Rroxscaffold_4G00294090

Zinc finger CCHC-type and RNA-binding motif-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0015500
Physical Location & Seq
Forward (+)
14293214 .. 14293996
783 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00294090.1

Sequence Viewer

Length: 783 bp
ATGGCGCCAAAGAAGAAGAGGAGCCACGACGACGACGACGAAGACGAATTGGAATCCCTCTGCAACCGCTACCCCTCAGCCCCGCAGGCCCAAAAGCCCACCACCAAGCCCACCGGGTCGGGTTCGGGTTCCGGAACCCTAGCCCCGTCGAAATCCACCCTCTACGTCTCCAACCTCGACTACTCCCTCACCAACTCCGACCTCCACACCCTCTTCTCCCGCTTCGGCAAGATCGCCCGCGTCACCGTCCTCAAAGACCGCGACACCCGCCGGAGCCGCGGCGTCGCCTTCGTCCAGTTCGTCACGCGCGACGACGCCGTAAAGTCGGCGCGTGAGATGCACGGGAAGATTCTGAACGGCCGGAAGCTCTCGGCGTCGATCGCGGAGGATAACGGACGCGCCGCCGAGTTTATAAAGAAGAGGGAGTACAAGGACAAGAGCCGGTGCTACGAGTGCGGCGCCGAGGGCCACTTGAGTTATGAGTGCCCGAAGAACCAGCTGGGGCCGAGGGAGCGGCCGCCGCAGAAGAAAGCGAGGAGAGGTGGCGGCGGTGGAGGAGGAGGTGGAGGTAGAGGGGGTGAGGCGCGTGGGGAGGACGAGGGGGAGTGGGAGAGTGGGGGTGAGAGGTTTGAGGATGATAATTGGGCGTCTGTGGTGGATGGTGGGGCCGGGCAGAGGTTGCTGCTGAGTGAGGAGATGGAGGAGGAGGAGAACAAGAGGAAGAAGAAGATTAAGAAAGCTGGGTATTTTAGTGATGAGAGTGATCATGATGATGAGGATTAG

Protein Analysis

260

Amino Acids

28.65

Weight (kDa)

6.57

Isoelectric Point (pI)

40.83

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 54 - 123 1.8e-20 RNA recognition motif
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: OG0015500)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G10400
fragaria_vesca FvH4_7g18730 FvH4_7g18730
malus_domestica MD01G1102800.v1.1
prunus_persica Prupe.2G208400_v2.0.a1
pyrus_communis pycom01g12930 pycom07g16330
rosa_chinensis RchiOBHm_Chr1g0362501
rosa_laevigata RLG00000027641
rosa_roxburghii Rroxscaffold_4G00294090
rosa_rugosa Rorug01G0298500
rosa_samantha Rh1AG307900 Rh1BG271000 Rh1CG288700 Rh1DG301200
rosa_wichuraiana Rw1G027320

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 413
AccB1I GGYRCC 2 cut(s) 4, 458
AccBSI CCGCTC 1 cut(s) 514
AccII CGCG 9 cut(s) 240, 261, 279, 307, 309, 331, 383, 399, 586
AccIII TCCGGA 1 cut(s) 131
AcoI YGGCCR 2 cut(s) 358, 515
AcyI GRCGYC 6 cut(s) 5, 282, 315, 374, 459, 647
AfaI GTAC 1 cut(s) 428
AfiI CCNNNNNNNGG 1 cut(s) 675
AluBI AGCT 3 cut(s) 367, 499, 740
AluI AGCT 3 cut(s) 367, 499, 740
Alw26I GTCTC 1 cut(s) 172
Aor13HI TCCGGA 1 cut(s) 131
AoxI GGCC 6 cut(s) 87, 358, 466, 503, 515, 666
ApeKI GCWGC 1 cut(s) 682
AspLEI GCGC 6 cut(s) 7, 309, 331, 401, 461, 586
AspS9I GGNCC 4 cut(s) 88, 466, 503, 666
AsuC2I CCSGG 2 cut(s) 115, 670
AsuHPI GGTGA 4 cut(s) 181, 235, 590, 632
BaeGI GKGCMC 1 cut(s) 488
BanI GGYRCC 2 cut(s) 4, 458
BarI GAAGNNNNNNTAC 2 cut(s) 410, 442
BbsI GAAGAC 1 cut(s) 48
BbvCI CCTCAGC 1 cut(s) 76
BbvI GCAGC 1 cut(s) 669
BccI CCATC 2 cut(s) 653, 691
BceAI ACGGC 2 cut(s) 302, 373
BclI TGATCA 1 cut(s) 763
BcnI CCSGG 2 cut(s) 115, 670
BcoDI GTCTC 1 cut(s) 172
BfaI CTAG 1 cut(s) 140
BfoI RGCGCY 2 cut(s) 8, 462
BglI GCCNNNNNGGC 1 cut(s) 86
BisI GCNGC 9 cut(s) 277, 280, 402, 457, 515, 518, 521, 547, 683
BlsI GCNGC 9 cut(s) 278, 281, 403, 458, 516, 519, 522, 548, 684
Bme1390I CCNGG 2 cut(s) 115, 670
BmgT120I GGNCC 4 cut(s) 88, 466, 503, 666
BmiI GGNNCC 8 cut(s) 6, 23, 130, 136, 275, 460, 504, 667
BmrFI CCNGG 2 cut(s) 115, 670
BmsI GCATC 1 cut(s) 327
BpiI GAAGAC 1 cut(s) 48
Bpu10I CCTNAGC 1 cut(s) 76
BpuEI CTTGAG 1 cut(s) 493
BpuMI CCSGG 2 cut(s) 115, 670
BsaHI GRCGYC 6 cut(s) 5, 282, 315, 374, 459, 647
BsaJI CCNNGG 3 cut(s) 277, 462, 506
BsaWI WCCGGW 1 cut(s) 131
Bsc4I CCNNNNNNNGG 1 cut(s) 675
Bse118I RCCGGY 1 cut(s) 441
Bse1I ACTGG 1 cut(s) 295
BseAI TCCGGA 1 cut(s) 131
BseDI CCNNGG 3 cut(s) 277, 462, 506
BseGI GGATG 2 cut(s) 640, 664
BseLI CCNNNNNNNGG 1 cut(s) 675
BseMII CTCAG 2 cut(s) 90, 677
BseNI ACTGG 1 cut(s) 295
BseRI GAGGAG 8 cut(s) 34, 550, 570, 573, 707, 716, 719, 722
BseSI GKGCMC 1 cut(s) 488
BseX3I CGGCCG 2 cut(s) 358, 515
BseXI GCAGC 1 cut(s) 669
BseYI CCCAGC 2 cut(s) 499, 740
Bsh1236I CGCG 9 cut(s) 240, 261, 279, 307, 309, 331, 383, 399, 586
Bsh1285I CGRYCG 3 cut(s) 361, 381, 518
BshFI GGCC 6 cut(s) 89, 360, 468, 505, 517, 668
BshNI GGYRCC 2 cut(s) 4, 458
BsiEI CGRYCG 3 cut(s) 361, 381, 518
BsiSI CCGG 6 cut(s) 114, 132, 271, 361, 442, 669
BslI CCNNNNNNNGG 1 cut(s) 675
BsmAI GTCTC 1 cut(s) 172
BsmBI CGTCTC 1 cut(s) 172
BsnI GGCC 6 cut(s) 89, 360, 468, 505, 517, 668
Bsp1286I GDGCHC 1 cut(s) 488
Bsp13I TCCGGA 1 cut(s) 131
Bsp143I GATC 3 cut(s) 231, 378, 763
BspANI GGCC 6 cut(s) 89, 360, 468, 505, 517, 668
BspCNI CTCAG 2 cut(s) 89, 678
BspEI TCCGGA 1 cut(s) 131
BspFNI CGCG 9 cut(s) 240, 261, 279, 307, 309, 331, 383, 399, 586
BspHI TCATGA 1 cut(s) 766
BspLI GGNNCC 8 cut(s) 6, 23, 130, 136, 275, 460, 504, 667
BspT107I GGYRCC 2 cut(s) 4, 458
BsrBI CCGCTC 1 cut(s) 514
BsrFI RCCGGY 1 cut(s) 441
BsrI ACTGG 1 cut(s) 295
BssAI RCCGGY 1 cut(s) 441
BssECI CCNNGG 3 cut(s) 277, 462, 506
BssMI GATC 3 cut(s) 231, 378, 763
BssNI GRCGYC 6 cut(s) 5, 282, 315, 374, 459, 647
Bst4CI ACNGT 1 cut(s) 247
Bst6I CTCTTC 3 cut(s) 11, 218, 413
BstACI GRCGYC 6 cut(s) 5, 282, 315, 374, 459, 647
BstAPI GCANNNNNTGC 1 cut(s) 679
BstC8I GCNNGC 2 cut(s) 87, 238
BstDEI CTNAG 2 cut(s) 76, 686
BstDSI CCRYGG 1 cut(s) 277
BstF5I GGATG 2 cut(s) 640, 664
BstFNI CGCG 9 cut(s) 240, 261, 279, 307, 309, 331, 383, 399, 586
BstH2I RGCGCY 2 cut(s) 8, 462
BstHHI GCGC 6 cut(s) 7, 309, 331, 401, 461, 586
BstKTI GATC 3 cut(s) 234, 381, 766
BstMAI GTCTC 1 cut(s) 172
BstMBI GATC 3 cut(s) 231, 378, 763
BstMCI CGRYCG 3 cut(s) 361, 381, 518
BstSCI CCNGG 2 cut(s) 113, 668
BstSLI GKGCMC 1 cut(s) 488
BstUI CGCG 9 cut(s) 240, 261, 279, 307, 309, 331, 383, 399, 586
BstV1I GCAGC 1 cut(s) 669
BstV2I GAAGAC 1 cut(s) 48
BstZI CGGCCG 2 cut(s) 358, 515
BsuRI GGCC 6 cut(s) 89, 360, 468, 505, 517, 668
BtgI CCRYGG 1 cut(s) 277
BtsCI GGATG 2 cut(s) 640, 664
Cac8I GCNNGC 2 cut(s) 87, 238
CciI TCATGA 1 cut(s) 766
CciNI GCGGCCGC 1 cut(s) 515
CfoI GCGC 6 cut(s) 7, 309, 331, 401, 461, 586
Cfr10I RCCGGY 1 cut(s) 441
Cfr13I GGNCC 4 cut(s) 88, 466, 503, 666
Cfr42I CCGCGG 1 cut(s) 280
CseI GACGC 6 cut(s) 229, 271, 323, 363, 405, 636
Csp6I GTAC 1 cut(s) 427
CviAII CATG 1 cut(s) 767
CviQI GTAC 1 cut(s) 427
DdeI CTNAG 2 cut(s) 76, 686
DinI GGCGCC 2 cut(s) 6, 460
DpnI GATC 3 cut(s) 233, 380, 765
DpnII GATC 3 cut(s) 231, 378, 763
EaeI YGGCCR 2 cut(s) 358, 515
EagI CGGCCG 2 cut(s) 358, 515
Eam1104I CTCTTC 3 cut(s) 11, 218, 413
EarI CTCTTC 3 cut(s) 11, 218, 413
EclXI CGGCCG 2 cut(s) 358, 515
Eco52I CGGCCG 2 cut(s) 358, 515
EgeI GGCGCC 2 cut(s) 6, 460
EheI GGCGCC 2 cut(s) 6, 460
Esp3I CGTCTC 1 cut(s) 172
FaeI CATG 1 cut(s) 770
FaiI YATR 3 cut(s) 413, 480, 768
FatI CATG 1 cut(s) 766
FauI CCCGC 4 cut(s) 90, 227, 245, 275
FbaI TGATCA 1 cut(s) 763
Fnu4HI GCNGC 9 cut(s) 277, 280, 402, 457, 515, 518, 521, 547, 683
FokI GGATG 2 cut(s) 647, 671
Fsp4HI GCNGC 9 cut(s) 277, 280, 402, 457, 515, 518, 521, 547, 683
FspBI CTAG 1 cut(s) 140
GlaI GCGC 6 cut(s) 6, 308, 330, 400, 460, 585
GluI GCNGC 9 cut(s) 277, 280, 402, 457, 515, 518, 521, 547, 683
GsaI CCCAGC 2 cut(s) 503, 744
HaeII RGCGCY 2 cut(s) 8, 462
HaeIII GGCC 6 cut(s) 89, 360, 468, 505, 517, 668
HapII CCGG 6 cut(s) 114, 132, 271, 361, 442, 669
HgaI GACGC 6 cut(s) 229, 271, 323, 363, 405, 636
HhaI GCGC 6 cut(s) 7, 309, 331, 401, 461, 586
Hin1I GRCGYC 6 cut(s) 5, 282, 315, 374, 459, 647
Hin1II CATG 1 cut(s) 770
Hin6I GCGC 6 cut(s) 5, 307, 329, 399, 459, 584
HinP1I GCGC 6 cut(s) 5, 307, 329, 399, 459, 584
HinfI GANTC 2 cut(s) 53, 349
HpaII CCGG 6 cut(s) 114, 132, 271, 361, 442, 669
HphI GGTGA 4 cut(s) 181, 235, 590, 632
Hpy188I TCNGA 2 cut(s) 199, 354
Hpy188III TCNNGA 2 cut(s) 132, 767
Hpy99I CGWCG 9 cut(s) 32, 35, 38, 41, 151, 287, 314, 317, 379
HpyAV CCTTC 1 cut(s) 298
HpyCH4III ACNGT 1 cut(s) 247
HpyCH4IV ACGT 1 cut(s) 165
HpyCH4V TGCA 2 cut(s) 63, 340
HpyF3I CTNAG 2 cut(s) 76, 686
HpySE526I ACGT 1 cut(s) 165
Hsp92I GRCGYC 6 cut(s) 5, 282, 315, 374, 459, 647
Hsp92II CATG 1 cut(s) 770
HspAI GCGC 6 cut(s) 5, 307, 329, 399, 459, 584
KasI GGCGCC 2 cut(s) 4, 458
Kpn2I TCCGGA 1 cut(s) 131
Ksp22I TGATCA 1 cut(s) 763
KspI CCGCGG 1 cut(s) 280
Kzo9I GATC 3 cut(s) 231, 378, 763
LmnI GCTCC 3 cut(s) 21, 273, 511
Lsp1109I GCAGC 1 cut(s) 669
LweI GCATC 1 cut(s) 327
MaeI CTAG 1 cut(s) 140
MaeII ACGT 1 cut(s) 165
MaeIII GTNAC 2 cut(s) 241, 301
MalI GATC 3 cut(s) 233, 380, 765
MbiI CCGCTC 1 cut(s) 514
MboI GATC 3 cut(s) 231, 378, 763
MhlI GDGCHC 1 cut(s) 488
MluCI AATT 2 cut(s) 47, 640
Mly113I GGCGCC 2 cut(s) 5, 459
MmeI TCCRAC 2 cut(s) 195, 222
MroI TCCGGA 1 cut(s) 131
MseI TTAA 1 cut(s) 732
MslI CAYNNNNRTG 1 cut(s) 771
MspA1I CMGCKG 2 cut(s) 279, 499
MspI CCGG 6 cut(s) 114, 132, 271, 361, 442, 669
MspR9I CCNGG 2 cut(s) 115, 670
MvnI CGCG 9 cut(s) 240, 261, 279, 307, 309, 331, 383, 399, 586
NarI GGCGCC 2 cut(s) 5, 459
NciI CCSGG 2 cut(s) 115, 670
NdeII GATC 3 cut(s) 231, 378, 763
NlaIII CATG 1 cut(s) 770
NlaIV GGNNCC 8 cut(s) 6, 23, 130, 136, 275, 460, 504, 667
NmeAIII GCCGAG 4 cut(s) 350, 430, 487, 531
NmuCI GTSAC 2 cut(s) 241, 301
NotI GCGGCCGC 1 cut(s) 515
PagI TCATGA 1 cut(s) 766
PcsI WCGNNNNNNNCGW 5 cut(s) 33, 36, 42, 297, 306
PfeI GAWTC 2 cut(s) 53, 349
PkrI GCNGC 9 cut(s) 278, 281, 403, 458, 516, 519, 522, 548, 684
Ple19I CGATCG 1 cut(s) 381
PluTI GGCGCC 2 cut(s) 8, 462
PsiI TTATAA 1 cut(s) 413
PspFI CCCAGC 2 cut(s) 499, 740
PspN4I GGNNCC 8 cut(s) 6, 23, 130, 136, 275, 460, 504, 667
PspPI GGNCC 4 cut(s) 88, 466, 503, 666
PvuI CGATCG 1 cut(s) 381
PvuII CAGCTG 1 cut(s) 499
RsaI GTAC 1 cut(s) 428
RsaNI GTAC 1 cut(s) 427
RseI CAYNNNNRTG 1 cut(s) 771
SacII CCGCGG 1 cut(s) 280
SaqAI TTAA 1 cut(s) 732
SatI GCNGC 9 cut(s) 277, 280, 402, 457, 515, 518, 521, 547, 683
Sau3AI GATC 3 cut(s) 231, 378, 763
Sau96I GGNCC 4 cut(s) 88, 466, 503, 666
ScrFI CCNGG 2 cut(s) 115, 670
SduI GDGCHC 1 cut(s) 488
SfaNI GCATC 1 cut(s) 327
SfoI GGCGCC 2 cut(s) 6, 460
Sfr303I CCGCGG 1 cut(s) 280
SgrBI CCGCGG 1 cut(s) 280
SmiMI CAYNNNNRTG 1 cut(s) 771
SmlI CTYRAG 1 cut(s) 472
SmoI CTYRAG 1 cut(s) 472
Sse9I AATT 2 cut(s) 47, 640
SspDI GGCGCC 2 cut(s) 4, 458
SspMI CTAG 1 cut(s) 140
StyD4I CCNGG 2 cut(s) 113, 668
TaaI ACNGT 1 cut(s) 247
TaiI ACGT 1 cut(s) 168
TaqI TCGA 3 cut(s) 149, 177, 377
TasI AATT 2 cut(s) 47, 640
TatI WGTACW 1 cut(s) 426
TauI GCSGC 8 cut(s) 279, 282, 404, 459, 517, 520, 523, 549
TfiI GAWTC 2 cut(s) 53, 349
Tru1I TTAA 1 cut(s) 732
Tru9I TTAA 1 cut(s) 732
TseFI GTSAC 2 cut(s) 241, 301
TseI GCWGC 1 cut(s) 682
Tsp45I GTSAC 2 cut(s) 241, 301
TspGWI ACGGA 1 cut(s) 408
XspI CTAG 1 cut(s) 140
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.