Rroxscaffold_4G00306980

Splicing factor 3B subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0015246
Physical Location & Seq
Forward (+)
28007156 .. 28010244
3089 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00306980.1

Sequence Viewer

Length: 1044 bp
ATGACGACTCGAATCGCTCCGGGAGTCGGAGCCAACTTGCTTGGTCAACACTCCGCCGAGAGAAACCAAGACGCCACTGCTTACGTCGGCAATCTCGACCCTCAGGTTAGTGAAGAATTGCTGTGGGAGCTGTTTGTTCAAGCCGGCCCTGTTGTTAATGTGTATGTTCCCAAAGATCGAGTTACGAACCTGCATCAAGGATACGGATTCGTGGAGTTTCGAAGCGAAGAGGATGCTGATTATGCAATCAAGGTGCTTAATATGATCAAGCTTTATGGAAAGCCAATTCGTGTAAATAAGGCTTCCCAAGATAAAAAGAGCTTGGATGTAGGGGCAAACCTTTTCGTCGGAAATCTTGATCCTGATGTGGATGAGAAACTTCTCTATGATACTTTCAGTGCATTTGGAGTCATAGTTACAAACCCAAAGATAATGAGAGACCCTGAAACTGGGAACTCCCGTGGATTTGGCTTCATTAGCTATGATTCCTTTGAGGCATCTGATGCAGCTATTGAGGCAATGAATGGCCAGTATCTGTGCAATCGTCAAATAACAGTCTCATATGCATATAAGAAAGACACTAAAGGGGAGCGTCATGGCACTCCGGCAGAGAGAGTTTTGGCTGCTAGCAATCCTACATCTAAGAGCCGGCCTCACACACTGTTTGCTAGTGGGCCTCCAACACTTCCCAATGGTTCTCAGGCCAATGGAACCATGGGTGCTCCAGTGCCTCCACGTCCCTTTGCAAATGGCGGTGTTGGTCCGGGTCTGATTCCGCCGCTTCGTCCACAGCCCCCCCAAGGTATGGCTTTCCCGCCGATGCAGATGGCTGTTCAACCAACTTGGCAAGGTCAGCCTCAACAACCAGGTCAACCAATGATGCCTCCACCACCAATGCAGCAGTTCAGACCTGCTCCCCGAACATGCCGCCACCCCTCCACAGGCAGCTCCAGCTCCTCCACGGTCGCTTCCACCTCCTATGGCTATGGGCAATCAACAACAGATGTGGCGGCCACCACCTCCCCCTCAAATGAGGCCTCCTAA
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

347

Amino Acids

37.28

Weight (kDa)

6.53

Isoelectric Point (pI)

37.48

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 28 - 97 4e-20 RNA recognition motif
RRM_1 PF00076 114 - 185 5.1e-21 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: OG0015246)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G18510
fragaria_vesca FvH4_7g10600
malus_domestica MD07G1111200.v1.1
prunus_persica Prupe.2G134600_v2.0.a1
pyrus_communis pycom07g09600
rosa_chinensis RchiOBHm_Chr1g0348441
rosa_laevigata RLG00000016689 RLG00000028645 RLG00000028653 RLG00000028658
rosa_multiflora Rmu_sc0000091.1_g000014
rosa_roxburghii Rroxscaffold_4G00306980
rosa_rugosa Rorug01G0194600
rosa_samantha Rh1BG179000 Rh1CG197000
rosa_wichuraiana Rw1G018000

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 2 cut(s) 198, 919
AccB7I CCANNNNNTGG 1 cut(s) 805
AciI CCGC 7 cut(s) 54, 753, 776, 779, 815, 928, 1010
AclWI GGATC 1 cut(s) 353
AcoI YGGCCR 2 cut(s) 526, 1011
AcyI GRCGYC 1 cut(s) 72
AfiI CCNNNNNNNGG 5 cut(s) 26, 449, 800, 805, 941
AgsI TTSAA 2 cut(s) 140, 836
AjiI CACGTC 1 cut(s) 737
AjnI CCWGG 1 cut(s) 865
AluBI AGCT 7 cut(s) 130, 271, 321, 480, 509, 948, 954
AluI AGCT 7 cut(s) 130, 271, 321, 480, 509, 948, 954
Alw21I GWGCWC 1 cut(s) 724
Alw26I GTCTC 2 cut(s) 432, 562
AlwI GGATC 1 cut(s) 353
AlwNI CAGNNNCTG 1 cut(s) 535
AoxI GGCC 7 cut(s) 145, 526, 650, 674, 702, 1011, 1035
ApeKI GCWGC 4 cut(s) 506, 623, 898, 945
AspS9I GGNCC 3 cut(s) 146, 674, 761
AsuC2I CCSGG 2 cut(s) 21, 765
AsuII TTCGAA 1 cut(s) 220
AsuNHI GCTAGC 1 cut(s) 626
AvaII GGWCC 1 cut(s) 761
AxyI CCTNAGG 1 cut(s) 102
BalI TGGCCA 1 cut(s) 528
Bbv12I GWGCWC 1 cut(s) 724
BbvI GCAGC 4 cut(s) 518, 610, 910, 957
BccI CCATC 1 cut(s) 820
BcgI CGANNNNNNTGC 2 cut(s) 215, 249
BciT130I CCWGG 1 cut(s) 867
BciVI GTATCC 1 cut(s) 194
BclI TGATCA 1 cut(s) 264
BcnI CCSGG 2 cut(s) 21, 765
BcoDI GTCTC 2 cut(s) 432, 562
BfaI CTAG 2 cut(s) 627, 669
BfuAI ACCTGC 2 cut(s) 198, 919
BfuI GTATCC 1 cut(s) 194
BisI GCNGC 7 cut(s) 507, 624, 779, 899, 928, 946, 1011
BlsI GCNGC 7 cut(s) 508, 625, 780, 900, 929, 947, 1012
Bme1390I CCNGG 3 cut(s) 21, 765, 867
Bme18I GGWCC 1 cut(s) 761
BmgBI CACGTC 1 cut(s) 737
BmgT120I GGNCC 3 cut(s) 146, 674, 761
BmiI GGNNCC 2 cut(s) 31, 712
BmrFI CCNGG 3 cut(s) 21, 765, 867
BmrI ACTGGG 1 cut(s) 459
BmsI GCATC 6 cut(s) 202, 223, 493, 506, 810, 870
BmtI GCTAGC 1 cut(s) 630
BmuI ACTGGG 1 cut(s) 459
BplI GAGNNNNNCTC 2 cut(s) 637, 669
BpmI CTGGAG 2 cut(s) 708, 934
Bpu14I TTCGAA 1 cut(s) 220
BpuMI CCSGG 2 cut(s) 21, 765
BsaHI GRCGYC 1 cut(s) 72
BsaI GGTCTC 1 cut(s) 432
BsaJI CCNNGG 4 cut(s) 460, 714, 799, 960
BsaXI ACNNNNNCTCC 2 cut(s) 399, 429
Bsc4I CCNNNNNNNGG 5 cut(s) 26, 449, 800, 805, 941
Bse118I RCCGGY 2 cut(s) 143, 648
Bse1I ACTGG 3 cut(s) 454, 529, 725
Bse21I CCTNAGG 1 cut(s) 102
Bse3DI GCAATG 1 cut(s) 525
BseBI CCWGG 1 cut(s) 867
BseDI CCNNGG 4 cut(s) 460, 714, 799, 960
BseGI GGATG 3 cut(s) 238, 331, 376
BseLI CCNNNNNNNGG 5 cut(s) 26, 449, 800, 805, 941
BseMI GCAATG 1 cut(s) 525
BseMII CTCAG 2 cut(s) 116, 713
BseNI ACTGG 3 cut(s) 454, 529, 725
BseRI GAGGAG 1 cut(s) 946
BseXI GCAGC 4 cut(s) 518, 610, 910, 957
Bsh1285I CGRYCG 1 cut(s) 966
BshFI GGCC 7 cut(s) 147, 528, 652, 676, 704, 1013, 1037
BsiEI CGRYCG 1 cut(s) 966
BsiHKAI GWGCWC 1 cut(s) 724
BsiSI CCGG 5 cut(s) 20, 144, 605, 649, 764
BslFI GGGAC 1 cut(s) 723
BslI CCNNNNNNNGG 5 cut(s) 26, 449, 800, 805, 941
BsmAI GTCTC 2 cut(s) 432, 562
BsmFI GGGAC 1 cut(s) 723
BsnI GGCC 7 cut(s) 147, 528, 652, 676, 704, 1013, 1037
Bso31I GGTCTC 1 cut(s) 432
Bsp119I TTCGAA 1 cut(s) 220
Bsp1286I GDGCHC 1 cut(s) 724
Bsp143I GATC 3 cut(s) 175, 264, 358
Bsp19I CCATGG 1 cut(s) 714
BspACI CCGC 7 cut(s) 54, 753, 776, 779, 815, 928, 1010
BspANI GGCC 7 cut(s) 147, 528, 652, 676, 704, 1013, 1037
BspCNI CTCAG 2 cut(s) 115, 712
BspLI GGNNCC 2 cut(s) 31, 712
BspMI ACCTGC 2 cut(s) 198, 919
BspOI GCTAGC 1 cut(s) 630
BspPI GGATC 1 cut(s) 353
BspT104I TTCGAA 1 cut(s) 220
BspTNI GGTCTC 1 cut(s) 432
BsrDI GCAATG 1 cut(s) 525
BsrFI RCCGGY 2 cut(s) 143, 648
BsrI ACTGG 3 cut(s) 454, 529, 725
BssAI RCCGGY 2 cut(s) 143, 648
BssECI CCNNGG 4 cut(s) 460, 714, 799, 960
BssMI GATC 3 cut(s) 175, 264, 358
BssNI GRCGYC 1 cut(s) 72
BssT1I CCWWGG 2 cut(s) 714, 799
Bst2UI CCWGG 1 cut(s) 867
Bst4CI ACNGT 3 cut(s) 556, 663, 964
Bst6I CTCTTC 1 cut(s) 222
BstACI GRCGYC 1 cut(s) 72
BstAPI GCANNNNNTGC 1 cut(s) 503
BstBI TTCGAA 1 cut(s) 220
BstC8I GCNNGC 3 cut(s) 145, 628, 650
BstDEI CTNAG 3 cut(s) 102, 642, 699
BstDSI CCRYGG 3 cut(s) 460, 714, 960
BstF5I GGATG 3 cut(s) 238, 331, 376
BstKTI GATC 3 cut(s) 178, 267, 361
BstMAI GTCTC 2 cut(s) 432, 562
BstMBI GATC 3 cut(s) 175, 264, 358
BstMCI CGRYCG 1 cut(s) 966
BstMWI GCNNNNNNNGC 7 cut(s) 127, 242, 477, 503, 515, 853, 951
BstNI CCWGG 1 cut(s) 867
BstNSI RCATGY 1 cut(s) 927
BstSCI CCNGG 3 cut(s) 19, 763, 865
BstV1I GCAGC 4 cut(s) 518, 610, 910, 957
Bsu36I CCTNAGG 1 cut(s) 102
BsuI GTATCC 1 cut(s) 194
BsuRI GGCC 7 cut(s) 147, 528, 652, 676, 704, 1013, 1037
BtgI CCRYGG 3 cut(s) 460, 714, 960
BtrI CACGTC 1 cut(s) 737
BtsCI GGATG 3 cut(s) 238, 331, 376
BtsI GCAGTG 1 cut(s) 75
BtsIMutI CAGTG 4 cut(s) 75, 403, 659, 732
BveI ACCTGC 2 cut(s) 198, 919
Cac8I GCNNGC 3 cut(s) 145, 628, 650
CaiI CAGNNNCTG 1 cut(s) 535
Cfr10I RCCGGY 2 cut(s) 143, 648
Cfr13I GGNCC 3 cut(s) 146, 674, 761
CseI GACGC 2 cut(s) 80, 581
CsiI ACCWGGT 1 cut(s) 865
CspCI CAANNNNNGTGG 2 cut(s) 987, 1022
CviAII CATG 3 cut(s) 596, 715, 924
DdeI CTNAG 3 cut(s) 102, 642, 699
DpnI GATC 3 cut(s) 177, 266, 360
DpnII GATC 3 cut(s) 175, 264, 358
EaeI YGGCCR 2 cut(s) 526, 1011
Eam1104I CTCTTC 1 cut(s) 222
EarI CTCTTC 1 cut(s) 222
EciI GGCGGA 2 cut(s) 43, 765
Eco130I CCWWGG 2 cut(s) 714, 799
Eco147I AGGCCT 1 cut(s) 1037
Eco31I GGTCTC 1 cut(s) 432
Eco47I GGWCC 1 cut(s) 761
Eco81I CCTNAGG 1 cut(s) 102
EcoRII CCWGG 1 cut(s) 865
EcoT14I CCWWGG 2 cut(s) 714, 799
EcoT22I ATGCAT 1 cut(s) 568
ErhI CCWWGG 2 cut(s) 714, 799
FaeI CATG 3 cut(s) 599, 718, 927
FaqI GGGAC 1 cut(s) 723
FatI CATG 3 cut(s) 595, 714, 923
FauI CCCGC 1 cut(s) 822
FauNDI CATATG 1 cut(s) 562
FbaI TGATCA 1 cut(s) 264
Fnu4HI GCNGC 7 cut(s) 507, 624, 779, 899, 928, 946, 1011
FokI GGATG 3 cut(s) 245, 338, 383
Fsp4HI GCNGC 7 cut(s) 507, 624, 779, 899, 928, 946, 1011
FspBI CTAG 2 cut(s) 627, 669
GluI GCNGC 7 cut(s) 507, 624, 779, 899, 928, 946, 1011
GsuI CTGGAG 2 cut(s) 708, 934
HaeIII GGCC 7 cut(s) 147, 528, 652, 676, 704, 1013, 1037
HapII CCGG 5 cut(s) 20, 144, 605, 649, 764
HgaI GACGC 2 cut(s) 80, 581
Hin1I GRCGYC 1 cut(s) 72
Hin1II CATG 3 cut(s) 599, 718, 927
HincII GTYRAC 2 cut(s) 47, 872
HindII GTYRAC 2 cut(s) 47, 872
HindIII AAGCTT 1 cut(s) 269
HinfI GANTC 7 cut(s) 7, 12, 24, 207, 408, 485, 772
HpaII CCGG 5 cut(s) 20, 144, 605, 649, 764
Hpy166II GTNNAC 3 cut(s) 47, 788, 872
Hpy188I TCNGA 5 cut(s) 29, 350, 502, 771, 908
Hpy188III TCNNGA 3 cut(s) 95, 356, 362
Hpy8I GTNNAC 3 cut(s) 47, 788, 872
Hpy99I CGWCG 2 cut(s) 89, 350
HpyCH4III ACNGT 3 cut(s) 556, 663, 964
HpyCH4IV ACGT 2 cut(s) 84, 736
HpyCH4V TGCA 9 cut(s) 193, 245, 401, 506, 540, 566, 746, 823, 898
HpyF10VI GCNNNNNNNGC 7 cut(s) 127, 242, 477, 503, 515, 853, 951
HpyF3I CTNAG 3 cut(s) 102, 642, 699
HpySE526I ACGT 2 cut(s) 84, 736
Hsp92I GRCGYC 1 cut(s) 72
Hsp92II CATG 3 cut(s) 599, 718, 927
KroI GCCGGC 2 cut(s) 143, 648
KroNI GCCGGC 2 cut(s) 145, 650
Ksp22I TGATCA 1 cut(s) 264
Kzo9I GATC 3 cut(s) 175, 264, 358
LmnI GCTCC 8 cut(s) 22, 29, 127, 589, 727, 919, 953, 959
Lsp1109I GCAGC 4 cut(s) 518, 610, 910, 957
LweI GCATC 6 cut(s) 202, 223, 493, 506, 810, 870
MabI ACCWGGT 1 cut(s) 865
MaeI CTAG 2 cut(s) 627, 669
MaeII ACGT 2 cut(s) 84, 736
MaeIII GTNAC 2 cut(s) 181, 415
MalI GATC 3 cut(s) 177, 266, 360
MboI GATC 3 cut(s) 175, 264, 358
MboII GAAGA 2 cut(s) 125, 239
MhlI GDGCHC 1 cut(s) 724
MlsI TGGCCA 1 cut(s) 528
MluCI AATT 2 cut(s) 116, 285
MluNI TGGCCA 1 cut(s) 528
MlyI GAGTC 2 cut(s) 33, 417
MmeI TCCRAC 3 cut(s) 7, 328, 704
Mox20I TGGCCA 1 cut(s) 528
Mph1103I ATGCAT 1 cut(s) 568
MroNI GCCGGC 2 cut(s) 143, 648
MscI TGGCCA 1 cut(s) 528
MseI TTAA 2 cut(s) 156, 258
Msp20I TGGCCA 1 cut(s) 528
MspI CCGG 5 cut(s) 20, 144, 605, 649, 764
MspR9I CCNGG 3 cut(s) 21, 765, 867
MvaI CCWGG 1 cut(s) 867
MwoI GCNNNNNNNGC 7 cut(s) 127, 242, 477, 503, 515, 853, 951
NaeI GCCGGC 2 cut(s) 145, 650
NciI CCSGG 2 cut(s) 21, 765
NcoI CCATGG 1 cut(s) 714
NdeI CATATG 1 cut(s) 562
NdeII GATC 3 cut(s) 175, 264, 358
NgoMIV GCCGGC 2 cut(s) 143, 648
NheI GCTAGC 1 cut(s) 626
NlaIII CATG 3 cut(s) 599, 718, 927
NlaIV GGNNCC 2 cut(s) 31, 712
NmeAIII GCCGAG 1 cut(s) 82
NsiI ATGCAT 1 cut(s) 568
NspI RCATGY 1 cut(s) 927
NspV TTCGAA 1 cut(s) 220
PceI AGGCCT 1 cut(s) 1037
PcsI WCGNNNNNNNCGW 1 cut(s) 93
PdiI GCCGGC 2 cut(s) 145, 650
PfeI GAWTC 4 cut(s) 12, 207, 485, 772
PflMI CCANNNNNTGG 1 cut(s) 805
PfoI TCCNGGA 1 cut(s) 19
PkrI GCNGC 7 cut(s) 508, 625, 780, 900, 929, 947, 1012
PleI GAGTC 2 cut(s) 32, 416
PpsI GAGTC 2 cut(s) 32, 416
Psp6I CCWGG 1 cut(s) 865
PspGI CCWGG 1 cut(s) 865
PspN4I GGNNCC 2 cut(s) 31, 712
PspPI GGNCC 3 cut(s) 146, 674, 761
PstNI CAGNNNCTG 1 cut(s) 535
SaqAI TTAA 2 cut(s) 156, 258
SatI GCNGC 7 cut(s) 507, 624, 779, 899, 928, 946, 1011
Sau3AI GATC 3 cut(s) 175, 264, 358
Sau96I GGNCC 3 cut(s) 146, 674, 761
SchI GAGTC 2 cut(s) 33, 417
ScrFI CCNGG 3 cut(s) 21, 765, 867
SduI GDGCHC 1 cut(s) 724
SexAI ACCWGGT 1 cut(s) 865
SfaNI GCATC 6 cut(s) 202, 223, 493, 506, 810, 870
SfuI TTCGAA 1 cut(s) 220
SinI GGWCC 1 cut(s) 761
Sse9I AATT 2 cut(s) 116, 285
SseBI AGGCCT 1 cut(s) 1037
SsiI CCGC 7 cut(s) 54, 753, 776, 779, 815, 928, 1010
SspMI CTAG 2 cut(s) 627, 669
StuI AGGCCT 1 cut(s) 1037
StyD4I CCNGG 3 cut(s) 19, 763, 865
StyI CCWWGG 2 cut(s) 714, 799
TaaI ACNGT 3 cut(s) 556, 663, 964
TaiI ACGT 2 cut(s) 87, 739
TaqI TCGA 4 cut(s) 10, 96, 178, 220
TasI AATT 2 cut(s) 116, 285
TauI GCSGC 3 cut(s) 781, 930, 1013
TfiI GAWTC 4 cut(s) 12, 207, 485, 772
Tru1I TTAA 2 cut(s) 156, 258
Tru9I TTAA 2 cut(s) 156, 258
TscAI CASTG 4 cut(s) 82, 403, 666, 732
TseI GCWGC 4 cut(s) 506, 623, 898, 945
TspDTI ATGAA 2 cut(s) 463, 536
TspGWI ACGGA 1 cut(s) 219
TspRI CASTG 4 cut(s) 82, 403, 666, 732
Van91I CCANNNNNTGG 1 cut(s) 805
VpaK11BI GGWCC 1 cut(s) 761
XceI RCATGY 1 cut(s) 927
XcmI CCANNNNNNNNNTGG 1 cut(s) 712
XspI CTAG 2 cut(s) 627, 669
Zsp2I ATGCAT 1 cut(s) 568
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.