Rh4DG019200

Pre-mRNA branch site p14-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0015163
Physical Location & Seq
Reverse (-)
2984204 .. 2984578
375 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4DG019200.1

Sequence Viewer

Length: 375 bp
ATGGCCGCAATCAGTCTCCGGAAGGGCAACACCAGGCTGCCGCCGGAAGTGAACCGGGTCCTGTACGTCCGGAACCTTCCGTTCAACATCTCGAGCGAGGAGATGTACGACATCTTCGGCAAATACGGCGCGATACGGCAGATACGTATAGGTACGAACAAGGACACGAGAGGCACGGCGTACGTGGTGTACGAGGACATCTACGACGCGAAGACGGCGGTGGATCATCTCTCCGGGTTCAACGTGGCGAACCGGTACCTGATCGTGCTGTATTACCAGCAGGCCAAGATGGGGAAGAGGTTTGATCAGAGGAAGAAGGAGGAGGAGATCGCTAAGATGCAGGAGAAGTACGGCGTCTCCACTAAAGATAAGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03040 map03040
Pfam Domains
Protein Families
RRM_1

Protein Analysis

124

Amino Acids

14.41

Weight (kDa)

9.57

Isoelectric Point (pI)

45.93

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_5 PF13893 17 - 97 7.8e-07 RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
RRM_1 PF00076 21 - 87 7e-17 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: OG0015163)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G12190
fragaria_vesca FvH4_4g01940
malus_domestica MD08G1047500.v1.1
prunus_persica Prupe.1G025000_v2.0.a1 Prupe.1G400800_v2.0.a1
pyrus_communis pycom08g04000
rosa_chinensis RchiOBHm_Chr4g0388901
rosa_laevigata RLG00000010015
rosa_multiflora Rmu_sc0000697.1_g000003 Rmu_sc0005486.1_g000012
rosa_roxburghii Rroxscaffold_5G00335210
rosa_rugosa Rorug03G0320900
rosa_samantha Rh4BG018600 Rh4CG028400 Rh4DG019200
rosa_wichuraiana Rw4G001830

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 255
AccB1I GGYRCC 1 cut(s) 255
AccII CGCG 2 cut(s) 131, 209
AccIII TCCGGA 2 cut(s) 18, 69
AciI CCGC 3 cut(s) 6, 41, 218
AclWI GGATC 1 cut(s) 231
AcoI YGGCCR 1 cut(s) 3
AcyI GRCGYC 1 cut(s) 354
AfaI GTAC 7 cut(s) 65, 107, 154, 182, 191, 257, 350
AfiI CCNNNNNNNGG 1 cut(s) 291
AgeI ACCGGT 1 cut(s) 252
AgsI TTSAA 2 cut(s) 85, 241
AjnI CCWGG 1 cut(s) 32
Alw26I GTCTC 2 cut(s) 20, 361
AlwI GGATC 1 cut(s) 231
Ama87I CYCGRG 1 cut(s) 91
Aor13HI TCCGGA 2 cut(s) 18, 69
AoxI GGCC 2 cut(s) 3, 282
ApeKI GCWGC 1 cut(s) 37
AsiGI ACCGGT 1 cut(s) 252
Asp718I GGTACC 1 cut(s) 255
AspLEI GCGC 1 cut(s) 131
AspS9I GGNCC 1 cut(s) 58
AsuC2I CCSGG 2 cut(s) 56, 235
AvaI CYCGRG 1 cut(s) 91
AvaII GGWCC 1 cut(s) 58
BanI GGYRCC 1 cut(s) 255
BarI GAAGNNNNNNTAC 2 cut(s) 98, 130
BauI CACGAG 1 cut(s) 166
BbsI GAAGAC 1 cut(s) 218
BbvI GCAGC 1 cut(s) 24
BccI CCATC 1 cut(s) 283
BceAI ACGGC 5 cut(s) 142, 152, 192, 231, 367
BciT130I CCWGG 1 cut(s) 34
BclI TGATCA 1 cut(s) 304
BcnI CCSGG 2 cut(s) 56, 235
BcoDI GTCTC 2 cut(s) 20, 361
BisI GCNGC 3 cut(s) 6, 38, 41
BlsI GCNGC 3 cut(s) 7, 39, 42
Bme1390I CCNGG 3 cut(s) 34, 56, 235
Bme18I GGWCC 1 cut(s) 58
BmeT110I CYCGRG 1 cut(s) 91
BmgT120I GGNCC 1 cut(s) 58
BmiI GGNNCC 3 cut(s) 59, 74, 257
BmrFI CCNGG 3 cut(s) 34, 56, 235
BmsI GCATC 1 cut(s) 327
BpiI GAAGAC 1 cut(s) 218
BpuMI CCSGG 2 cut(s) 56, 235
BsaAI YACGTR 2 cut(s) 146, 184
BsaHI GRCGYC 1 cut(s) 354
BsaWI WCCGGW 3 cut(s) 18, 69, 252
BsaXI ACNNNNNCTCC 2 cut(s) 341, 371
Bsc4I CCNNNNNNNGG 1 cut(s) 291
Bse118I RCCGGY 1 cut(s) 252
BseAI TCCGGA 2 cut(s) 18, 69
BseBI CCWGG 1 cut(s) 34
BseLI CCNNNNNNNGG 1 cut(s) 291
BseRI GAGGAG 3 cut(s) 113, 335, 338
BseXI GCAGC 1 cut(s) 24
Bsh1236I CGCG 2 cut(s) 131, 209
BshFI GGCC 2 cut(s) 5, 284
BshNI GGYRCC 1 cut(s) 255
BshTI ACCGGT 1 cut(s) 252
BsiHKCI CYCGRG 1 cut(s) 91
BsiSI CCGG 6 cut(s) 19, 44, 55, 70, 234, 253
BsiWI CGTACG 1 cut(s) 180
BslI CCNNNNNNNGG 1 cut(s) 291
BsmAI GTCTC 2 cut(s) 20, 361
BsmBI CGTCTC 1 cut(s) 361
BsnI GGCC 2 cut(s) 5, 284
BsoBI CYCGRG 1 cut(s) 91
Bsp13I TCCGGA 2 cut(s) 18, 69
Bsp143I GATC 4 cut(s) 223, 261, 304, 327
BspACI CCGC 3 cut(s) 6, 41, 218
BspANI GGCC 2 cut(s) 5, 284
BspEI TCCGGA 2 cut(s) 18, 69
BspFNI CGCG 2 cut(s) 131, 209
BspLI GGNNCC 3 cut(s) 59, 74, 257
BspPI GGATC 1 cut(s) 231
BspT107I GGYRCC 1 cut(s) 255
BsrFI RCCGGY 1 cut(s) 252
BssAI RCCGGY 1 cut(s) 252
BssMI GATC 4 cut(s) 223, 261, 304, 327
BssNI GRCGYC 1 cut(s) 354
BssSI CACGAG 1 cut(s) 166
Bst2BI CACGAG 1 cut(s) 166
Bst2UI CCWGG 1 cut(s) 34
Bst6I CTCTTC 1 cut(s) 290
BstACI GRCGYC 1 cut(s) 354
BstBAI YACGTR 2 cut(s) 146, 184
BstC8I GCNNGC 1 cut(s) 282
BstDEI CTNAG 1 cut(s) 333
BstFNI CGCG 2 cut(s) 131, 209
BstHHI GCGC 1 cut(s) 131
BstKTI GATC 4 cut(s) 226, 264, 307, 330
BstMAI GTCTC 2 cut(s) 20, 361
BstMBI GATC 4 cut(s) 223, 261, 304, 327
BstMWI GCNNNNNNNGC 2 cut(s) 126, 215
BstNI CCWGG 1 cut(s) 34
BstSCI CCNGG 3 cut(s) 32, 54, 233
BstSNI TACGTA 1 cut(s) 146
BstUI CGCG 2 cut(s) 131, 209
BstV1I GCAGC 1 cut(s) 24
BstV2I GAAGAC 1 cut(s) 218
BsuRI GGCC 2 cut(s) 5, 284
Cac8I GCNNGC 1 cut(s) 282
CfoI GCGC 1 cut(s) 131
Cfr10I RCCGGY 1 cut(s) 252
Cfr13I GGNCC 1 cut(s) 58
CseI GACGC 2 cut(s) 215, 343
Csp6I GTAC 7 cut(s) 64, 106, 153, 181, 190, 256, 349
CspAI ACCGGT 1 cut(s) 252
CviJI RGCY 3 cut(s) 5, 37, 284
CviKI_1 RGCY 3 cut(s) 5, 37, 284
CviQI GTAC 7 cut(s) 64, 106, 153, 181, 190, 256, 349
DdeI CTNAG 1 cut(s) 333
DpnI GATC 4 cut(s) 225, 263, 306, 329
DpnII GATC 4 cut(s) 223, 261, 304, 327
EaeI YGGCCR 1 cut(s) 3
Eam1104I CTCTTC 1 cut(s) 290
EarI CTCTTC 1 cut(s) 290
Eco105I TACGTA 1 cut(s) 146
Eco47I GGWCC 1 cut(s) 58
Eco88I CYCGRG 1 cut(s) 91
EcoO109I RGGNCCY 1 cut(s) 58
EcoRII CCWGG 1 cut(s) 32
Esp3I CGTCTC 1 cut(s) 361
FaiI YATR 1 cut(s) 149
FbaI TGATCA 1 cut(s) 304
Fnu4HI GCNGC 3 cut(s) 6, 38, 41
Fsp4HI GCNGC 3 cut(s) 6, 38, 41
GlaI GCGC 1 cut(s) 130
GluI GCNGC 3 cut(s) 6, 38, 41
HaeIII GGCC 2 cut(s) 5, 284
HapII CCGG 6 cut(s) 19, 44, 55, 70, 234, 253
HgaI GACGC 2 cut(s) 215, 343
HhaI GCGC 1 cut(s) 131
Hin1I GRCGYC 1 cut(s) 354
Hin6I GCGC 1 cut(s) 129
HinP1I GCGC 1 cut(s) 129
HpaII CCGG 6 cut(s) 19, 44, 55, 70, 234, 253
Hpy166II GTNNAC 2 cut(s) 52, 190
Hpy188I TCNGA 1 cut(s) 309
Hpy188III TCNNGA 3 cut(s) 19, 70, 91
Hpy8I GTNNAC 2 cut(s) 52, 190
Hpy99I CGWCG 1 cut(s) 209
HpyAV CCTTC 3 cut(s) 16, 86, 310
HpyCH4IV ACGT 4 cut(s) 66, 145, 183, 243
HpyCH4V TGCA 1 cut(s) 340
HpyF10VI GCNNNNNNNGC 2 cut(s) 126, 215
HpyF3I CTNAG 1 cut(s) 333
HpySE526I ACGT 4 cut(s) 66, 145, 183, 243
Hsp92I GRCGYC 1 cut(s) 354
HspAI GCGC 1 cut(s) 129
Kpn2I TCCGGA 2 cut(s) 18, 69
KpnI GGTACC 1 cut(s) 259
Ksp22I TGATCA 1 cut(s) 304
Kzo9I GATC 4 cut(s) 223, 261, 304, 327
Lsp1109I GCAGC 1 cut(s) 24
LweI GCATC 1 cut(s) 327
MaeII ACGT 4 cut(s) 66, 145, 183, 243
MalI GATC 4 cut(s) 225, 263, 306, 329
MboI GATC 4 cut(s) 223, 261, 304, 327
MboII GAAGA 4 cut(s) 106, 223, 307, 325
MnlI CCTC 7 cut(s) 91, 164, 187, 291, 303, 313, 316
MroI TCCGGA 2 cut(s) 18, 69
MspI CCGG 6 cut(s) 19, 44, 55, 70, 234, 253
MspR9I CCNGG 3 cut(s) 34, 56, 235
MvaI CCWGG 1 cut(s) 34
MvnI CGCG 2 cut(s) 131, 209
MwoI GCNNNNNNNGC 2 cut(s) 126, 215
NciI CCSGG 2 cut(s) 56, 235
NdeII GATC 4 cut(s) 223, 261, 304, 327
NlaIV GGNNCC 3 cut(s) 59, 74, 257
PaeR7I CTCGAG 1 cut(s) 91
PcsI WCGNNNNNNNCGW 2 cut(s) 142, 189
Pfl23II CGTACG 1 cut(s) 180
PinAI ACCGGT 1 cut(s) 252
PkrI GCNGC 3 cut(s) 7, 39, 42
Ppu21I YACGTR 2 cut(s) 146, 184
PpuMI RGGWCCY 1 cut(s) 58
Psp5II RGGWCCY 1 cut(s) 58
Psp6I CCWGG 1 cut(s) 32
PspGI CCWGG 1 cut(s) 32
PspLI CGTACG 1 cut(s) 180
PspN4I GGNNCC 3 cut(s) 59, 74, 257
PspPI GGNCC 1 cut(s) 58
PspPPI RGGWCCY 1 cut(s) 58
RsaI GTAC 7 cut(s) 65, 107, 154, 182, 191, 257, 350
RsaNI GTAC 7 cut(s) 64, 106, 153, 181, 190, 256, 349
SatI GCNGC 3 cut(s) 6, 38, 41
Sau3AI GATC 4 cut(s) 223, 261, 304, 327
Sau96I GGNCC 1 cut(s) 58
ScrFI CCNGG 3 cut(s) 34, 56, 235
SetI ASST 8 cut(s) 69, 78, 148, 154, 186, 246, 261, 302
SfaNI GCATC 1 cut(s) 327
Sfr274I CTCGAG 1 cut(s) 91
SinI GGWCC 1 cut(s) 58
SlaI CTCGAG 1 cut(s) 91
SmlI CTYRAG 1 cut(s) 91
SmoI CTYRAG 1 cut(s) 91
SnaBI TACGTA 1 cut(s) 146
SsiI CCGC 3 cut(s) 6, 41, 218
StyD4I CCNGG 3 cut(s) 32, 54, 233
TaiI ACGT 4 cut(s) 69, 148, 186, 246
TaqI TCGA 1 cut(s) 92
TauI GCSGC 2 cut(s) 8, 43
TseI GCWGC 1 cut(s) 37
TspGWI ACGGA 1 cut(s) 69
VpaK11BI GGWCC 1 cut(s) 58
XhoI CTCGAG 1 cut(s) 91
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.