Rh3CG056900

Glycine-rich RNA-binding

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3C
OG0013848
Physical Location & Seq
Reverse (-)
3930056 .. 3934881
4826 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3CG056900.1

Sequence Viewer

Length: 678 bp
ATGTCGGAAGAACCCGAGTATCGTTGCTTTATTGGTGGCCTTGCCTGGTCAACGTCTGATAGGAGTCTAAAAGAAGCTTTTGACAAGTATGGGAAGCTTGTTGAAGCCAAGGTTGTTGTTGATAAGTTCTCGGGGCGCTCTCGTGGATTTGGGTTTGTCACTTTTGATGATAAAAAAGCAATGGAAGAGGCAATTGAGGAAATGAATGGAATCGATTTAGATGGGCGAACTATCACTGTTGATAAAGCTCAGCCTCACCAAGGTTCAGGTAGAGATTATGATGGTGACCGCAGCCGTGATCGTGGTGGCCGCGATCGTGACCGTGGTCGTGATTATGGAGGTGGCGGACGTGGATCTGGTGGTGGGGGAGATTGCTTCAAGTGTGGCAAGCCAGGACATTTTGCAAGGGAGTGTCCTAGTGGTGAAGTTTCAAGAGGAGGTGGCGGCAGGTATGGTGGTAGGGATGATAAGTACAGTGGAGGAGGTGGTGGTGGTGGTAGCCGCTATGGAGACCGAAATGGAGGAGGAGGAGGGCCTGATCGAAATGGAGACCGATACAGTGGGCGCAGCAGGGATTCTGGTTCTGGTGGTCGTTCAAGCTCTGGAAGCGATCGTTTCAGTCGTGACCGCTCTGGTCCATATGAGCGTCGGGGGACAGGAGGTTTCCGTTCTGGATAG

Protein Analysis

225

Amino Acids

23.86

Weight (kDa)

9.17

Isoelectric Point (pI)

46.12

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 10 - 79 1.2e-21 RNA recognition motif
zf-CCHC PF00098 125 - 140 1.1e-07 Zinc knuckle
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: OG0013848)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G26420
fragaria_vesca FvH4_6g05361
malus_domestica MD04G1208800.v1.1 MD12G1223200.v1.1
prunus_persica Prupe.6G329800_v2.0.a1 Prupe.6G329800_v2.0.a1
rosa_chinensis RchiOBHm_Chr3g0454141
rosa_laevigata RLG00000025479
rosa_multiflora Rmu_sc0018584.1_g000002
rosa_roxburghii Rroxscaffold_165G00436920
rosa_rugosa Rorug02G0653500 Rorug02G0653500
rosa_samantha Rh3AG056200 Rh3BG057600 Rh3CG056900 Rh3DG058100
rosa_wichuraiana Rw3G004320

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 438
AccBSI CCGCTC 1 cut(s) 630
AccII CGCG 1 cut(s) 312
AciI CCGC 6 cut(s) 289, 310, 345, 444, 502, 628
AclWI GGATC 1 cut(s) 361
AcoI YGGCCR 1 cut(s) 307
AfaI GTAC 1 cut(s) 473
AfiI CCNNNNNNNGG 1 cut(s) 260
AgsI TTSAA 4 cut(s) 104, 379, 432, 597
AjiI CACGTC 1 cut(s) 350
AjnI CCWGG 2 cut(s) 44, 391
AluBI AGCT 4 cut(s) 77, 97, 248, 600
AluI AGCT 4 cut(s) 77, 97, 248, 600
Alw26I GTCTC 2 cut(s) 504, 543
AlwI GGATC 1 cut(s) 361
Ama87I CYCGRG 2 cut(s) 14, 130
AoxI GGCC 3 cut(s) 37, 307, 533
ApeKI GCWGC 2 cut(s) 291, 567
AspLEI GCGC 2 cut(s) 138, 567
AspS9I GGNCC 2 cut(s) 533, 635
AsuHPI GGTGA 3 cut(s) 248, 296, 434
AvaI CYCGRG 2 cut(s) 14, 130
AvaII GGWCC 1 cut(s) 635
BaeI ACNNNNGTAYC 1 cut(s) 35
BauI CACGAG 1 cut(s) 141
BbvI GCAGC 2 cut(s) 303, 579
BccI CCATC 2 cut(s) 215, 275
BceAI ACGGC 1 cut(s) 279
BciT130I CCWGG 2 cut(s) 46, 393
BcoDI GTCTC 2 cut(s) 504, 543
BfaI CTAG 1 cut(s) 417
BfoI RGCGCY 1 cut(s) 139
BfuAI ACCTGC 1 cut(s) 438
BisI GCNGC 5 cut(s) 292, 310, 445, 502, 568
BlpI GCTNAGC 1 cut(s) 249
BlsI GCNGC 5 cut(s) 293, 311, 446, 503, 569
Bme1390I CCNGG 2 cut(s) 46, 393
Bme18I GGWCC 1 cut(s) 635
BmeT110I CYCGRG 2 cut(s) 14, 130
BmgBI CACGTC 1 cut(s) 350
BmgT120I GGNCC 2 cut(s) 533, 635
BmrFI CCNGG 2 cut(s) 46, 393
BoxI GACNNNNGTC 1 cut(s) 324
Bpu1102I GCTNAGC 1 cut(s) 249
Bsa29I ATCGAT 1 cut(s) 213
BsaI GGTCTC 2 cut(s) 504, 543
BsaJI CCNNGG 3 cut(s) 108, 259, 322
Bsc4I CCNNNNNNNGG 1 cut(s) 260
Bse3DI GCAATG 1 cut(s) 186
BseBI CCWGG 2 cut(s) 46, 393
BseCI ATCGAT 1 cut(s) 213
BseDI CCNNGG 3 cut(s) 108, 259, 322
BseGI GGATG 1 cut(s) 469
BseLI CCNNNNNNNGG 1 cut(s) 260
BseMI GCAATG 1 cut(s) 186
BseMII CTCAG 1 cut(s) 263
BseRI GAGGAG 5 cut(s) 450, 495, 537, 540, 543
BseXI GCAGC 2 cut(s) 303, 579
Bsh1236I CGCG 1 cut(s) 312
Bsh1285I CGRYCG 2 cut(s) 316, 613
BshFI GGCC 3 cut(s) 39, 309, 535
BshVI ATCGAT 1 cut(s) 213
BsiEI CGRYCG 2 cut(s) 316, 613
BsiHKCI CYCGRG 2 cut(s) 14, 130
BslFI GGGAC 1 cut(s) 667
BslI CCNNNNNNNGG 1 cut(s) 260
BsmAI GTCTC 2 cut(s) 504, 543
BsmFI GGGAC 1 cut(s) 667
BsnI GGCC 3 cut(s) 39, 309, 535
Bso31I GGTCTC 2 cut(s) 504, 543
BsoBI CYCGRG 2 cut(s) 14, 130
Bsp143I GATC 5 cut(s) 298, 313, 353, 538, 610
Bsp1720I GCTNAGC 1 cut(s) 249
BspACI CCGC 6 cut(s) 289, 310, 345, 444, 502, 628
BspANI GGCC 3 cut(s) 39, 309, 535
BspCNI CTCAG 1 cut(s) 262
BspDI ATCGAT 1 cut(s) 213
BspFNI CGCG 1 cut(s) 312
BspMI ACCTGC 1 cut(s) 438
BspPI GGATC 1 cut(s) 361
BspTNI GGTCTC 2 cut(s) 504, 543
BsrBI CCGCTC 1 cut(s) 630
BsrDI GCAATG 1 cut(s) 186
BssECI CCNNGG 3 cut(s) 108, 259, 322
BssMI GATC 5 cut(s) 298, 313, 353, 538, 610
BssSI CACGAG 1 cut(s) 141
BssT1I CCWWGG 2 cut(s) 108, 259
Bst2BI CACGAG 1 cut(s) 141
Bst2UI CCWGG 2 cut(s) 46, 393
Bst4CI ACNGT 4 cut(s) 238, 323, 476, 560
Bst6I CTCTTC 1 cut(s) 180
BstC8I GCNNGC 1 cut(s) 389
BstDEI CTNAG 1 cut(s) 249
BstDSI CCRYGG 1 cut(s) 322
BstEII GGTNACC 1 cut(s) 284
BstENI CCTNNNNNAGG 1 cut(s) 258
BstF5I GGATG 1 cut(s) 469
BstFNI CGCG 1 cut(s) 312
BstH2I RGCGCY 1 cut(s) 139
BstHHI GCGC 2 cut(s) 138, 567
BstKTI GATC 5 cut(s) 301, 316, 356, 541, 613
BstMAI GTCTC 2 cut(s) 504, 543
BstMBI GATC 5 cut(s) 298, 313, 353, 538, 610
BstMCI CGRYCG 2 cut(s) 316, 613
BstMWI GCNNNNNNNGC 1 cut(s) 606
BstNI CCWGG 2 cut(s) 46, 393
BstPAI GACNNNNGTC 1 cut(s) 324
BstPI GGTNACC 1 cut(s) 284
BstSCI CCNGG 2 cut(s) 44, 391
BstUI CGCG 1 cut(s) 312
BstV1I GCAGC 2 cut(s) 303, 579
BstX2I RGATCY 1 cut(s) 353
BstYI RGATCY 1 cut(s) 353
Bsu15I ATCGAT 1 cut(s) 213
BsuRI GGCC 3 cut(s) 39, 309, 535
BsuTUI ATCGAT 1 cut(s) 213
BtgI CCRYGG 1 cut(s) 322
BtrI CACGTC 1 cut(s) 350
BtsCI GGATG 1 cut(s) 469
BtsIMutI CAGTG 3 cut(s) 234, 481, 565
BveI ACCTGC 1 cut(s) 438
Cac8I GCNNGC 1 cut(s) 389
CfoI GCGC 2 cut(s) 138, 567
Cfr13I GGNCC 2 cut(s) 533, 635
ClaI ATCGAT 1 cut(s) 213
CseI GACGC 1 cut(s) 635
Csp6I GTAC 1 cut(s) 472
CviQI GTAC 1 cut(s) 472
DdeI CTNAG 1 cut(s) 249
DpnI GATC 5 cut(s) 300, 315, 355, 540, 612
DpnII GATC 5 cut(s) 298, 313, 353, 538, 610
EaeI YGGCCR 1 cut(s) 307
Eam1104I CTCTTC 1 cut(s) 180
EarI CTCTTC 1 cut(s) 180
EciI GGCGGA 1 cut(s) 360
Eco130I CCWWGG 2 cut(s) 108, 259
Eco31I GGTCTC 2 cut(s) 504, 543
Eco47I GGWCC 1 cut(s) 635
Eco88I CYCGRG 2 cut(s) 14, 130
Eco91I GGTNACC 1 cut(s) 284
EcoNI CCTNNNNNAGG 1 cut(s) 258
EcoO109I RGGNCCY 1 cut(s) 533
EcoO65I GGTNACC 1 cut(s) 284
EcoRII CCWGG 2 cut(s) 44, 391
EcoT14I CCWWGG 2 cut(s) 108, 259
ErhI CCWWGG 2 cut(s) 108, 259
FaiI YATR 7 cut(s) 90, 279, 336, 453, 507, 640, 642
FaqI GGGAC 1 cut(s) 667
FauNDI CATATG 1 cut(s) 640
Fnu4HI GCNGC 5 cut(s) 292, 310, 445, 502, 568
FokI GGATG 1 cut(s) 476
Fsp4HI GCNGC 5 cut(s) 292, 310, 445, 502, 568
FspBI CTAG 1 cut(s) 417
GlaI GCGC 2 cut(s) 137, 566
GluI GCNGC 5 cut(s) 292, 310, 445, 502, 568
HaeII RGCGCY 1 cut(s) 139
HaeIII GGCC 3 cut(s) 39, 309, 535
HgaI GACGC 1 cut(s) 635
HhaI GCGC 2 cut(s) 138, 567
Hin6I GCGC 2 cut(s) 136, 565
HinP1I GCGC 2 cut(s) 136, 565
HincII GTYRAC 1 cut(s) 51
HindII GTYRAC 1 cut(s) 51
HindIII AAGCTT 2 cut(s) 75, 95
HinfI GANTC 3 cut(s) 64, 210, 575
HphI GGTGA 3 cut(s) 248, 296, 434
Hpy166II GTNNAC 1 cut(s) 51
Hpy188I TCNGA 2 cut(s) 7, 58
Hpy188III TCNNGA 6 cut(s) 317, 329, 432, 603, 623, 672
Hpy8I GTNNAC 1 cut(s) 51
Hpy99I CGWCG 1 cut(s) 651
HpyCH4III ACNGT 4 cut(s) 238, 323, 476, 560
HpyCH4IV ACGT 2 cut(s) 53, 349
HpyCH4V TGCA 1 cut(s) 404
HpyF10VI GCNNNNNNNGC 1 cut(s) 606
HpyF3I CTNAG 1 cut(s) 249
HpySE526I ACGT 2 cut(s) 53, 349
HspAI GCGC 2 cut(s) 136, 565
Kzo9I GATC 5 cut(s) 298, 313, 353, 538, 610
Lsp1109I GCAGC 2 cut(s) 303, 579
MaeI CTAG 1 cut(s) 417
MaeII ACGT 2 cut(s) 53, 349
MaeIII GTNAC 4 cut(s) 157, 284, 317, 623
MalI GATC 5 cut(s) 300, 315, 355, 540, 612
MbiI CCGCTC 1 cut(s) 630
MboI GATC 5 cut(s) 298, 313, 353, 538, 610
MboII GAAGA 2 cut(s) 20, 197
MfeI CAATTG 1 cut(s) 192
MflI RGATCY 1 cut(s) 353
MluCI AATT 1 cut(s) 192
MlyI GAGTC 1 cut(s) 73
MspR9I CCNGG 2 cut(s) 46, 393
MunI CAATTG 1 cut(s) 192
MvaI CCWGG 2 cut(s) 46, 393
MvnI CGCG 1 cut(s) 312
MwoI GCNNNNNNNGC 1 cut(s) 606
NdeI CATATG 1 cut(s) 640
NdeII GATC 5 cut(s) 298, 313, 353, 538, 610
NmuCI GTSAC 4 cut(s) 157, 284, 317, 623
PcsI WCGNNNNNNNCGW 1 cut(s) 619
PfeI GAWTC 2 cut(s) 210, 575
PkrI GCNGC 5 cut(s) 293, 311, 446, 503, 569
Ple19I CGATCG 2 cut(s) 316, 613
PleI GAGTC 1 cut(s) 72
PpsI GAGTC 1 cut(s) 72
PshAI GACNNNNGTC 1 cut(s) 324
Psp6I CCWGG 2 cut(s) 44, 391
PspEI GGTNACC 1 cut(s) 284
PspGI CCWGG 2 cut(s) 44, 391
PspPI GGNCC 2 cut(s) 533, 635
PsuI RGATCY 1 cut(s) 353
PvuI CGATCG 2 cut(s) 316, 613
RsaI GTAC 1 cut(s) 473
RsaNI GTAC 1 cut(s) 472
SatI GCNGC 5 cut(s) 292, 310, 445, 502, 568
Sau3AI GATC 5 cut(s) 298, 313, 353, 538, 610
Sau96I GGNCC 2 cut(s) 533, 635
SchI GAGTC 1 cut(s) 73
ScrFI CCNGG 2 cut(s) 46, 393
SinI GGWCC 1 cut(s) 635
Sse9I AATT 1 cut(s) 192
SsiI CCGC 6 cut(s) 289, 310, 345, 444, 502, 628
SspMI CTAG 1 cut(s) 417
StyD4I CCNGG 2 cut(s) 44, 391
StyI CCWWGG 2 cut(s) 108, 259
TaaI ACNGT 4 cut(s) 238, 323, 476, 560
TaiI ACGT 2 cut(s) 56, 352
TaqI TCGA 2 cut(s) 213, 541
TaqII GACCGA 2 cut(s) 528, 567
TasI AATT 1 cut(s) 192
TatI WGTACW 1 cut(s) 471
TauI GCSGC 3 cut(s) 312, 447, 504
TfiI GAWTC 2 cut(s) 210, 575
TscAI CASTG 3 cut(s) 241, 481, 565
TseFI GTSAC 4 cut(s) 157, 284, 317, 623
TseI GCWGC 2 cut(s) 291, 567
Tsp45I GTSAC 4 cut(s) 157, 284, 317, 623
TspDTI ATGAA 1 cut(s) 218
TspGWI ACGGA 1 cut(s) 656
TspRI CASTG 3 cut(s) 241, 481, 565
VpaK11BI GGWCC 1 cut(s) 635
XagI CCTNNNNNAGG 1 cut(s) 258
XspI CTAG 1 cut(s) 417
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.