pycom08g04000

Splicing factor 3B subunit 6-like protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr8
OG0015163
Physical Location & Seq
Reverse (-)
3012434 .. 3012808
375 bp
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UTR
Exon/CDS
Intron
pycom08g04000.1

Sequence Viewer

Length: 375 bp
ATGAGCACAATCAGCCTCCGCAAGGTCAACACCCGCCTCCCGCCGGAGGTCAACCGCGTGCTCTACGTCCGCAACCTCCCATTCAACATCTCGAGCGAGGAAATGTACGACATCTTCGGCAAGTACGGCGCCATACGGCAGATTCGCATCGGGACGAACAAGGACACCAGAGGCACCGCCTTCGTTGTTTACGAGGATATCTACGACGCCAAAACGGCGGTGGATCACCTCTCCGGCTTCAATGTCGCGAACCGGTACCTCATCGTGCTGTACTACCAGCAGGCCAAGATGGGCAAGAAGTTCGACACGAAGAAGAAGGAGGAAGAGATCGCCAGGATGCAGGAGAAGTACGGCGTCTCCACCAAAGATAAGTGA
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

14.43

Weight (kDa)

9.57

Isoelectric Point (pI)

42.69

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_5 PF13893 17 - 97 3.8e-07 RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
RRM_1 PF00076 21 - 87 1.8e-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 3 cut(s) 128, 173, 255
AccII CGCG 2 cut(s) 57, 248
AciI CCGC 7 cut(s) 19, 34, 41, 55, 70, 177, 218
AclWI GGATC 1 cut(s) 231
AcyI GRCGYC 3 cut(s) 129, 207, 354
AfaI GTAC 5 cut(s) 107, 125, 257, 272, 350
AfiI CCNNNNNNNGG 3 cut(s) 22, 43, 46
AgeI ACCGGT 1 cut(s) 252
AgsI TTSAA 2 cut(s) 85, 241
AjnI CCWGG 1 cut(s) 332
Alw21I GWGCWC 2 cut(s) 8, 63
Alw26I GTCTC 1 cut(s) 361
AlwI GGATC 1 cut(s) 231
Ama87I CYCGRG 1 cut(s) 91
AoxI GGCC 1 cut(s) 282
AsiGI ACCGGT 1 cut(s) 252
Asp718I GGTACC 1 cut(s) 255
AspLEI GCGC 1 cut(s) 131
AsuHPI GGTGA 1 cut(s) 218
AvaI CYCGRG 1 cut(s) 91
BanI GGYRCC 3 cut(s) 128, 173, 255
BarI GAAGNNNNNNTAC 2 cut(s) 98, 130
Bbv12I GWGCWC 2 cut(s) 8, 63
BccI CCATC 1 cut(s) 283
BceAI ACGGC 4 cut(s) 142, 152, 231, 367
BcgI CGANNNNNNTGC 4 cut(s) 163, 197, 283, 317
BciT130I CCWGG 1 cut(s) 334
BcoDI GTCTC 1 cut(s) 361
BfoI RGCGCY 1 cut(s) 132
BglI GCCNNNNNGGC 1 cut(s) 215
Bme1390I CCNGG 1 cut(s) 334
BmeT110I CYCGRG 1 cut(s) 91
BmiI GGNNCC 3 cut(s) 130, 175, 257
BmrFI CCNGG 1 cut(s) 334
BmsI GCATC 2 cut(s) 156, 327
BsaBI GATNNNNATC 1 cut(s) 146
BsaHI GRCGYC 3 cut(s) 129, 207, 354
BsaWI WCCGGW 1 cut(s) 252
BsaXI ACNNNNNCTCC 2 cut(s) 341, 371
Bsc4I CCNNNNNNNGG 3 cut(s) 22, 43, 46
Bse118I RCCGGY 1 cut(s) 252
Bse8I GATNNNNATC 1 cut(s) 146
BseBI CCWGG 1 cut(s) 334
BseGI GGATG 1 cut(s) 342
BseJI GATNNNNATC 1 cut(s) 146
BseLI CCNNNNNNNGG 3 cut(s) 22, 43, 46
Bsh1236I CGCG 2 cut(s) 57, 248
BshFI GGCC 1 cut(s) 284
BshNI GGYRCC 3 cut(s) 128, 173, 255
BshTI ACCGGT 1 cut(s) 252
BsiHKAI GWGCWC 2 cut(s) 8, 63
BsiHKCI CYCGRG 1 cut(s) 91
BsiSI CCGG 3 cut(s) 44, 234, 253
BslFI GGGAC 1 cut(s) 166
BslI CCNNNNNNNGG 3 cut(s) 22, 43, 46
BsmAI GTCTC 1 cut(s) 361
BsmBI CGTCTC 1 cut(s) 361
BsmFI GGGAC 1 cut(s) 166
BsnI GGCC 1 cut(s) 284
BsoBI CYCGRG 1 cut(s) 91
Bsp1286I GDGCHC 2 cut(s) 8, 63
Bsp143I GATC 2 cut(s) 223, 327
Bsp68I TCGCGA 1 cut(s) 248
BspACI CCGC 7 cut(s) 19, 34, 41, 55, 70, 177, 218
BspANI GGCC 1 cut(s) 284
BspFNI CGCG 2 cut(s) 57, 248
BspLI GGNNCC 3 cut(s) 130, 175, 257
BspPI GGATC 1 cut(s) 231
BspT107I GGYRCC 3 cut(s) 128, 173, 255
BsrFI RCCGGY 1 cut(s) 252
BssAI RCCGGY 1 cut(s) 252
BssMI GATC 2 cut(s) 223, 327
BssNI GRCGYC 3 cut(s) 129, 207, 354
Bst2UI CCWGG 1 cut(s) 334
Bst6I CTCTTC 1 cut(s) 318
BstACI GRCGYC 3 cut(s) 129, 207, 354
BstC8I GCNNGC 2 cut(s) 59, 282
BstENI CCTNNNNNAGG 1 cut(s) 20
BstF5I GGATG 1 cut(s) 342
BstFNI CGCG 2 cut(s) 57, 248
BstH2I RGCGCY 1 cut(s) 132
BstHHI GCGC 1 cut(s) 131
BstKTI GATC 2 cut(s) 226, 330
BstMAI GTCTC 1 cut(s) 361
BstMBI GATC 2 cut(s) 223, 327
BstMWI GCNNNNNNNGC 3 cut(s) 12, 126, 215
BstNI CCWGG 1 cut(s) 334
BstSCI CCNGG 1 cut(s) 332
BstUI CGCG 2 cut(s) 57, 248
BsuRI GGCC 1 cut(s) 284
BtsCI GGATG 1 cut(s) 342
BtuMI TCGCGA 1 cut(s) 248
Cac8I GCNNGC 2 cut(s) 59, 282
CfoI GCGC 1 cut(s) 131
Cfr10I RCCGGY 1 cut(s) 252
CseI GACGC 2 cut(s) 215, 343
Csp6I GTAC 5 cut(s) 106, 124, 256, 271, 349
CspAI ACCGGT 1 cut(s) 252
CviJI RGCY 3 cut(s) 15, 237, 284
CviKI_1 RGCY 3 cut(s) 15, 237, 284
CviQI GTAC 5 cut(s) 106, 124, 256, 271, 349
DinI GGCGCC 1 cut(s) 130
DpnI GATC 2 cut(s) 225, 329
DpnII GATC 2 cut(s) 223, 327
Eam1104I CTCTTC 1 cut(s) 318
EarI CTCTTC 1 cut(s) 318
Eco32I GATATC 1 cut(s) 199
Eco88I CYCGRG 1 cut(s) 91
EcoNI CCTNNNNNAGG 1 cut(s) 20
EcoRII CCWGG 1 cut(s) 332
EcoRV GATATC 1 cut(s) 199
EgeI GGCGCC 1 cut(s) 130
EheI GGCGCC 1 cut(s) 130
Esp3I CGTCTC 1 cut(s) 361
FaiI YATR 1 cut(s) 134
FaqI GGGAC 1 cut(s) 166
FauI CCCGC 2 cut(s) 41, 48
FokI GGATG 1 cut(s) 349
GlaI GCGC 1 cut(s) 130
HaeII RGCGCY 1 cut(s) 132
HaeIII GGCC 1 cut(s) 284
HapII CCGG 3 cut(s) 44, 234, 253
HgaI GACGC 2 cut(s) 215, 343
HhaI GCGC 1 cut(s) 131
Hin1I GRCGYC 3 cut(s) 129, 207, 354
Hin6I GCGC 1 cut(s) 129
HinP1I GCGC 1 cut(s) 129
HincII GTYRAC 2 cut(s) 28, 52
HindII GTYRAC 2 cut(s) 28, 52
HinfI GANTC 1 cut(s) 142
HpaII CCGG 3 cut(s) 44, 234, 253
HphI GGTGA 1 cut(s) 218
Hpy166II GTNNAC 3 cut(s) 28, 52, 190
Hpy188III TCNNGA 3 cut(s) 91, 151, 247
Hpy8I GTNNAC 3 cut(s) 28, 52, 190
Hpy99I CGWCG 1 cut(s) 209
HpyAV CCTTC 2 cut(s) 190, 310
HpyCH4IV ACGT 1 cut(s) 66
HpyCH4V TGCA 1 cut(s) 340
HpyF10VI GCNNNNNNNGC 3 cut(s) 12, 126, 215
HpySE526I ACGT 1 cut(s) 66
Hsp92I GRCGYC 3 cut(s) 129, 207, 354
HspAI GCGC 1 cut(s) 129
KasI GGCGCC 1 cut(s) 128
KpnI GGTACC 1 cut(s) 259
Kzo9I GATC 2 cut(s) 223, 327
LpnPI CCDG 9 cut(s) 57, 181, 247, 266, 266, 290, 319, 326, 346
LweI GCATC 2 cut(s) 156, 327
MaeII ACGT 1 cut(s) 66
MalI GATC 2 cut(s) 225, 329
MboI GATC 2 cut(s) 223, 327
MboII GAAGA 4 cut(s) 106, 322, 325, 335
MhlI GDGCHC 2 cut(s) 8, 63
Mly113I GGCGCC 1 cut(s) 129
MspI CCGG 3 cut(s) 44, 234, 253
MspR9I CCNGG 1 cut(s) 334
MvaI CCWGG 1 cut(s) 334
MvnI CGCG 2 cut(s) 57, 248
MwoI GCNNNNNNNGC 3 cut(s) 12, 126, 215
NarI GGCGCC 1 cut(s) 129
NdeII GATC 2 cut(s) 223, 327
NlaIV GGNNCC 3 cut(s) 130, 175, 257
NruI TCGCGA 1 cut(s) 248
PaeR7I CTCGAG 1 cut(s) 91
PcsI WCGNNNNNNNCGW 1 cut(s) 189
PfeI GAWTC 1 cut(s) 142
PinAI ACCGGT 1 cut(s) 252
PluTI GGCGCC 1 cut(s) 132
Psp6I CCWGG 1 cut(s) 332
PspGI CCWGG 1 cut(s) 332
PspN4I GGNNCC 3 cut(s) 130, 175, 257
RruI TCGCGA 1 cut(s) 248
RsaI GTAC 5 cut(s) 107, 125, 257, 272, 350
RsaNI GTAC 5 cut(s) 106, 124, 256, 271, 349
Sau3AI GATC 2 cut(s) 223, 327
ScrFI CCNGG 1 cut(s) 334
SduI GDGCHC 2 cut(s) 8, 63
SetI ASST 6 cut(s) 27, 51, 69, 78, 231, 261
SfaNI GCATC 2 cut(s) 156, 327
SfoI GGCGCC 1 cut(s) 130
Sfr274I CTCGAG 1 cut(s) 91
SlaI CTCGAG 1 cut(s) 91
SmlI CTYRAG 1 cut(s) 91
SmoI CTYRAG 1 cut(s) 91
SsiI CCGC 7 cut(s) 19, 34, 41, 55, 70, 177, 218
SspDI GGCGCC 1 cut(s) 128
StyD4I CCNGG 1 cut(s) 332
TaiI ACGT 1 cut(s) 69
TaqI TCGA 2 cut(s) 92, 303
TatI WGTACW 1 cut(s) 270
TfiI GAWTC 1 cut(s) 142
XagI CCTNNNNNAGG 1 cut(s) 20
XcmI CCANNNNNNNNNTGG 1 cut(s) 217
XhoI CTCGAG 1 cut(s) 91
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.