Rh5AG001900

Domain of unknown function (DUF2431)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0016278
Physical Location & Seq
Reverse (-)
184756 .. 185640
885 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG001900.1

Sequence Viewer

Length: 726 bp
ATGGGAAGAGAAGACGAAGAAGAAGAAGAAGAATACCAACAAGAAAGGGAAACTGATGATGATGATGATGAATCTTCAGCTTCAGAGGAAGAGGAAGAATCAGAATCGGAAGAGAAATGGAGAAAGCACTACTCATCCAGGCATAGGATATTGTTGGTCGGAGAAGGAGACTTCTCCTTCTCTGTGTCTTTAGCCACACACTTCGGATCAGCGCGCAACATGGTCGCCACCTCTCTCGATTCCCAGGAGAAGATATGTAGCAAGTACAGTAACGCAATAGCGAATGTGAGGGAGCTTGAAGAAAGGGGATGCTTAGTGCTCTACGGAGTTGACGCCAAGACCATGAGTCAACACTACTTCCTCAGCACTCAGAGGTTCGACAGAATTGTCTACAACTTCCCTCATGTCGGCTTTCTCTTCCGGGAGGATAGCTACTGCCAGATCCAGTTGAACAAGAGATTGGTCAAGGGTTTTCTCAGGAATGCTAAACTTCTTTTGAAAAAAGAGGGAGGGCAGATTCATATCTCTCACAAAGAAGGCCATCCTTACAACAAATGGGATTTAGTGAAGAAAGCACACAAGATTGGAGGACTCGTTCTGACCCAATCTGTGCCCTTCTGCAAGGATGACTATCCTGGATATGACAACAAGAGAGCCCATGGTACCCTTTCCGATGCCTCTTTCCACCTTGGGGATTGCACTACTTACATGTTTAGCCTTGCTTAG
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

241

Amino Acids

27.78

Weight (kDa)

5.4

Isoelectric Point (pI)

59.71

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
BMT5-like PF10354 51 - 218 3.9e-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: OG0016278)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g00200
malus_domestica MD10G1341000.v1.1
prunus_persica Prupe.4G002200_v2.0.a1
pyrus_communis pycom10g29060
rosa_chinensis RchiOBHm_Chr5g0000261
rosa_laevigata RLG00000030854
rosa_multiflora Rmu_sc0043092.1_g000001 Rmu_ssc0000385.1_g000003
rosa_roxburghii Rroxscaffold_1G00075840
rosa_rugosa Rorug04G0382900
rosa_samantha Rh5AG001900 Rh5BG003300 Rh5CG002200 Rh5DG002200
rosa_wichuraiana Rw5G000240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 386
Acc65I GGTACC 1 cut(s) 662
AccB1I GGYRCC 1 cut(s) 662
AccI GTMKAC 1 cut(s) 390
AccII CGCG 1 cut(s) 214
AclWI GGATC 2 cut(s) 214, 436
AcuI CTGAAG 2 cut(s) 60, 66
AcyI GRCGYC 1 cut(s) 333
AfaI GTAC 2 cut(s) 266, 664
AfiI CCNNNNNNNGG 3 cut(s) 144, 407, 691
AflIII ACRYGT 1 cut(s) 708
AgsI TTSAA 3 cut(s) 299, 451, 499
AhdI GACNNNNNGTC 1 cut(s) 345
AjnI CCWGG 3 cut(s) 137, 243, 634
AjuI GAANNNNNNNTTGG 2 cut(s) 443, 475
AloI GAACNNNNNNTCC 2 cut(s) 579, 611
AluBI AGCT 3 cut(s) 80, 295, 432
AluI AGCT 3 cut(s) 80, 295, 432
Alw21I GWGCWC 1 cut(s) 321
Alw26I GTCTC 1 cut(s) 162
AlwI GGATC 2 cut(s) 214, 436
AoxI GGCC 1 cut(s) 538
Asp718I GGTACC 1 cut(s) 662
AspLEI GCGC 2 cut(s) 214, 216
AsuC2I CCSGG 1 cut(s) 422
BaeGI GKGCMC 1 cut(s) 615
BanI GGYRCC 1 cut(s) 662
BanII GRGCYC 1 cut(s) 658
BbsI GAAGAC 1 cut(s) 18
Bbv12I GWGCWC 1 cut(s) 321
BbvCI CCTCAGC 1 cut(s) 362
BccI CCATC 1 cut(s) 549
BcgI CGANNNNNNTGC 2 cut(s) 205, 239
BciT130I CCWGG 3 cut(s) 139, 245, 636
BcnI CCSGG 1 cut(s) 422
BcoDI GTCTC 1 cut(s) 162
Bme1390I CCNGG 4 cut(s) 139, 245, 422, 636
BmeRI GACNNNNNGTC 1 cut(s) 345
BmiI GGNNCC 1 cut(s) 664
BmrFI CCNGG 4 cut(s) 139, 245, 422, 636
BmsI GCATC 2 cut(s) 299, 664
BpiI GAAGAC 1 cut(s) 18
Bpu10I CCTNAGC 1 cut(s) 362
BpuMI CCSGG 1 cut(s) 422
BsaBI GATNNNNATC 2 cut(s) 521, 630
BsaHI GRCGYC 1 cut(s) 333
BsaJI CCNNGG 3 cut(s) 243, 658, 688
BsaXI ACNNNNNCTCC 2 cut(s) 579, 609
Bsc4I CCNNNNNNNGG 3 cut(s) 144, 407, 691
Bse1I ACTGG 1 cut(s) 445
Bse8I GATNNNNATC 2 cut(s) 521, 630
BseBI CCWGG 3 cut(s) 139, 245, 636
BseDI CCNNGG 3 cut(s) 243, 658, 688
BseGI GGATG 4 cut(s) 134, 314, 541, 631
BseJI GATNNNNATC 2 cut(s) 521, 630
BseLI CCNNNNNNNGG 3 cut(s) 144, 407, 691
BseMII CTCAG 3 cut(s) 376, 383, 490
BseNI ACTGG 1 cut(s) 445
BsePI GCGCGC 1 cut(s) 212
BseSI GKGCMC 1 cut(s) 615
Bsh1236I CGCG 1 cut(s) 214
BshFI GGCC 1 cut(s) 540
BshNI GGYRCC 1 cut(s) 662
BsiHKAI GWGCWC 1 cut(s) 321
BsiSI CCGG 1 cut(s) 421
BslI CCNNNNNNNGG 3 cut(s) 144, 407, 691
BsmAI GTCTC 1 cut(s) 162
BsmI GAATGC 1 cut(s) 487
BsnI GGCC 1 cut(s) 540
Bsp1286I GDGCHC 3 cut(s) 321, 615, 658
Bsp143I GATC 2 cut(s) 206, 441
Bsp19I CCATGG 1 cut(s) 658
BspANI GGCC 1 cut(s) 540
BspCNI CTCAG 3 cut(s) 375, 382, 489
BspFNI CGCG 1 cut(s) 214
BspLI GGNNCC 1 cut(s) 664
BspPI GGATC 2 cut(s) 214, 436
BspT107I GGYRCC 1 cut(s) 662
BsrI ACTGG 1 cut(s) 445
BssECI CCNNGG 3 cut(s) 243, 658, 688
BssHII GCGCGC 1 cut(s) 212
BssMI GATC 2 cut(s) 206, 441
BssNI GRCGYC 1 cut(s) 333
BssT1I CCWWGG 2 cut(s) 658, 688
Bst2UI CCWGG 3 cut(s) 139, 245, 636
Bst4CI ACNGT 1 cut(s) 269
Bst6I CTCTTC 3 cut(s) 84, 105, 422
BstACI GRCGYC 1 cut(s) 333
BstC8I GCNNGC 1 cut(s) 214
BstDEI CTNAG 5 cut(s) 313, 362, 369, 476, 723
BstDSI CCRYGG 1 cut(s) 658
BstF5I GGATG 4 cut(s) 134, 314, 541, 631
BstFNI CGCG 1 cut(s) 214
BstHHI GCGC 2 cut(s) 214, 216
BstKTI GATC 2 cut(s) 209, 444
BstMAI GTCTC 1 cut(s) 162
BstMBI GATC 2 cut(s) 206, 441
BstNI CCWGG 3 cut(s) 139, 245, 636
BstNSI RCATGY 1 cut(s) 712
BstSCI CCNGG 4 cut(s) 137, 243, 420, 634
BstSLI GKGCMC 1 cut(s) 615
BstUI CGCG 1 cut(s) 214
BstV2I GAAGAC 1 cut(s) 18
BstX2I RGATCY 1 cut(s) 441
BstYI RGATCY 1 cut(s) 441
BsuRI GGCC 1 cut(s) 540
BtgI CCRYGG 1 cut(s) 658
BtsCI GGATG 4 cut(s) 134, 314, 541, 631
Cac8I GCNNGC 1 cut(s) 214
CfoI GCGC 2 cut(s) 214, 216
CseI GACGC 1 cut(s) 341
Csp6I GTAC 2 cut(s) 265, 663
CviAII CATG 5 cut(s) 220, 343, 404, 659, 709
CviJI RGCY 8 cut(s) 80, 194, 295, 411, 432, 540, 656, 717
CviKI_1 RGCY 8 cut(s) 80, 194, 295, 411, 432, 540, 656, 717
CviQI GTAC 2 cut(s) 265, 663
DdeI CTNAG 5 cut(s) 313, 362, 369, 476, 723
DpnI GATC 2 cut(s) 208, 443
DpnII GATC 2 cut(s) 206, 441
DrdI GACNNNNNNGTC 1 cut(s) 386
DriI GACNNNNNGTC 1 cut(s) 345
DseDI GACNNNNNNGTC 1 cut(s) 386
Eam1104I CTCTTC 3 cut(s) 84, 105, 422
Eam1105I GACNNNNNGTC 1 cut(s) 345
EarI CTCTTC 3 cut(s) 84, 105, 422
Eco130I CCWWGG 2 cut(s) 658, 688
Eco24I GRGCYC 1 cut(s) 658
Eco57I CTGAAG 2 cut(s) 60, 66
EcoRII CCWGG 3 cut(s) 137, 243, 634
EcoT14I CCWWGG 2 cut(s) 658, 688
EcoT38I GRGCYC 1 cut(s) 658
ErhI CCWWGG 2 cut(s) 658, 688
FaeI CATG 5 cut(s) 223, 346, 407, 662, 712
FaiI YATR 9 cut(s) 144, 221, 256, 344, 405, 522, 642, 660, 710
FatI CATG 5 cut(s) 219, 342, 403, 658, 708
FblI GTMKAC 1 cut(s) 390
FokI GGATG 4 cut(s) 121, 321, 528, 638
FriOI GRGCYC 1 cut(s) 658
GlaI GCGC 2 cut(s) 213, 215
HaeIII GGCC 1 cut(s) 540
HapII CCGG 1 cut(s) 421
HgaI GACGC 1 cut(s) 341
HhaI GCGC 2 cut(s) 214, 216
Hin1I GRCGYC 1 cut(s) 333
Hin1II CATG 5 cut(s) 223, 346, 407, 662, 712
Hin6I GCGC 2 cut(s) 212, 214
HinP1I GCGC 2 cut(s) 212, 214
HincII GTYRAC 2 cut(s) 331, 350
HindII GTYRAC 2 cut(s) 331, 350
HinfI GANTC 7 cut(s) 71, 98, 104, 239, 346, 517, 591
HpaII CCGG 1 cut(s) 421
Hpy166II GTNNAC 3 cut(s) 331, 350, 391
Hpy188I TCNGA 8 cut(s) 85, 103, 109, 161, 206, 372, 600, 673
Hpy188III TCNNGA 2 cut(s) 236, 478
Hpy8I GTNNAC 3 cut(s) 331, 350, 391
HpyAV CCTTC 4 cut(s) 158, 187, 530, 625
HpyCH4III ACNGT 1 cut(s) 269
HpyCH4V TGCA 2 cut(s) 621, 699
HpyF3I CTNAG 5 cut(s) 313, 362, 369, 476, 723
Hsp92I GRCGYC 1 cut(s) 333
Hsp92II CATG 5 cut(s) 223, 346, 407, 662, 712
HspAI GCGC 2 cut(s) 212, 214
KpnI GGTACC 1 cut(s) 666
Kzo9I GATC 2 cut(s) 206, 441
LmnI GCTCC 1 cut(s) 292
LweI GCATC 2 cut(s) 299, 664
MaeIII GTNAC 1 cut(s) 269
MalI GATC 2 cut(s) 208, 443
MboI GATC 2 cut(s) 206, 441
MflI RGATCY 1 cut(s) 441
MhlI GDGCHC 3 cut(s) 321, 615, 658
MluCI AATT 1 cut(s) 384
MlyI GAGTC 2 cut(s) 355, 585
MmeI TCCRAC 1 cut(s) 139
MspI CCGG 1 cut(s) 421
MspR9I CCNGG 4 cut(s) 139, 245, 422, 636
Mva1269I GAATGC 1 cut(s) 487
MvaI CCWGG 3 cut(s) 139, 245, 636
MvnI CGCG 1 cut(s) 214
NciI CCSGG 1 cut(s) 422
NcoI CCATGG 1 cut(s) 658
NdeII GATC 2 cut(s) 206, 441
NlaIII CATG 5 cut(s) 223, 346, 407, 662, 712
NlaIV GGNNCC 1 cut(s) 664
NspI RCATGY 1 cut(s) 712
PauI GCGCGC 1 cut(s) 212
PciI ACATGT 1 cut(s) 708
PctI GAATGC 1 cut(s) 487
PfeI GAWTC 5 cut(s) 71, 98, 104, 239, 517
PfoI TCCNGGA 2 cut(s) 420, 634
PleI GAGTC 2 cut(s) 354, 585
PpsI GAGTC 2 cut(s) 354, 585
PscI ACATGT 1 cut(s) 708
Psp6I CCWGG 3 cut(s) 137, 243, 634
PspGI CCWGG 3 cut(s) 137, 243, 634
PspN4I GGNNCC 1 cut(s) 664
PsuI RGATCY 1 cut(s) 441
PteI GCGCGC 1 cut(s) 212
RsaI GTAC 2 cut(s) 266, 664
RsaNI GTAC 2 cut(s) 265, 663
Sau3AI GATC 2 cut(s) 206, 441
SchI GAGTC 2 cut(s) 355, 585
ScrFI CCNGG 4 cut(s) 139, 245, 422, 636
SduI GDGCHC 3 cut(s) 321, 615, 658
SetI ASST 6 cut(s) 82, 233, 297, 377, 434, 690
SfaNI GCATC 2 cut(s) 299, 664
Sse9I AATT 1 cut(s) 384
StyD4I CCNGG 4 cut(s) 137, 243, 420, 634
StyI CCWWGG 2 cut(s) 658, 688
TaaI ACNGT 1 cut(s) 269
TaqI TCGA 2 cut(s) 237, 378
TasI AATT 1 cut(s) 384
TatI WGTACW 1 cut(s) 264
TfiI GAWTC 5 cut(s) 71, 98, 104, 239, 517
TspDTI ATGAA 2 cut(s) 84, 509
TspGWI ACGGA 1 cut(s) 339
XceI RCATGY 1 cut(s) 712
XmiI GTMKAC 1 cut(s) 390
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.