RchiOBHm_Chr1g0348441

Splicing factor 3B subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0015246
Physical Location & Seq
Reverse (-)
41319067 .. 41324241
5175 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ57448

Sequence Viewer

Length: 1119 bp
ATGACGACTCGAATTGCTCCGGGAGTCGGAGCCAACTTGCTCGGTCAACACTCCGCCGAGAGAAACCAAGACGCCACTGCTTACGTCGGCAATCTCGACCCTCAGGTTAGTGAAGAATTGCTGTGGGAGCTGTTTGTTCAAGCTGGCCCTGTTGTTAATGTGTATGTTCCCAAAGATAGAGTGACAAATCTGCATCAAGGATATGGATTTGTGGAATTCCGAAGCGAAGAGGATGCTGATTACGCAATCAAGGTGCTTAATATGATCAAGCTTTATGGAAAGCCAATTCGAGTAAATAAGGCTTCCCAAGATAAAAAGAGCTTGGATGTAGGGGCAAACCTTTTCGTTGGAAATCTTGATCCTGATGTGGATGAGAAACTTCTCTATGATACTTTCAGTGCATTTGGAGTCATAGTTACAAACCCAAAGATAATGAGAGACCCTGAAACTGGGAACTCCCGTGGATTTGGCTTCATTAGTTATGATTCCTTTGAGGCATCTGATGCAGCTATTGAGGCAATGAATGGCCAGTATCTGTGCAATCGTCAAATAACAGTCTCATATGCATATAAGAAAGACACTAAAGGGGAGCGTCATGGTACTCCGGCAGAGAGAGTTTTGGCTGCTAGTAATCCTACATCTAAGAGCCGGCCTCACACACTGTTTGCTAGTGGGCCTCCAACACTTCCCAATGGTTCTCAGGCCAATGGTACCATGGGTGCTCCGGTGCCTCCGCGTCCCTTTGCAAATGGTGGTGTTGGTCCAGGTCTGATTCCGCCGCTTCGTCCACAGCCCCCCCAAGGTATGGCTTTCCCGCCGATGCAGATGGCTGTTCAACCAACTTGGCAAGGTCAGCCTCAACAACCAGGTCAACCAATGATGCCTCCACCGCCAATGCAGCAGTTCAGACCTGCTCCCCCGAACATGCCGCCACCCCCTCCCCAGGCAGCTCCAGCTCCTCCACGGTCGCTTCCACCTCCTATGGCTATGGGCAACCAACAACAGATGTGGCGGCCACCACCTCCCCCTCAAATGAGGCCTCCTAACATGCAACACGCATCAATGCCGCCACCTCCCCCACTTAACAACCCACCCCTACCGCCACCTCCTATGAGTTGA
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

372

Amino Acids

40.32

Weight (kDa)

8.54

Isoelectric Point (pI)

50.94

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 28 - 97 4.5e-20 RNA recognition motif
RRM_1 PF00076 114 - 185 5.7e-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 1 cut(s) 919
Acc65I GGTACC 1 cut(s) 710
AccB1I GGYRCC 2 cut(s) 710, 727
AccB7I CCANNNNNTGG 1 cut(s) 805
AccII CGCG 1 cut(s) 736
AclWI GGATC 1 cut(s) 353
AcoI YGGCCR 2 cut(s) 526, 1013
AcsI RAATTY 1 cut(s) 215
AcyI GRCGYC 1 cut(s) 72
AfaI GTAC 2 cut(s) 601, 712
AfiI CCNNNNNNNGG 5 cut(s) 26, 449, 800, 805, 943
AgsI TTSAA 2 cut(s) 140, 836
AjnI CCWGG 3 cut(s) 763, 865, 942
AluBI AGCT 7 cut(s) 130, 143, 271, 321, 509, 950, 956
AluI AGCT 7 cut(s) 130, 143, 271, 321, 509, 950, 956
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, 1013, 1037
ApeKI GCWGC 4 cut(s) 506, 623, 898, 947
ApoI RAATTY 1 cut(s) 215
Asp718I GGTACC 1 cut(s) 710
AspS9I GGNCC 3 cut(s) 146, 674, 761
AsuC2I CCSGG 1 cut(s) 21
AvaII GGWCC 1 cut(s) 761
AxyI CCTNAGG 1 cut(s) 102
BalI TGGCCA 1 cut(s) 528
BanI GGYRCC 2 cut(s) 710, 727
Bbv12I GWGCWC 1 cut(s) 724
BbvI GCAGC 4 cut(s) 518, 610, 910, 959
BccI CCATC 1 cut(s) 820
BcgI CGANNNNNNTGC 2 cut(s) 215, 249
BciT130I CCWGG 3 cut(s) 765, 867, 944
BclI TGATCA 1 cut(s) 264
BcnI CCSGG 1 cut(s) 21
BcoDI GTCTC 2 cut(s) 432, 562
BfaI CTAG 2 cut(s) 627, 669
BfuAI ACCTGC 1 cut(s) 919
BisI GCNGC 8 cut(s) 507, 624, 779, 899, 929, 948, 1013, 1067
BlsI GCNGC 8 cut(s) 508, 625, 780, 900, 930, 949, 1014, 1068
Bme1390I CCNGG 4 cut(s) 21, 765, 867, 944
Bme18I GGWCC 1 cut(s) 761
BmgT120I GGNCC 3 cut(s) 146, 674, 761
BmiI GGNNCC 3 cut(s) 31, 712, 729
BmrFI CCNGG 4 cut(s) 21, 765, 867, 944
BmrI ACTGGG 1 cut(s) 459
BmsI GCATC 7 cut(s) 202, 223, 493, 506, 810, 870, 1067
BmuI ACTGGG 1 cut(s) 459
BplI GAGNNNNNCTC 2 cut(s) 637, 669
BpmI CTGGAG 1 cut(s) 936
BpuMI CCSGG 1 cut(s) 21
BsaHI GRCGYC 1 cut(s) 72
BsaI GGTCTC 1 cut(s) 432
BsaJI CCNNGG 5 cut(s) 460, 714, 799, 942, 962
BsaWI WCCGGW 1 cut(s) 724
BsaXI ACNNNNNCTCC 2 cut(s) 399, 429
Bsc4I CCNNNNNNNGG 5 cut(s) 26, 449, 800, 805, 943
Bse118I RCCGGY 1 cut(s) 648
Bse1I ACTGG 2 cut(s) 454, 529
Bse21I CCTNAGG 1 cut(s) 102
Bse3DI GCAATG 1 cut(s) 525
BseBI CCWGG 3 cut(s) 765, 867, 944
BseDI CCNNGG 5 cut(s) 460, 714, 799, 942, 962
BseGI GGATG 3 cut(s) 238, 331, 376
BseLI CCNNNNNNNGG 5 cut(s) 26, 449, 800, 805, 943
BseMI GCAATG 1 cut(s) 525
BseMII CTCAG 2 cut(s) 116, 713
BseNI ACTGG 2 cut(s) 454, 529
BseRI GAGGAG 1 cut(s) 948
BseXI GCAGC 4 cut(s) 518, 610, 910, 959
Bsh1236I CGCG 1 cut(s) 736
Bsh1285I CGRYCG 1 cut(s) 968
BshFI GGCC 7 cut(s) 147, 528, 652, 676, 704, 1015, 1039
BshNI GGYRCC 2 cut(s) 710, 727
BsiEI CGRYCG 1 cut(s) 968
BsiHKAI GWGCWC 1 cut(s) 724
BsiSI CCGG 4 cut(s) 20, 605, 649, 725
BslFI GGGAC 1 cut(s) 723
BslI CCNNNNNNNGG 5 cut(s) 26, 449, 800, 805, 943
BsmAI GTCTC 2 cut(s) 432, 562
BsmFI GGGAC 1 cut(s) 723
BsnI GGCC 7 cut(s) 147, 528, 652, 676, 704, 1015, 1039
Bso31I GGTCTC 1 cut(s) 432
Bsp1286I GDGCHC 1 cut(s) 724
Bsp143I GATC 2 cut(s) 264, 358
Bsp19I CCATGG 1 cut(s) 714
BspANI GGCC 7 cut(s) 147, 528, 652, 676, 704, 1015, 1039
BspCNI CTCAG 2 cut(s) 115, 712
BspFNI CGCG 1 cut(s) 736
BspLI GGNNCC 3 cut(s) 31, 712, 729
BspMI ACCTGC 1 cut(s) 919
BspPI GGATC 1 cut(s) 353
BspT107I GGYRCC 2 cut(s) 710, 727
BspTNI GGTCTC 1 cut(s) 432
BsrDI GCAATG 1 cut(s) 525
BsrFI RCCGGY 1 cut(s) 648
BsrI ACTGG 2 cut(s) 454, 529
BssAI RCCGGY 1 cut(s) 648
BssECI CCNNGG 5 cut(s) 460, 714, 799, 942, 962
BssMI GATC 2 cut(s) 264, 358
BssNI GRCGYC 1 cut(s) 72
BssT1I CCWWGG 2 cut(s) 714, 799
Bst2UI CCWGG 3 cut(s) 765, 867, 944
Bst4CI ACNGT 3 cut(s) 556, 663, 966
Bst6I CTCTTC 1 cut(s) 222
BstACI GRCGYC 1 cut(s) 72
BstAPI GCANNNNNTGC 1 cut(s) 503
BstC8I GCNNGC 2 cut(s) 145, 650
BstDEI CTNAG 3 cut(s) 102, 642, 699
BstDSI CCRYGG 3 cut(s) 460, 714, 962
BstF5I GGATG 3 cut(s) 238, 331, 376
BstFNI CGCG 1 cut(s) 736
BstKTI GATC 2 cut(s) 267, 361
BstMAI GTCTC 2 cut(s) 432, 562
BstMBI GATC 2 cut(s) 264, 358
BstMCI CGRYCG 1 cut(s) 968
BstMWI GCNNNNNNNGC 8 cut(s) 127, 242, 503, 515, 853, 889, 898, 953
BstNI CCWGG 3 cut(s) 765, 867, 944
BstNSI RCATGY 2 cut(s) 928, 1051
BstSCI CCNGG 4 cut(s) 19, 763, 865, 942
BstUI CGCG 1 cut(s) 736
BstV1I GCAGC 4 cut(s) 518, 610, 910, 959
Bsu36I CCTNAGG 1 cut(s) 102
BsuRI GGCC 7 cut(s) 147, 528, 652, 676, 704, 1015, 1039
BtgI CCRYGG 3 cut(s) 460, 714, 962
BtsCI GGATG 3 cut(s) 238, 331, 376
BtsI GCAGTG 1 cut(s) 75
BtsIMutI CAGTG 3 cut(s) 75, 403, 659
BveI ACCTGC 1 cut(s) 919
Cac8I GCNNGC 2 cut(s) 145, 650
CaiI CAGNNNCTG 1 cut(s) 535
Cfr10I RCCGGY 1 cut(s) 648
Cfr13I GGNCC 3 cut(s) 146, 674, 761
CseI GACGC 3 cut(s) 80, 581, 725
CsiI ACCWGGT 1 cut(s) 865
Csp6I GTAC 2 cut(s) 600, 711
CspCI CAANNNNNGTGG 2 cut(s) 989, 1024
CviAII CATG 4 cut(s) 596, 715, 925, 1048
CviQI GTAC 2 cut(s) 600, 711
DdeI CTNAG 3 cut(s) 102, 642, 699
DpnI GATC 2 cut(s) 266, 360
DpnII GATC 2 cut(s) 264, 358
EaeI YGGCCR 2 cut(s) 526, 1013
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) 1039
Eco31I GGTCTC 1 cut(s) 432
Eco47I GGWCC 1 cut(s) 761
Eco81I CCTNAGG 1 cut(s) 102
EcoRI GAATTC 1 cut(s) 215
EcoRII CCWGG 3 cut(s) 763, 865, 942
EcoT14I CCWWGG 2 cut(s) 714, 799
EcoT22I ATGCAT 1 cut(s) 568
ErhI CCWWGG 2 cut(s) 714, 799
FaeI CATG 4 cut(s) 599, 718, 928, 1051
FaqI GGGAC 1 cut(s) 723
FatI CATG 4 cut(s) 595, 714, 924, 1047
FauI CCCGC 1 cut(s) 822
FauNDI CATATG 1 cut(s) 562
FbaI TGATCA 1 cut(s) 264
Fnu4HI GCNGC 8 cut(s) 507, 624, 779, 899, 929, 948, 1013, 1067
FokI GGATG 3 cut(s) 245, 338, 383
Fsp4HI GCNGC 8 cut(s) 507, 624, 779, 899, 929, 948, 1013, 1067
FspBI CTAG 2 cut(s) 627, 669
GluI GCNGC 8 cut(s) 507, 624, 779, 899, 929, 948, 1013, 1067
GsuI CTGGAG 1 cut(s) 936
HaeIII GGCC 7 cut(s) 147, 528, 652, 676, 704, 1015, 1039
HapII CCGG 4 cut(s) 20, 605, 649, 725
HgaI GACGC 3 cut(s) 80, 581, 725
Hin1I GRCGYC 1 cut(s) 72
Hin1II CATG 4 cut(s) 599, 718, 928, 1051
HincII GTYRAC 2 cut(s) 47, 872
HindII GTYRAC 2 cut(s) 47, 872
HindIII AAGCTT 1 cut(s) 269
HinfI GANTC 5 cut(s) 7, 24, 408, 485, 772
HpaII CCGG 4 cut(s) 20, 605, 649, 725
Hpy166II GTNNAC 3 cut(s) 47, 788, 872
Hpy188I TCNGA 5 cut(s) 29, 221, 502, 771, 908
Hpy188III TCNNGA 3 cut(s) 95, 356, 362
Hpy8I GTNNAC 3 cut(s) 47, 788, 872
Hpy99I CGWCG 1 cut(s) 89
HpyCH4III ACNGT 3 cut(s) 556, 663, 966
HpyCH4IV ACGT 1 cut(s) 84
HpyCH4V TGCA 9 cut(s) 193, 401, 506, 540, 566, 746, 823, 898, 1051
HpyF10VI GCNNNNNNNGC 8 cut(s) 127, 242, 503, 515, 853, 889, 898, 953
HpyF3I CTNAG 3 cut(s) 102, 642, 699
HpySE526I ACGT 1 cut(s) 84
Hsp92I GRCGYC 1 cut(s) 72
Hsp92II CATG 4 cut(s) 599, 718, 928, 1051
KpnI GGTACC 1 cut(s) 714
KroI GCCGGC 1 cut(s) 648
KroNI GCCGGC 1 cut(s) 650
Ksp22I TGATCA 1 cut(s) 264
Kzo9I GATC 2 cut(s) 264, 358
LmnI GCTCC 8 cut(s) 22, 29, 127, 589, 727, 919, 955, 961
Lsp1109I GCAGC 4 cut(s) 518, 610, 910, 959
LweI GCATC 7 cut(s) 202, 223, 493, 506, 810, 870, 1067
MabI ACCWGGT 1 cut(s) 865
MaeI CTAG 2 cut(s) 627, 669
MaeII ACGT 1 cut(s) 84
MaeIII GTNAC 2 cut(s) 181, 415
MalI GATC 2 cut(s) 266, 360
MboI GATC 2 cut(s) 264, 358
MboII GAAGA 2 cut(s) 125, 239
MhlI GDGCHC 1 cut(s) 724
MlsI TGGCCA 1 cut(s) 528
MluCI AATT 4 cut(s) 12, 116, 215, 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 1 cut(s) 648
MscI TGGCCA 1 cut(s) 528
MseI TTAA 3 cut(s) 156, 258, 1083
Msp20I TGGCCA 1 cut(s) 528
MspI CCGG 4 cut(s) 20, 605, 649, 725
MspR9I CCNGG 4 cut(s) 21, 765, 867, 944
MvaI CCWGG 3 cut(s) 765, 867, 944
MvnI CGCG 1 cut(s) 736
MwoI GCNNNNNNNGC 8 cut(s) 127, 242, 503, 515, 853, 889, 898, 953
NaeI GCCGGC 1 cut(s) 650
NciI CCSGG 1 cut(s) 21
NcoI CCATGG 1 cut(s) 714
NdeI CATATG 1 cut(s) 562
NdeII GATC 2 cut(s) 264, 358
NgoMIV GCCGGC 1 cut(s) 648
NlaIII CATG 4 cut(s) 599, 718, 928, 1051
NlaIV GGNNCC 3 cut(s) 31, 712, 729
NmeAIII GCCGAG 1 cut(s) 82
NmuCI GTSAC 1 cut(s) 181
NsiI ATGCAT 1 cut(s) 568
NspI RCATGY 2 cut(s) 928, 1051
PceI AGGCCT 1 cut(s) 1039
PcsI WCGNNNNNNNCGW 1 cut(s) 93
PdiI GCCGGC 1 cut(s) 650
PfeI GAWTC 2 cut(s) 485, 772
PflMI CCANNNNNTGG 1 cut(s) 805
PfoI TCCNGGA 1 cut(s) 19
PkrI GCNGC 8 cut(s) 508, 625, 780, 900, 930, 949, 1014, 1068
PleI GAGTC 2 cut(s) 32, 416
PpsI GAGTC 2 cut(s) 32, 416
Psp6I CCWGG 3 cut(s) 763, 865, 942
PspGI CCWGG 3 cut(s) 763, 865, 942
PspN4I GGNNCC 3 cut(s) 31, 712, 729
PspPI GGNCC 3 cut(s) 146, 674, 761
PstNI CAGNNNCTG 1 cut(s) 535
RsaI GTAC 2 cut(s) 601, 712
RsaNI GTAC 2 cut(s) 600, 711
SaqAI TTAA 3 cut(s) 156, 258, 1083
SatI GCNGC 8 cut(s) 507, 624, 779, 899, 929, 948, 1013, 1067
Sau3AI GATC 2 cut(s) 264, 358
Sau96I GGNCC 3 cut(s) 146, 674, 761
SchI GAGTC 2 cut(s) 33, 417
ScrFI CCNGG 4 cut(s) 21, 765, 867, 944
SduI GDGCHC 1 cut(s) 724
SexAI ACCWGGT 1 cut(s) 865
SfaNI GCATC 7 cut(s) 202, 223, 493, 506, 810, 870, 1067
SinI GGWCC 1 cut(s) 761
Sse9I AATT 4 cut(s) 12, 116, 215, 285
SseBI AGGCCT 1 cut(s) 1039
SspMI CTAG 2 cut(s) 627, 669
StuI AGGCCT 1 cut(s) 1039
StyD4I CCNGG 4 cut(s) 19, 763, 865, 942
StyI CCWWGG 2 cut(s) 714, 799
TaaI ACNGT 3 cut(s) 556, 663, 966
TaiI ACGT 1 cut(s) 87
TaqI TCGA 3 cut(s) 10, 96, 289
TaqII GACCGA 1 cut(s) 32
TasI AATT 4 cut(s) 12, 116, 215, 285
TauI GCSGC 4 cut(s) 781, 931, 1015, 1069
TfiI GAWTC 2 cut(s) 485, 772
Tru1I TTAA 3 cut(s) 156, 258, 1083
Tru9I TTAA 3 cut(s) 156, 258, 1083
TscAI CASTG 3 cut(s) 82, 403, 666
TseFI GTSAC 1 cut(s) 181
TseI GCWGC 4 cut(s) 506, 623, 898, 947
Tsp45I GTSAC 1 cut(s) 181
TspDTI ATGAA 2 cut(s) 463, 536
TspRI CASTG 3 cut(s) 82, 403, 666
Van91I CCANNNNNTGG 1 cut(s) 805
VpaK11BI GGWCC 1 cut(s) 761
XapI RAATTY 1 cut(s) 215
XceI RCATGY 2 cut(s) 928, 1051
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.