FvH4_4g01940

Pre-mRNA branch site p14-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb4
OG0015163
Physical Location & Seq
Reverse (-)
1735922 .. 1740692
4771 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_4g01940.t1

Sequence Viewer

Length: 375 bp
ATGGCCGCAATCAGTCTCCGGAAGGGAAACACCCGCCTGCCGCCGGAAGTCAACCGCGTCCTGTACGTGCGGAACCTTCCGTTCAACATCTCGAGCGAGGAGATGTACGACATCTTCGGGAAATACGGTGCGATACGGCAGATACGTATAGGGACGAACAAGGATACGAGAGGGACGGCGTACGTGGTGTACGAGGACATCTACGACGCGAAGACGGCGGTGGATCATCTCTCCGGGTTCAACGTGGCCAACAGGTACCTGATAGTGCTGTATTACCAGCAGGCCAAGATGGGCAAGAGGTTCGATCAGAAGAAGAAGGAGGATGAGATCGCTAAGATGCAGGAGAAGTACGGCGTCTCCACCAAAGATAAGTGA
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

125

Amino Acids

14.37

Weight (kDa)

9.54

Isoelectric Point (pI)

42.22

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_5 PF13893 17 - 97 7e-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) 57, 209
AccIII TCCGGA 1 cut(s) 18
AciI CCGC 6 cut(s) 6, 34, 41, 55, 70, 218
AclWI GGATC 1 cut(s) 231
AcoI YGGCCR 2 cut(s) 3, 246
AcyI GRCGYC 1 cut(s) 354
AfaI GTAC 6 cut(s) 65, 107, 182, 191, 257, 350
AfiI CCNNNNNNNGG 1 cut(s) 43
AgsI TTSAA 2 cut(s) 85, 241
Alw26I GTCTC 2 cut(s) 20, 361
AlwI GGATC 1 cut(s) 231
Ama87I CYCGRG 1 cut(s) 91
Aor13HI TCCGGA 1 cut(s) 18
AoxI GGCC 3 cut(s) 3, 246, 282
Asp718I GGTACC 1 cut(s) 255
AsuC2I CCSGG 1 cut(s) 235
AvaI CYCGRG 1 cut(s) 91
BalI TGGCCA 1 cut(s) 248
BanI GGYRCC 1 cut(s) 255
BarI GAAGNNNNNNTAC 2 cut(s) 98, 130
BbsI GAAGAC 1 cut(s) 218
BccI CCATC 1 cut(s) 283
BceAI ACGGC 4 cut(s) 152, 192, 231, 367
BcgI CGANNNNNNTGC 2 cut(s) 283, 317
BciVI GTATCC 1 cut(s) 157
BcnI CCSGG 1 cut(s) 235
BcoDI GTCTC 2 cut(s) 20, 361
BfuI GTATCC 1 cut(s) 157
BisI GCNGC 2 cut(s) 6, 41
BlsI GCNGC 2 cut(s) 7, 42
Bme1390I CCNGG 1 cut(s) 235
BmeT110I CYCGRG 1 cut(s) 91
BmiI GGNNCC 2 cut(s) 74, 257
BmrFI CCNGG 1 cut(s) 235
BmsI GCATC 1 cut(s) 327
BpiI GAAGAC 1 cut(s) 218
BpuMI CCSGG 1 cut(s) 235
BsaAI YACGTR 3 cut(s) 67, 146, 184
BsaHI GRCGYC 1 cut(s) 354
BsaWI WCCGGW 1 cut(s) 18
BsaXI ACNNNNNCTCC 2 cut(s) 341, 371
Bsc4I CCNNNNNNNGG 1 cut(s) 43
BseAI TCCGGA 1 cut(s) 18
BseGI GGATG 1 cut(s) 328
BseLI CCNNNNNNNGG 1 cut(s) 43
BseRI GAGGAG 1 cut(s) 113
Bsh1236I CGCG 2 cut(s) 57, 209
BshFI GGCC 3 cut(s) 5, 248, 284
BshNI GGYRCC 1 cut(s) 255
BsiHKCI CYCGRG 1 cut(s) 91
BsiSI CCGG 3 cut(s) 19, 44, 234
BsiWI CGTACG 1 cut(s) 180
BslFI GGGAC 2 cut(s) 166, 187
BslI CCNNNNNNNGG 1 cut(s) 43
BsmAI GTCTC 2 cut(s) 20, 361
BsmBI CGTCTC 1 cut(s) 361
BsmFI GGGAC 2 cut(s) 166, 187
BsnI GGCC 3 cut(s) 5, 248, 284
BsoBI CYCGRG 1 cut(s) 91
Bsp13I TCCGGA 1 cut(s) 18
Bsp143I GATC 3 cut(s) 223, 304, 327
BspACI CCGC 6 cut(s) 6, 34, 41, 55, 70, 218
BspANI GGCC 3 cut(s) 5, 248, 284
BspEI TCCGGA 1 cut(s) 18
BspFNI CGCG 2 cut(s) 57, 209
BspLI GGNNCC 2 cut(s) 74, 257
BspPI GGATC 1 cut(s) 231
BspT107I GGYRCC 1 cut(s) 255
BssMI GATC 3 cut(s) 223, 304, 327
BssNI GRCGYC 1 cut(s) 354
Bst4CI ACNGT 1 cut(s) 128
BstACI GRCGYC 1 cut(s) 354
BstBAI YACGTR 3 cut(s) 67, 146, 184
BstC8I GCNNGC 2 cut(s) 38, 282
BstDEI CTNAG 1 cut(s) 333
BstF5I GGATG 1 cut(s) 328
BstFNI CGCG 2 cut(s) 57, 209
BstKTI GATC 3 cut(s) 226, 307, 330
BstMAI GTCTC 2 cut(s) 20, 361
BstMBI GATC 3 cut(s) 223, 304, 327
BstMWI GCNNNNNNNGC 1 cut(s) 215
BstSCI CCNGG 1 cut(s) 233
BstSNI TACGTA 1 cut(s) 146
BstUI CGCG 2 cut(s) 57, 209
BstV2I GAAGAC 1 cut(s) 218
BsuI GTATCC 1 cut(s) 157
BsuRI GGCC 3 cut(s) 5, 248, 284
BtsCI GGATG 1 cut(s) 328
Cac8I GCNNGC 2 cut(s) 38, 282
CseI GACGC 3 cut(s) 46, 215, 343
Csp6I GTAC 6 cut(s) 64, 106, 181, 190, 256, 349
CviJI RGCY 3 cut(s) 5, 248, 284
CviKI_1 RGCY 3 cut(s) 5, 248, 284
CviQI GTAC 6 cut(s) 64, 106, 181, 190, 256, 349
DdeI CTNAG 1 cut(s) 333
DpnI GATC 3 cut(s) 225, 306, 329
DpnII GATC 3 cut(s) 223, 304, 327
EaeI YGGCCR 2 cut(s) 3, 246
Eco105I TACGTA 1 cut(s) 146
Eco88I CYCGRG 1 cut(s) 91
Esp3I CGTCTC 1 cut(s) 361
FaiI YATR 1 cut(s) 149
FaqI GGGAC 2 cut(s) 166, 187
FauI CCCGC 1 cut(s) 41
Fnu4HI GCNGC 2 cut(s) 6, 41
FokI GGATG 1 cut(s) 335
Fsp4HI GCNGC 2 cut(s) 6, 41
GluI GCNGC 2 cut(s) 6, 41
HaeIII GGCC 3 cut(s) 5, 248, 284
HapII CCGG 3 cut(s) 19, 44, 234
HgaI GACGC 3 cut(s) 46, 215, 343
Hin1I GRCGYC 1 cut(s) 354
HincII GTYRAC 1 cut(s) 52
HindII GTYRAC 1 cut(s) 52
HpaII CCGG 3 cut(s) 19, 44, 234
Hpy166II GTNNAC 2 cut(s) 52, 190
Hpy188I TCNGA 1 cut(s) 309
Hpy188III TCNNGA 3 cut(s) 19, 91, 118
Hpy8I GTNNAC 2 cut(s) 52, 190
Hpy99I CGWCG 1 cut(s) 209
HpyAV CCTTC 3 cut(s) 16, 86, 310
HpyCH4III ACNGT 1 cut(s) 128
HpyCH4IV ACGT 4 cut(s) 66, 145, 183, 243
HpyCH4V TGCA 1 cut(s) 340
HpyF10VI GCNNNNNNNGC 1 cut(s) 215
HpyF3I CTNAG 1 cut(s) 333
HpySE526I ACGT 4 cut(s) 66, 145, 183, 243
Hsp92I GRCGYC 1 cut(s) 354
Kpn2I TCCGGA 1 cut(s) 18
KpnI GGTACC 1 cut(s) 259
Kzo9I GATC 3 cut(s) 223, 304, 327
LweI GCATC 1 cut(s) 327
MaeII ACGT 4 cut(s) 66, 145, 183, 243
MalI GATC 3 cut(s) 225, 306, 329
MboI GATC 3 cut(s) 223, 304, 327
MboII GAAGA 4 cut(s) 106, 223, 322, 325
MlsI TGGCCA 1 cut(s) 248
MluNI TGGCCA 1 cut(s) 248
MnlI CCTC 5 cut(s) 91, 164, 187, 291, 313
Mox20I TGGCCA 1 cut(s) 248
MroI TCCGGA 1 cut(s) 18
MscI TGGCCA 1 cut(s) 248
Msp20I TGGCCA 1 cut(s) 248
MspI CCGG 3 cut(s) 19, 44, 234
MspR9I CCNGG 1 cut(s) 235
MvnI CGCG 2 cut(s) 57, 209
MwoI GCNNNNNNNGC 1 cut(s) 215
NciI CCSGG 1 cut(s) 235
NdeII GATC 3 cut(s) 223, 304, 327
NlaIV GGNNCC 2 cut(s) 74, 257
PaeR7I CTCGAG 1 cut(s) 91
PcsI WCGNNNNNNNCGW 2 cut(s) 142, 189
Pfl23II CGTACG 1 cut(s) 180
PkrI GCNGC 2 cut(s) 7, 42
Ppu21I YACGTR 3 cut(s) 67, 146, 184
PspLI CGTACG 1 cut(s) 180
PspN4I GGNNCC 2 cut(s) 74, 257
RsaI GTAC 6 cut(s) 65, 107, 182, 191, 257, 350
RsaNI GTAC 6 cut(s) 64, 106, 181, 190, 256, 349
SatI GCNGC 2 cut(s) 6, 41
Sau3AI GATC 3 cut(s) 223, 304, 327
ScrFI CCNGG 1 cut(s) 235
SetI ASST 8 cut(s) 69, 78, 148, 186, 246, 257, 261, 302
SfaNI GCATC 1 cut(s) 327
Sfr274I CTCGAG 1 cut(s) 91
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 6 cut(s) 6, 34, 41, 55, 70, 218
StyD4I CCNGG 1 cut(s) 233
TaaI ACNGT 1 cut(s) 128
TaiI ACGT 4 cut(s) 69, 148, 186, 246
TaqI TCGA 2 cut(s) 92, 303
TauI GCSGC 2 cut(s) 8, 43
TspGWI ACGGA 1 cut(s) 69
XhoI CTCGAG 1 cut(s) 91
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.