Rh5BG003300

Domain of unknown function (DUF2431)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0016278
Physical Location & Seq
Reverse (-)
309773 .. 310649
877 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG003300.1

Sequence Viewer

Length: 717 bp
ATGGGAAGAGAAGACGAAGCAGAAGAATACCAACAAGAAAGGGAAACTGATGATGATGATGATGATGAATCTTCAGCTTCAGAGGAAGAATCAGAATCGGAAGAGAAATGGAGAAAGCACTACTCATCCAGGCATAGGATATTGTTGGTCGGAGAAGGAGACTTCTCCTTCTCTGTGTCTTTAGCCACACACTTCGGATCAGCGCGCAACATGGTCGCCACCTCTCTCGATTCCCAGGAGAAGATATGTAGCAAGTACAGTAACGCAATAGCGAATGTGAGGGAGCTTGAAGAAAAGGGATGCCTAGTGCTCTACGGAGTTGACGCCAAGACCATGAGTCAACACTACTTCCTCAGCACTCAGAGGTTCGACAGAATTGTCTACAACTTCCCTCATGTCGGCTTTCTCTTCCGGGAGGAAAGCTACTGCCAGATCCAGTTGAACAAGAGATTGGTCAAGGGTTTTCTCAGGAATGCTAAACTTCTTTTGAAAAAAGAGGGAGGGGAGATTCATATCTCTCACAAAGAAGGCCATCCTTACGACAAATGGGATTTAGTGAAGAAAGCACGCAAGATTGGAGGACTGGTTCTGACCCAATCTGTGCCCTTCTGCAAGGATGACTATCCTGGATATGACAACAAGAGAGCCCACGGTACCTTTTCCGATGCCTCTTTCCACCTTGGGGATTGCACTACTTACATGTTTAGCCTTGCTTAA
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

238

Amino Acids

27.37

Weight (kDa)

5.6

Isoelectric Point (pI)

52.69

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
BMT5-like PF10354 48 - 215 1.3e-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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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) 377
Acc65I GGTACC 1 cut(s) 653
AccB1I GGYRCC 1 cut(s) 653
AccI GTMKAC 1 cut(s) 381
AccII CGCG 1 cut(s) 205
AclWI GGATC 2 cut(s) 205, 427
AcuI CTGAAG 2 cut(s) 57, 63
AcyI GRCGYC 1 cut(s) 324
AfaI GTAC 2 cut(s) 257, 655
AfiI CCNNNNNNNGG 3 cut(s) 135, 398, 682
AflIII ACRYGT 1 cut(s) 699
AgsI TTSAA 3 cut(s) 290, 442, 490
AhdI GACNNNNNGTC 1 cut(s) 336
AjnI CCWGG 3 cut(s) 128, 234, 625
AjuI GAANNNNNNNTTGG 2 cut(s) 434, 466
AloI GAACNNNNNNTCC 2 cut(s) 570, 602
AluBI AGCT 3 cut(s) 77, 286, 423
AluI AGCT 3 cut(s) 77, 286, 423
Alw21I GWGCWC 1 cut(s) 312
Alw26I GTCTC 1 cut(s) 153
AlwI GGATC 2 cut(s) 205, 427
AoxI GGCC 1 cut(s) 529
Asp718I GGTACC 1 cut(s) 653
AspLEI GCGC 2 cut(s) 205, 207
AsuC2I CCSGG 1 cut(s) 413
BaeGI GKGCMC 1 cut(s) 606
BanI GGYRCC 1 cut(s) 653
BanII GRGCYC 1 cut(s) 649
BbsI GAAGAC 1 cut(s) 18
Bbv12I GWGCWC 1 cut(s) 312
BbvCI CCTCAGC 1 cut(s) 353
BccI CCATC 1 cut(s) 540
BcgI CGANNNNNNTGC 2 cut(s) 196, 230
BciT130I CCWGG 3 cut(s) 130, 236, 627
BcnI CCSGG 1 cut(s) 413
BcoDI GTCTC 1 cut(s) 153
BfaI CTAG 1 cut(s) 305
Bme1390I CCNGG 4 cut(s) 130, 236, 413, 627
BmeRI GACNNNNNGTC 1 cut(s) 336
BmiI GGNNCC 1 cut(s) 655
BmrFI CCNGG 4 cut(s) 130, 236, 413, 627
BmsI GCATC 2 cut(s) 290, 655
BpiI GAAGAC 1 cut(s) 18
Bpu10I CCTNAGC 1 cut(s) 353
BpuMI CCSGG 1 cut(s) 413
BsaBI GATNNNNATC 2 cut(s) 512, 621
BsaHI GRCGYC 1 cut(s) 324
BsaJI CCNNGG 3 cut(s) 234, 649, 679
BsaXI ACNNNNNCTCC 2 cut(s) 570, 600
Bsc4I CCNNNNNNNGG 3 cut(s) 135, 398, 682
Bse1I ACTGG 2 cut(s) 436, 588
Bse8I GATNNNNATC 2 cut(s) 512, 621
BseBI CCWGG 3 cut(s) 130, 236, 627
BseDI CCNNGG 3 cut(s) 234, 649, 679
BseGI GGATG 4 cut(s) 125, 305, 532, 622
BseJI GATNNNNATC 2 cut(s) 512, 621
BseLI CCNNNNNNNGG 3 cut(s) 135, 398, 682
BseMII CTCAG 3 cut(s) 367, 374, 481
BseNI ACTGG 2 cut(s) 436, 588
BsePI GCGCGC 1 cut(s) 203
BseSI GKGCMC 1 cut(s) 606
Bsh1236I CGCG 1 cut(s) 205
BshFI GGCC 1 cut(s) 531
BshNI GGYRCC 1 cut(s) 653
BsiHKAI GWGCWC 1 cut(s) 312
BsiSI CCGG 1 cut(s) 412
BslI CCNNNNNNNGG 3 cut(s) 135, 398, 682
BsmAI GTCTC 1 cut(s) 153
BsmI GAATGC 1 cut(s) 478
BsnI GGCC 1 cut(s) 531
Bsp1286I GDGCHC 3 cut(s) 312, 606, 649
Bsp143I GATC 2 cut(s) 197, 432
BspANI GGCC 1 cut(s) 531
BspCNI CTCAG 3 cut(s) 366, 373, 480
BspFNI CGCG 1 cut(s) 205
BspLI GGNNCC 1 cut(s) 655
BspPI GGATC 2 cut(s) 205, 427
BspT107I GGYRCC 1 cut(s) 653
BsrI ACTGG 2 cut(s) 436, 588
BssECI CCNNGG 3 cut(s) 234, 649, 679
BssHII GCGCGC 1 cut(s) 203
BssMI GATC 2 cut(s) 197, 432
BssNI GRCGYC 1 cut(s) 324
BssT1I CCWWGG 1 cut(s) 679
Bst2UI CCWGG 3 cut(s) 130, 236, 627
Bst4CI ACNGT 2 cut(s) 260, 653
Bst6I CTCTTC 2 cut(s) 96, 413
BstACI GRCGYC 1 cut(s) 324
BstC8I GCNNGC 2 cut(s) 205, 568
BstDEI CTNAG 3 cut(s) 353, 360, 467
BstDSI CCRYGG 1 cut(s) 649
BstF5I GGATG 4 cut(s) 125, 305, 532, 622
BstFNI CGCG 1 cut(s) 205
BstHHI GCGC 2 cut(s) 205, 207
BstKTI GATC 2 cut(s) 200, 435
BstMAI GTCTC 1 cut(s) 153
BstMBI GATC 2 cut(s) 197, 432
BstNI CCWGG 3 cut(s) 130, 236, 627
BstNSI RCATGY 1 cut(s) 703
BstSCI CCNGG 4 cut(s) 128, 234, 411, 625
BstSLI GKGCMC 1 cut(s) 606
BstUI CGCG 1 cut(s) 205
BstV2I GAAGAC 1 cut(s) 18
BstX2I RGATCY 1 cut(s) 432
BstYI RGATCY 1 cut(s) 432
BsuRI GGCC 1 cut(s) 531
BtgI CCRYGG 1 cut(s) 649
BtsCI GGATG 4 cut(s) 125, 305, 532, 622
Cac8I GCNNGC 2 cut(s) 205, 568
CfoI GCGC 2 cut(s) 205, 207
CseI GACGC 1 cut(s) 332
Csp6I GTAC 2 cut(s) 256, 654
CviAII CATG 4 cut(s) 211, 334, 395, 700
CviJI RGCY 8 cut(s) 77, 185, 286, 402, 423, 531, 647, 708
CviKI_1 RGCY 8 cut(s) 77, 185, 286, 402, 423, 531, 647, 708
CviQI GTAC 2 cut(s) 256, 654
DdeI CTNAG 3 cut(s) 353, 360, 467
DpnI GATC 2 cut(s) 199, 434
DpnII GATC 2 cut(s) 197, 432
DrdI GACNNNNNNGTC 1 cut(s) 377
DriI GACNNNNNGTC 1 cut(s) 336
DseDI GACNNNNNNGTC 1 cut(s) 377
Eam1104I CTCTTC 2 cut(s) 96, 413
Eam1105I GACNNNNNGTC 1 cut(s) 336
EarI CTCTTC 2 cut(s) 96, 413
Eco130I CCWWGG 1 cut(s) 679
Eco24I GRGCYC 1 cut(s) 649
Eco57I CTGAAG 2 cut(s) 57, 63
EcoRII CCWGG 3 cut(s) 128, 234, 625
EcoT14I CCWWGG 1 cut(s) 679
EcoT38I GRGCYC 1 cut(s) 649
ErhI CCWWGG 1 cut(s) 679
FaeI CATG 4 cut(s) 214, 337, 398, 703
FaiI YATR 8 cut(s) 135, 212, 247, 335, 396, 513, 633, 701
FatI CATG 4 cut(s) 210, 333, 394, 699
FblI GTMKAC 1 cut(s) 381
FokI GGATG 4 cut(s) 112, 312, 519, 629
FriOI GRGCYC 1 cut(s) 649
FspBI CTAG 1 cut(s) 305
GlaI GCGC 2 cut(s) 204, 206
HaeIII GGCC 1 cut(s) 531
HapII CCGG 1 cut(s) 412
HgaI GACGC 1 cut(s) 332
HhaI GCGC 2 cut(s) 205, 207
Hin1I GRCGYC 1 cut(s) 324
Hin1II CATG 4 cut(s) 214, 337, 398, 703
Hin6I GCGC 2 cut(s) 203, 205
HinP1I GCGC 2 cut(s) 203, 205
HincII GTYRAC 2 cut(s) 322, 341
HindII GTYRAC 2 cut(s) 322, 341
HinfI GANTC 6 cut(s) 68, 89, 95, 230, 337, 508
HpaII CCGG 1 cut(s) 412
Hpy166II GTNNAC 3 cut(s) 322, 341, 382
Hpy188I TCNGA 8 cut(s) 82, 94, 100, 152, 197, 363, 591, 664
Hpy188III TCNNGA 2 cut(s) 227, 469
Hpy8I GTNNAC 3 cut(s) 322, 341, 382
HpyAV CCTTC 4 cut(s) 149, 178, 521, 616
HpyCH4III ACNGT 2 cut(s) 260, 653
HpyCH4V TGCA 2 cut(s) 612, 690
HpyF3I CTNAG 3 cut(s) 353, 360, 467
Hsp92I GRCGYC 1 cut(s) 324
Hsp92II CATG 4 cut(s) 214, 337, 398, 703
HspAI GCGC 2 cut(s) 203, 205
KpnI GGTACC 1 cut(s) 657
Kzo9I GATC 2 cut(s) 197, 432
LmnI GCTCC 1 cut(s) 283
LweI GCATC 2 cut(s) 290, 655
MaeI CTAG 1 cut(s) 305
MaeIII GTNAC 1 cut(s) 260
MalI GATC 2 cut(s) 199, 434
MboI GATC 2 cut(s) 197, 432
MflI RGATCY 1 cut(s) 432
MhlI GDGCHC 3 cut(s) 312, 606, 649
MluCI AATT 1 cut(s) 375
MlyI GAGTC 1 cut(s) 346
MmeI TCCRAC 1 cut(s) 130
MseI TTAA 1 cut(s) 715
MspI CCGG 1 cut(s) 412
MspR9I CCNGG 4 cut(s) 130, 236, 413, 627
Mva1269I GAATGC 1 cut(s) 478
MvaI CCWGG 3 cut(s) 130, 236, 627
MvnI CGCG 1 cut(s) 205
NciI CCSGG 1 cut(s) 413
NdeII GATC 2 cut(s) 197, 432
NlaIII CATG 4 cut(s) 214, 337, 398, 703
NlaIV GGNNCC 1 cut(s) 655
NspI RCATGY 1 cut(s) 703
PauI GCGCGC 1 cut(s) 203
PciI ACATGT 1 cut(s) 699
PctI GAATGC 1 cut(s) 478
PfeI GAWTC 5 cut(s) 68, 89, 95, 230, 508
PfoI TCCNGGA 2 cut(s) 411, 625
PleI GAGTC 1 cut(s) 345
PpsI GAGTC 1 cut(s) 345
PscI ACATGT 1 cut(s) 699
Psp6I CCWGG 3 cut(s) 128, 234, 625
PspGI CCWGG 3 cut(s) 128, 234, 625
PspN4I GGNNCC 1 cut(s) 655
PsuI RGATCY 1 cut(s) 432
PteI GCGCGC 1 cut(s) 203
RsaI GTAC 2 cut(s) 257, 655
RsaNI GTAC 2 cut(s) 256, 654
SaqAI TTAA 1 cut(s) 715
Sau3AI GATC 2 cut(s) 197, 432
SchI GAGTC 1 cut(s) 346
ScrFI CCNGG 4 cut(s) 130, 236, 413, 627
SduI GDGCHC 3 cut(s) 312, 606, 649
SetI ASST 7 cut(s) 79, 224, 288, 368, 425, 659, 681
SfaNI GCATC 2 cut(s) 290, 655
Sse9I AATT 1 cut(s) 375
SspMI CTAG 1 cut(s) 305
StyD4I CCNGG 4 cut(s) 128, 234, 411, 625
StyI CCWWGG 1 cut(s) 679
TaaI ACNGT 2 cut(s) 260, 653
TaqI TCGA 2 cut(s) 228, 369
TasI AATT 1 cut(s) 375
TatI WGTACW 1 cut(s) 255
TfiI GAWTC 5 cut(s) 68, 89, 95, 230, 508
Tru1I TTAA 1 cut(s) 715
Tru9I TTAA 1 cut(s) 715
TspDTI ATGAA 2 cut(s) 81, 500
TspGWI ACGGA 1 cut(s) 330
XceI RCATGY 1 cut(s) 703
XmiI GTMKAC 1 cut(s) 381
XspI CTAG 1 cut(s) 305
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.