Rh5BG231400

RNA-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0011251
Physical Location & Seq
Reverse (-)
27217709 .. 27222116
4408 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG231400.1

Sequence Viewer

Length: 828 bp
ATGGCTGCCACCAGTTTCGTAGCAGCGTCACTTCTCAGAAGGGCAGCTCTGCCTCTAGGTTTTGCTGTCTCCCTTCCTCTCAAAAACAACAAGCTTTCTCACCAGACCACCCTGCTCACTTTTCCTCTCACTCCTCGTTTGACTTCTTCAGCTTCAGGATTATGCCACTTAGCTCAAGCTGTAAAGGGGGATGTTGCTGAGTTACTTAAAGGTGTGGGAGACAAAACAGTTATTGAAGAAGTAAAGCGTATTCTTGAGATGGCTAGACGTGCATCATCAAGAAGAGAAATTCTCCATACGAATTTTCTCACCCCTCCGGTGATGAAGGAGTCAATGCTAGCATTGACCAAGCTAGCTGATTTGAAAGCAGTTTCTCAGGGTGGATACCCGCAGGCTGAGCGGTGCCGGATTTCTGTTGGACATCCAGAAGTATTGACAAGCGATCCTGATATAATTGCAGCATTGAGTATCACAGGAAACTTTGGGTTCCAACCTTGTTCTCATGGAGACTTTCTAGGAGCAATTCTTGGTACAGGGATTGCTAGGGAGAAGGTCGGAGATGTTATCTTACAGGGAGAGAAGGGGGCTCAAGTCATTATTGTTCCAGAACTCATTGACTTTCTTATGTCATCACTCGACAAGGTTGGCAATGTTCCAGTATCTGTTACTAAAATACCATTGATCTCCATTGATTACGAACCACCAAGTACTAAGTCATTTAAAACCATAGAAGCATCAGCGAGGATCGATGCTATAGCTAGTGCAGGATTTAAGATTTCACGGTCAAAACTAGTTGACCTGATCCGTTCTTTCCACTCTATACAGTGA
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
S4

Protein Analysis

275

Amino Acids

29.41

Weight (kDa)

9.28

Isoelectric Point (pI)

35.41

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
YlmH_RBD PF17774 154 - 227 5.7e-13 Putative RNA-binding domain in YlmH
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: OG0011251)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G53120 AT1G53120
fragaria_vesca FvH4_3g19840
malus_domestica MD11G1248800.v1.1 MD11G1252400.v1.1
prunus_persica Prupe.4G180500_v2.0.a1
pyrus_communis pycom11g22390
rosa_chinensis RchiOBHm_Chr5g0033281
rosa_laevigata RLG00000033463
rosa_multiflora Rmu_sc0009715.1_g000003
rosa_roxburghii Rroxscaffold_1G00015440 Rroxscaffold_1G00046700
rosa_rugosa Rorug05G0139000 Rorug05G0139100 Rorug05G0250800
rosa_samantha Rh5AG230500 Rh5BG231400 Rh5CG259400 Rh5DG236600
rosa_wichuraiana Rw5G021070

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 402
AccBSI CCGCTC 1 cut(s) 400
AciI CCGC 2 cut(s) 389, 400
AclWI GGATC 3 cut(s) 437, 752, 796
AcsI RAATTY 2 cut(s) 288, 301
AcuI CTGAAG 2 cut(s) 132, 138
AfaI GTAC 2 cut(s) 532, 709
AgsI TTSAA 2 cut(s) 236, 364
AhlI ACTAGT 1 cut(s) 790
AjiI CACGTC 1 cut(s) 269
AluBI AGCT 8 cut(s) 47, 94, 152, 173, 179, 352, 356, 758
AluI AGCT 8 cut(s) 47, 94, 152, 173, 179, 352, 356, 758
Alw26I GTCTC 3 cut(s) 73, 213, 501
AlwI GGATC 3 cut(s) 437, 752, 796
AlwNI CAGNNNCTG 1 cut(s) 662
ApeKI GCWGC 4 cut(s) 5, 23, 44, 458
ApoI RAATTY 2 cut(s) 288, 301
AsuHPI GGTGA 3 cut(s) 92, 301, 331
AsuNHI GCTAGC 2 cut(s) 337, 352
BanI GGYRCC 1 cut(s) 402
BanII GRGCYC 1 cut(s) 589
BbvI GCAGC 3 cut(s) 35, 56, 470
BccI CCATC 1 cut(s) 253
BciVI GTATCC 1 cut(s) 377
BcoDI GTCTC 3 cut(s) 73, 213, 501
BcuI ACTAGT 1 cut(s) 790
BfaI CTAG 8 cut(s) 56, 264, 338, 353, 515, 543, 759, 791
BfmI CTRYAG 1 cut(s) 753
BfuI GTATCC 1 cut(s) 377
BisI GCNGC 4 cut(s) 6, 24, 45, 459
BlpI GCTNAGC 1 cut(s) 396
BlsI GCNGC 4 cut(s) 7, 25, 46, 460
BmcAI AGTACT 1 cut(s) 709
BmgBI CACGTC 1 cut(s) 269
BmiI GGNNCC 2 cut(s) 404, 488
BmsI GCATC 3 cut(s) 281, 739, 743
BmtI GCTAGC 2 cut(s) 341, 356
BplI GAGNNNNNCTC 2 cut(s) 276, 308
Bpu1102I GCTNAGC 1 cut(s) 396
BpuEI CTTGAG 3 cut(s) 159, 275, 573
Bsa29I ATCGAT 1 cut(s) 747
BsaWI WCCGGW 1 cut(s) 316
Bse1I ACTGG 2 cut(s) 12, 656
Bse3DI GCAATG 1 cut(s) 655
BseCI ATCGAT 1 cut(s) 747
BseGI GGATG 2 cut(s) 196, 421
BseMI GCAATG 1 cut(s) 655
BseMII CTCAG 4 cut(s) 49, 189, 387, 389
BseNI ACTGG 2 cut(s) 12, 656
BseRI GAGGAG 1 cut(s) 123
BseXI GCAGC 3 cut(s) 35, 56, 470
BsgI GTGCAG 1 cut(s) 783
BshNI GGYRCC 1 cut(s) 402
BshVI ATCGAT 1 cut(s) 747
BsiSI CCGG 2 cut(s) 317, 406
BsmAI GTCTC 3 cut(s) 73, 213, 501
Bsp1286I GDGCHC 1 cut(s) 589
Bsp143I GATC 4 cut(s) 442, 681, 744, 801
Bsp1720I GCTNAGC 1 cut(s) 396
BspACI CCGC 2 cut(s) 389, 400
BspCNI CTCAG 4 cut(s) 48, 190, 388, 388
BspDI ATCGAT 1 cut(s) 747
BspLI GGNNCC 2 cut(s) 404, 488
BspOI GCTAGC 2 cut(s) 341, 356
BspPI GGATC 3 cut(s) 437, 752, 796
BspT107I GGYRCC 1 cut(s) 402
BsrBI CCGCTC 1 cut(s) 400
BsrDI GCAATG 1 cut(s) 655
BsrI ACTGG 2 cut(s) 12, 656
BssMI GATC 4 cut(s) 442, 681, 744, 801
Bst4CI ACNGT 3 cut(s) 229, 783, 825
Bst6I CTCTTC 1 cut(s) 277
BstC8I GCNNGC 3 cut(s) 339, 354, 393
BstDEI CTNAG 6 cut(s) 35, 169, 198, 375, 396, 711
BstF5I GGATG 2 cut(s) 196, 421
BstKTI GATC 4 cut(s) 445, 684, 747, 804
BstMAI GTCTC 3 cut(s) 73, 213, 501
BstMBI GATC 4 cut(s) 442, 681, 744, 801
BstMWI GCNNNNNNNGC 2 cut(s) 269, 397
BstSFI CTRYAG 1 cut(s) 753
BstV1I GCAGC 3 cut(s) 35, 56, 470
Bsu15I ATCGAT 1 cut(s) 747
BsuI GTATCC 1 cut(s) 377
BsuTUI ATCGAT 1 cut(s) 747
BtrI CACGTC 1 cut(s) 269
BtsCI GGATG 2 cut(s) 196, 421
Cac8I GCNNGC 3 cut(s) 339, 354, 393
CaiI CAGNNNCTG 1 cut(s) 662
ClaI ATCGAT 1 cut(s) 747
CseI GACGC 1 cut(s) 15
Csp6I GTAC 2 cut(s) 531, 708
CviAII CATG 1 cut(s) 503
CviQI GTAC 2 cut(s) 531, 708
DdeI CTNAG 6 cut(s) 35, 169, 198, 375, 396, 711
DpnI GATC 4 cut(s) 444, 683, 746, 803
DpnII GATC 4 cut(s) 442, 681, 744, 801
DraI TTTAAA 1 cut(s) 721
Eam1104I CTCTTC 1 cut(s) 277
EarI CTCTTC 1 cut(s) 277
Eco24I GRGCYC 1 cut(s) 589
Eco57I CTGAAG 2 cut(s) 132, 138
EcoT38I GRGCYC 1 cut(s) 589
FaeI CATG 1 cut(s) 506
FaiI YATR 8 cut(s) 163, 297, 452, 504, 626, 728, 755, 821
FatI CATG 1 cut(s) 502
FauI CCCGC 1 cut(s) 396
Fnu4HI GCNGC 4 cut(s) 6, 24, 45, 459
FokI GGATG 2 cut(s) 203, 408
FriOI GRGCYC 1 cut(s) 589
Fsp4HI GCNGC 4 cut(s) 6, 24, 45, 459
FspBI CTAG 8 cut(s) 56, 264, 338, 353, 515, 543, 759, 791
GluI GCNGC 4 cut(s) 6, 24, 45, 459
HapII CCGG 2 cut(s) 317, 406
HgaI GACGC 1 cut(s) 15
Hin1II CATG 1 cut(s) 506
HincII GTYRAC 1 cut(s) 796
HindII GTYRAC 1 cut(s) 796
HindIII AAGCTT 1 cut(s) 92
HinfI GANTC 1 cut(s) 329
HpaII CCGG 2 cut(s) 317, 406
HphI GGTGA 3 cut(s) 92, 301, 331
Hpy166II GTNNAC 1 cut(s) 796
Hpy188I TCNGA 2 cut(s) 38, 557
Hpy188III TCNNGA 6 cut(s) 156, 254, 279, 425, 446, 605
Hpy8I GTNNAC 1 cut(s) 796
HpyAV CCTTC 5 cut(s) 33, 83, 319, 544, 574
HpyCH4III ACNGT 3 cut(s) 229, 783, 825
HpyCH4IV ACGT 1 cut(s) 268
HpyCH4V TGCA 3 cut(s) 272, 458, 764
HpyF10VI GCNNNNNNNGC 2 cut(s) 269, 397
HpyF3I CTNAG 6 cut(s) 35, 169, 198, 375, 396, 711
HpySE526I ACGT 1 cut(s) 268
Hsp92II CATG 1 cut(s) 506
Kzo9I GATC 4 cut(s) 442, 681, 744, 801
LmnI GCTCC 1 cut(s) 518
Lsp1109I GCAGC 3 cut(s) 35, 56, 470
LweI GCATC 3 cut(s) 281, 739, 743
MaeI CTAG 8 cut(s) 56, 264, 338, 353, 515, 543, 759, 791
MaeII ACGT 1 cut(s) 268
MaeIII GTNAC 3 cut(s) 27, 201, 664
MalI GATC 4 cut(s) 444, 683, 746, 803
MbiI CCGCTC 1 cut(s) 400
MboI GATC 4 cut(s) 442, 681, 744, 801
MboII GAAGA 3 cut(s) 138, 248, 294
MhlI GDGCHC 1 cut(s) 589
MluCI AATT 4 cut(s) 288, 301, 453, 522
MlyI GAGTC 1 cut(s) 338
MmeI TCCRAC 3 cut(s) 397, 514, 535
MnlI CCTC 6 cut(s) 63, 87, 135, 144, 324, 735
MseI TTAA 3 cut(s) 207, 720, 771
MspI CCGG 2 cut(s) 317, 406
MwoI GCNNNNNNNGC 2 cut(s) 269, 397
NdeII GATC 4 cut(s) 442, 681, 744, 801
NheI GCTAGC 2 cut(s) 337, 352
NlaIII CATG 1 cut(s) 506
NlaIV GGNNCC 2 cut(s) 404, 488
NmuCI GTSAC 1 cut(s) 27
PkrI GCNGC 4 cut(s) 7, 25, 46, 460
PleI GAGTC 1 cut(s) 337
PpsI GAGTC 1 cut(s) 337
PspN4I GGNNCC 2 cut(s) 404, 488
PstNI CAGNNNCTG 1 cut(s) 662
RsaI GTAC 2 cut(s) 532, 709
RsaNI GTAC 2 cut(s) 531, 708
SaqAI TTAA 3 cut(s) 207, 720, 771
SatI GCNGC 4 cut(s) 6, 24, 45, 459
Sau3AI GATC 4 cut(s) 442, 681, 744, 801
ScaI AGTACT 1 cut(s) 709
SchI GAGTC 1 cut(s) 338
SduI GDGCHC 1 cut(s) 589
SfaNI GCATC 3 cut(s) 281, 739, 743
SfcI CTRYAG 1 cut(s) 753
SmlI CTYRAG 3 cut(s) 174, 254, 588
SmoI CTYRAG 3 cut(s) 174, 254, 588
SpeI ACTAGT 1 cut(s) 790
Sse9I AATT 4 cut(s) 288, 301, 453, 522
SsiI CCGC 2 cut(s) 389, 400
SspMI CTAG 8 cut(s) 56, 264, 338, 353, 515, 543, 759, 791
TaaI ACNGT 3 cut(s) 229, 783, 825
TaiI ACGT 1 cut(s) 271
TaqI TCGA 2 cut(s) 636, 747
TasI AATT 4 cut(s) 288, 301, 453, 522
TatI WGTACW 1 cut(s) 707
Tru1I TTAA 3 cut(s) 207, 720, 771
Tru9I TTAA 3 cut(s) 207, 720, 771
TseFI GTSAC 1 cut(s) 27
TseI GCWGC 4 cut(s) 5, 23, 44, 458
Tsp45I GTSAC 1 cut(s) 27
TspDTI ATGAA 1 cut(s) 338
TspGWI ACGGA 1 cut(s) 794
XapI RAATTY 2 cut(s) 288, 301
XspI CTAG 8 cut(s) 56, 264, 338, 353, 515, 543, 759, 791
ZrmI AGTACT 1 cut(s) 709
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.