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
BMT5-like PF10354 20 - 189 7e-50 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)
AanI TTATAA 1 cut(s) 297
AccII CGCG 1 cut(s) 750
AciI CCGC 4 cut(s) 328, 631, 748, 750
AcoI YGGCCR 1 cut(s) 751
AcsI RAATTY 3 cut(s) 219, 360, 432
AfaI GTAC 3 cut(s) 638, 664, 679
AfiI CCNNNNNNNGG 1 cut(s) 311
AgsI TTSAA 1 cut(s) 174
AjnI CCWGG 1 cut(s) 658
AluBI AGCT 4 cut(s) 107, 160, 179, 726
AluI AGCT 4 cut(s) 107, 160, 179, 726
AoxI GGCC 3 cut(s) 325, 683, 751
ApoI RAATTY 3 cut(s) 219, 360, 432
ArsI GACNNNNNNTTYG 2 cut(s) 68, 100
AsuC2I CCSGG 1 cut(s) 596
AsuHPI GGTGA 2 cut(s) 248, 394
BccI CCATC 2 cut(s) 261, 566
BceAI ACGGC 2 cut(s) 74, 315
BciT130I CCWGG 1 cut(s) 660
BciVI GTATCC 1 cut(s) 383
BclI TGATCA 1 cut(s) 162
BcnI CCSGG 1 cut(s) 596
BfaI CTAG 2 cut(s) 609, 763
BfuI GTATCC 1 cut(s) 383
BisI GCNGC 2 cut(s) 328, 751
BlsI GCNGC 2 cut(s) 329, 752
Bme1390I CCNGG 2 cut(s) 596, 660
BmiI GGNNCC 1 cut(s) 653
BmrFI CCNGG 2 cut(s) 596, 660
BmsI GCATC 3 cut(s) 203, 379, 402
Bpu10I CCTNAGC 1 cut(s) 97
BpuMI CCSGG 1 cut(s) 596
BsaJI CCNNGG 2 cut(s) 658, 748
BsaXI ACNNNNNCTCC 2 cut(s) 488, 518
Bsc4I CCNNNNNNNGG 1 cut(s) 311
Bse1I ACTGG 1 cut(s) 543
BseBI CCWGG 1 cut(s) 660
BseDI CCNNGG 2 cut(s) 658, 748
BseGI GGATG 2 cut(s) 218, 241
BseLI CCNNNNNNNGG 1 cut(s) 311
BseMII CTCAG 1 cut(s) 492
BseNI ACTGG 1 cut(s) 543
BseRI GAGGAG 2 cut(s) 509, 582
Bsh1236I CGCG 1 cut(s) 750
BshFI GGCC 3 cut(s) 327, 685, 753
BsiSI CCGG 1 cut(s) 596
BslFI GGGAC 2 cut(s) 89, 340
BslI CCNNNNNNNGG 1 cut(s) 311
BsmFI GGGAC 2 cut(s) 89, 340
BsnI GGCC 3 cut(s) 327, 685, 753
Bsp143I GATC 3 cut(s) 129, 162, 283
BspACI CCGC 4 cut(s) 328, 631, 748, 750
BspANI GGCC 3 cut(s) 327, 685, 753
BspCNI CTCAG 1 cut(s) 493
BspFNI CGCG 1 cut(s) 750
BspHI TCATGA 1 cut(s) 396
BspLI GGNNCC 1 cut(s) 653
BspQI GCTCTTC 1 cut(s) 121
BsrI ACTGG 1 cut(s) 543
BssECI CCNNGG 2 cut(s) 658, 748
BssMI GATC 3 cut(s) 129, 162, 283
Bst2UI CCWGG 1 cut(s) 660
Bst4CI ACNGT 1 cut(s) 279
Bst6I CTCTTC 2 cut(s) 121, 519
BstAPI GCANNNNNTGC 1 cut(s) 213
BstC8I GCNNGC 2 cut(s) 687, 709
BstDEI CTNAG 2 cut(s) 97, 501
BstDSI CCRYGG 1 cut(s) 748
BstF5I GGATG 2 cut(s) 218, 241
BstFNI CGCG 1 cut(s) 750
BstKTI GATC 3 cut(s) 132, 165, 286
BstMBI GATC 3 cut(s) 129, 162, 283
BstMWI GCNNNNNNNGC 3 cut(s) 31, 213, 497
BstNI CCWGG 1 cut(s) 660
BstSCI CCNGG 2 cut(s) 594, 658
BstUI CGCG 1 cut(s) 750
BsuI GTATCC 1 cut(s) 383
BsuRI GGCC 3 cut(s) 327, 685, 753
BtgI CCRYGG 1 cut(s) 748
BtgZI GCGATG 1 cut(s) 597
BtsCI GGATG 2 cut(s) 218, 241
Cac8I GCNNGC 2 cut(s) 687, 709
CciI TCATGA 1 cut(s) 396
Cfr42I CCGCGG 1 cut(s) 751
Csp6I GTAC 3 cut(s) 637, 663, 678
CviAII CATG 6 cut(s) 227, 247, 308, 397, 437, 681
CviQI GTAC 3 cut(s) 637, 663, 678
DdeI CTNAG 2 cut(s) 97, 501
DpnI GATC 3 cut(s) 131, 164, 285
DpnII GATC 3 cut(s) 129, 162, 283
EaeI YGGCCR 1 cut(s) 751
Eam1104I CTCTTC 2 cut(s) 121, 519
EarI CTCTTC 2 cut(s) 121, 519
EcoRII CCWGG 1 cut(s) 658
FaeI CATG 6 cut(s) 230, 250, 311, 400, 440, 684
FaqI GGGAC 2 cut(s) 89, 340
FatI CATG 6 cut(s) 226, 246, 307, 396, 436, 680
FbaI TGATCA 1 cut(s) 162
Fnu4HI GCNGC 2 cut(s) 328, 751
FokI GGATG 2 cut(s) 225, 248
Fsp4HI GCNGC 2 cut(s) 328, 751
FspBI CTAG 2 cut(s) 609, 763
GluI GCNGC 2 cut(s) 328, 751
HaeIII GGCC 3 cut(s) 327, 685, 753
HapII CCGG 1 cut(s) 596
Hin1II CATG 6 cut(s) 230, 250, 311, 400, 440, 684
HincII GTYRAC 1 cut(s) 241
HindII GTYRAC 1 cut(s) 241
HinfI GANTC 1 cut(s) 587
HpaII CCGG 1 cut(s) 596
HphI GGTGA 2 cut(s) 248, 394
Hpy166II GTNNAC 1 cut(s) 241
Hpy188I TCNGA 4 cut(s) 51, 68, 343, 375
Hpy188III TCNNGA 2 cut(s) 143, 397
Hpy8I GTNNAC 1 cut(s) 241
HpyAV CCTTC 2 cut(s) 65, 625
HpyCH4III ACNGT 1 cut(s) 279
HpyCH4V TGCA 3 cut(s) 226, 370, 711
HpyF10VI GCNNNNNNNGC 3 cut(s) 31, 213, 497
HpyF3I CTNAG 2 cut(s) 97, 501
Hsp92II CATG 6 cut(s) 230, 250, 311, 400, 440, 684
Ksp22I TGATCA 1 cut(s) 162
KspI CCGCGG 1 cut(s) 751
Kzo9I GATC 3 cut(s) 129, 162, 283
LguI GCTCTTC 1 cut(s) 121
LmnI GCTCC 2 cut(s) 157, 255
LweI GCATC 3 cut(s) 203, 379, 402
MaeI CTAG 2 cut(s) 609, 763
MaeIII GTNAC 2 cut(s) 314, 439
MalI GATC 3 cut(s) 131, 164, 285
MboI GATC 3 cut(s) 129, 162, 283
MboII GAAGA 5 cut(s) 108, 533, 536, 613, 748
MluCI AATT 5 cut(s) 187, 219, 291, 360, 432
MlyI GAGTC 1 cut(s) 596
MmeI TCCRAC 2 cut(s) 46, 180
MnlI CCTC 9 cut(s) 146, 186, 203, 315, 378, 487, 490, 560, 642
MseI TTAA 3 cut(s) 270, 320, 516
MslI CAYNNNNRTG 1 cut(s) 125
MspA1I CMGCKG 1 cut(s) 750
MspI CCGG 1 cut(s) 596
MspR9I CCNGG 2 cut(s) 596, 660
MvaI CCWGG 1 cut(s) 660
MvnI CGCG 1 cut(s) 750
MwoI GCNNNNNNNGC 3 cut(s) 31, 213, 497
NciI CCSGG 1 cut(s) 596
NdeII GATC 3 cut(s) 129, 162, 283
NlaIII CATG 6 cut(s) 230, 250, 311, 400, 440, 684
NlaIV GGNNCC 1 cut(s) 653
NmuCI GTSAC 1 cut(s) 439
PagI TCATGA 1 cut(s) 396
PciSI GCTCTTC 1 cut(s) 121
PkrI GCNGC 2 cut(s) 329, 752
PleI GAGTC 1 cut(s) 595
PpsI GAGTC 1 cut(s) 595
PsiI TTATAA 1 cut(s) 297
Psp6I CCWGG 1 cut(s) 658
PspGI CCWGG 1 cut(s) 658
PspN4I GGNNCC 1 cut(s) 653
RsaI GTAC 3 cut(s) 638, 664, 679
RsaNI GTAC 3 cut(s) 637, 663, 678
RseI CAYNNNNRTG 1 cut(s) 125
SacII CCGCGG 1 cut(s) 751
SapI GCTCTTC 1 cut(s) 121
SaqAI TTAA 3 cut(s) 270, 320, 516
SatI GCNGC 2 cut(s) 328, 751
Sau3AI GATC 3 cut(s) 129, 162, 283
SchI GAGTC 1 cut(s) 596
ScrFI CCNGG 2 cut(s) 596, 660
SetI ASST 8 cut(s) 109, 162, 181, 617, 653, 664, 716, 728
SfaNI GCATC 3 cut(s) 203, 379, 402
Sfr303I CCGCGG 1 cut(s) 751
SgrBI CCGCGG 1 cut(s) 751
SmiMI CAYNNNNRTG 1 cut(s) 125
Sse9I AATT 5 cut(s) 187, 219, 291, 360, 432
SsiI CCGC 4 cut(s) 328, 631, 748, 750
SspI AATATT 1 cut(s) 170
SspMI CTAG 2 cut(s) 609, 763
StyD4I CCNGG 2 cut(s) 594, 658
TaaI ACNGT 1 cut(s) 279
TaqI TCGA 2 cut(s) 144, 286
TasI AATT 5 cut(s) 187, 219, 291, 360, 432
TatI WGTACW 1 cut(s) 677
TauI GCSGC 2 cut(s) 330, 753
Tru1I TTAA 3 cut(s) 270, 320, 516
Tru9I TTAA 3 cut(s) 270, 320, 516
TseFI GTSAC 1 cut(s) 439
Tsp45I GTSAC 1 cut(s) 439
TspDTI ATGAA 7 cut(s) 327, 385, 413, 425, 570, 607, 749
XapI RAATTY 3 cut(s) 219, 360, 432
XcmI CCANNNNNNNNNTGG 1 cut(s) 224
XspI CTAG 2 cut(s) 609, 763
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.