RchiOBHm_Chr1g0366271

THO complex subunit 4A-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0004491
Physical Location & Seq
Forward (+)
56888918 .. 56892021
3104 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 963 bp
ATGCCCTTCCCTCAGGACCGCCTGGACCTCCCTCTCGACGCCCTCATCGCCGAATCCAAGCAACAACGCCGTCACAACAGCCACGCTCACCACCCACGAGGGCATACCGGTCATTTCGGCGGCAGAGGCCGTGGAGGCTCCACCTCAGGCCCCGCTCGTCGGCCGATGAACCACAACGCCTACAGAACGGCGCCGTATCCCACTCTGCCAGAAATGCAAGGACAGCCTGGACCCAGAAGGATTGAGCTGCCATTGGCTTTGAGCCAAGCGATGAACAGAGAGGAAAGCACCAAGCTTTATATATCTAACTTGGACTATAGTGTTACCAATAGAGATATAGAGTTGCTCTTCTCTGAGGTTGGTGAGTTGGAAAGGCACTCAATCCATTATGATAAAAGTGGAAGATCTAAGGGAACAGCTGAAGTTGTCTATAAGCACCATTCAGATGCTCTAGCAGCAATCGAGAGATATAACAATCAGCATCTTGATGGAAAGAAAGTGGAAATTAAGCTTGTGGGACTCAATGTTGTTTCTCCTGTTCCTCTGCTTCTGCCTCCAAATACAAATTTCTTGCAAGAACATCCAAGTCCCATCTTCCAGAGGCTAGGAAGAGTTGGTTCAAGGAGATCGTTTCATGGTCATGGTGGTGTTGAACTTGAAAGAGGCCGTGGACGGGTGAGAAATGGTGGCCCGAAGGTTACTACAGAATCTCAGCAATGGAAGAATGTGACTCCAGAATCTCAGCAATGGAAGAATGTGACTCCAGAATCTCAGCAAAGGAAGAATGTGACTGCAGAAAATCAGCAAAGGAAGAATGTGACTGCAGAAAATCAGCAAAGGAAGAATGTGATTACAGAATCTATTAACAGGAAGAAAACTTTTTATGGAGATACAACTGTGACTTTTGAAGATCTGGATGCTGATTTGGAGAAATATCGCCTAAAAGGTAGGCCGGTAAACTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03013 ko03015 ko03040 ko05168 map03013 map03015 map03040 map05168
Pfam Domains
Protein Families
FoP_duplication RRM_1

Protein Analysis

320

Amino Acids

36.28

Weight (kDa)

9.89

Isoelectric Point (pI)

50.64

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 99 - 167 1.7e-15 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 190
AccBSI CCGCTC 1 cut(s) 155
AciI CCGC 3 cut(s) 19, 120, 153
AcoI YGGCCR 1 cut(s) 161
AcsI RAATTY 1 cut(s) 565
AcuI CTGAAG 1 cut(s) 441
AcyI GRCGYC 2 cut(s) 39, 191
AfiI CCNNNNNNNGG 2 cut(s) 159, 673
AgeI ACCGGT 1 cut(s) 107
AgsI TTSAA 4 cut(s) 621, 653, 659, 908
AjnI CCWGG 2 cut(s) 21, 226
AluBI AGCT 4 cut(s) 247, 295, 419, 511
AluI AGCT 4 cut(s) 247, 295, 419, 511
AoxI GGCC 6 cut(s) 127, 148, 161, 664, 688, 950
ApeKI GCWGC 2 cut(s) 247, 455
ApoI RAATTY 1 cut(s) 565
AsiGI ACCGGT 1 cut(s) 107
AspLEI GCGC 1 cut(s) 193
AspS9I GGNCC 5 cut(s) 16, 25, 149, 230, 689
AsuHPI GGTGA 3 cut(s) 80, 374, 688
AvaII GGWCC 3 cut(s) 16, 25, 230
AxyI CCTNAGG 2 cut(s) 12, 145
BaeI ACNNNNGTAYC 2 cut(s) 882, 915
BanI GGYRCC 1 cut(s) 190
BauI CACGAG 1 cut(s) 96
BbvI GCAGC 2 cut(s) 234, 467
BccI CCATC 2 cut(s) 482, 599
BceAI ACGGC 5 cut(s) 54, 114, 178, 204, 651
BciT130I CCWGG 2 cut(s) 23, 228
BciVI GTATCC 1 cut(s) 207
BfaI CTAG 2 cut(s) 452, 605
BfmI CTRYAG 5 cut(s) 181, 316, 702, 792, 822
BfoI RGCGCY 1 cut(s) 194
BfuI GTATCC 1 cut(s) 207
BglI GCCNNNNNGGC 1 cut(s) 135
BglII AGATCT 2 cut(s) 404, 910
BisI GCNGC 3 cut(s) 121, 248, 456
BlsI GCNGC 3 cut(s) 122, 249, 457
Bme1390I CCNGG 2 cut(s) 23, 228
Bme18I GGWCC 3 cut(s) 16, 25, 230
BmgT120I GGNCC 5 cut(s) 16, 25, 149, 230, 689
BmiI GGNNCC 4 cut(s) 139, 151, 192, 232
BmrFI CCNGG 2 cut(s) 23, 228
BmsI GCATC 3 cut(s) 436, 490, 907
BpmI CTGGAG 2 cut(s) 717, 747
BsaHI GRCGYC 2 cut(s) 39, 191
BsaJI CCNNGG 2 cut(s) 130, 667
BsaWI WCCGGW 1 cut(s) 107
Bsc4I CCNNNNNNNGG 2 cut(s) 159, 673
Bse118I RCCGGY 2 cut(s) 107, 952
Bse21I CCTNAGG 2 cut(s) 12, 145
Bse3DI GCAATG 2 cut(s) 722, 752
BseBI CCWGG 2 cut(s) 23, 228
BseDI CCNNGG 2 cut(s) 130, 667
BseGI GGATG 2 cut(s) 580, 922
BseLI CCNNNNNNNGG 2 cut(s) 159, 673
BseMI GCAATG 2 cut(s) 722, 752
BseMII CTCAG 6 cut(s) 26, 159, 345, 725, 755, 785
BseX3I CGGCCG 1 cut(s) 161
BseXI GCAGC 2 cut(s) 234, 467
Bsh1285I CGRYCG 1 cut(s) 164
BshFI GGCC 6 cut(s) 129, 150, 163, 666, 690, 952
BshNI GGYRCC 1 cut(s) 190
BshTI ACCGGT 1 cut(s) 107
BsiEI CGRYCG 1 cut(s) 164
BsiSI CCGG 2 cut(s) 108, 953
BslFI GGGAC 2 cut(s) 531, 573
BslI CCNNNNNNNGG 2 cut(s) 159, 673
BsmFI GGGAC 2 cut(s) 531, 573
BsnI GGCC 6 cut(s) 129, 150, 163, 666, 690, 952
Bsp143I GATC 3 cut(s) 404, 626, 910
BspACI CCGC 3 cut(s) 19, 120, 153
BspANI GGCC 6 cut(s) 129, 150, 163, 666, 690, 952
BspCNI CTCAG 6 cut(s) 25, 158, 346, 724, 754, 784
BspLI GGNNCC 4 cut(s) 139, 151, 192, 232
BspMAI CTGCAG 2 cut(s) 796, 826
BspQI GCTCTTC 1 cut(s) 353
BspT107I GGYRCC 1 cut(s) 190
BsrBI CCGCTC 1 cut(s) 155
BsrDI GCAATG 2 cut(s) 722, 752
BsrFI RCCGGY 2 cut(s) 107, 952
BssAI RCCGGY 2 cut(s) 107, 952
BssECI CCNNGG 2 cut(s) 130, 667
BssMI GATC 3 cut(s) 404, 626, 910
BssNI GRCGYC 2 cut(s) 39, 191
BssSI CACGAG 1 cut(s) 96
Bst2BI CACGAG 1 cut(s) 96
Bst2UI CCWGG 2 cut(s) 23, 228
Bst4CI ACNGT 1 cut(s) 898
Bst6I CTCTTC 2 cut(s) 353, 604
BstACI GRCGYC 2 cut(s) 39, 191
BstDEI CTNAG 7 cut(s) 12, 145, 354, 408, 711, 741, 771
BstDSI CCRYGG 2 cut(s) 130, 667
BstF5I GGATG 2 cut(s) 580, 922
BstH2I RGCGCY 1 cut(s) 194
BstHHI GCGC 1 cut(s) 193
BstKTI GATC 3 cut(s) 407, 629, 913
BstMBI GATC 3 cut(s) 404, 626, 910
BstMCI CGRYCG 1 cut(s) 164
BstMWI GCNNNNNNNGC 6 cut(s) 47, 126, 135, 214, 223, 455
BstNI CCWGG 2 cut(s) 23, 228
BstSCI CCNGG 2 cut(s) 21, 226
BstSFI CTRYAG 5 cut(s) 181, 316, 702, 792, 822
BstV1I GCAGC 2 cut(s) 234, 467
BstX2I RGATCY 2 cut(s) 404, 910
BstYI RGATCY 2 cut(s) 404, 910
BstZI CGGCCG 1 cut(s) 161
Bsu36I CCTNAGG 2 cut(s) 12, 145
BsuI GTATCC 1 cut(s) 207
BsuRI GGCC 6 cut(s) 129, 150, 163, 666, 690, 952
BtgI CCRYGG 2 cut(s) 130, 667
BtgZI GCGATG 2 cut(s) 31, 284
BtsCI GGATG 2 cut(s) 580, 922
CfoI GCGC 1 cut(s) 193
Cfr10I RCCGGY 2 cut(s) 107, 952
Cfr13I GGNCC 5 cut(s) 16, 25, 149, 230, 689
CseI GACGC 1 cut(s) 47
CspAI ACCGGT 1 cut(s) 107
CviAII CATG 2 cut(s) 635, 641
DdeI CTNAG 7 cut(s) 12, 145, 354, 408, 711, 741, 771
DinI GGCGCC 1 cut(s) 192
DpnI GATC 3 cut(s) 406, 628, 912
DpnII GATC 3 cut(s) 404, 626, 910
EaeI YGGCCR 1 cut(s) 161
EagI CGGCCG 1 cut(s) 161
Eam1104I CTCTTC 2 cut(s) 353, 604
EarI CTCTTC 2 cut(s) 353, 604
EclXI CGGCCG 1 cut(s) 161
Eco47I GGWCC 3 cut(s) 16, 25, 230
Eco52I CGGCCG 1 cut(s) 161
Eco57I CTGAAG 1 cut(s) 441
Eco81I CCTNAGG 2 cut(s) 12, 145
EcoO109I RGGNCCY 1 cut(s) 149
EcoRII CCWGG 2 cut(s) 21, 226
EgeI GGCGCC 1 cut(s) 192
EheI GGCGCC 1 cut(s) 192
FaeI CATG 2 cut(s) 638, 644
FaqI GGGAC 2 cut(s) 531, 573
FatI CATG 2 cut(s) 634, 640
FauI CCCGC 1 cut(s) 160
Fnu4HI GCNGC 3 cut(s) 121, 248, 456
FokI GGATG 2 cut(s) 567, 929
Fsp4HI GCNGC 3 cut(s) 121, 248, 456
FspBI CTAG 2 cut(s) 452, 605
GlaI GCGC 1 cut(s) 192
GluI GCNGC 3 cut(s) 121, 248, 456
GsuI CTGGAG 2 cut(s) 717, 747
HaeII RGCGCY 1 cut(s) 194
HaeIII GGCC 6 cut(s) 129, 150, 163, 666, 690, 952
HapII CCGG 2 cut(s) 108, 953
HgaI GACGC 1 cut(s) 47
HhaI GCGC 1 cut(s) 193
Hin1I GRCGYC 2 cut(s) 39, 191
Hin1II CATG 2 cut(s) 638, 644
Hin6I GCGC 1 cut(s) 191
HinP1I GCGC 1 cut(s) 191
HindIII AAGCTT 2 cut(s) 293, 509
HinfI GANTC 8 cut(s) 53, 519, 707, 730, 737, 760, 767, 857
HpaII CCGG 2 cut(s) 108, 953
HphI GGTGA 3 cut(s) 80, 374, 688
Hpy166II GTNNAC 2 cut(s) 671, 958
Hpy188I TCNGA 2 cut(s) 355, 445
Hpy188III TCNNGA 8 cut(s) 14, 35, 463, 485, 598, 734, 764, 914
Hpy8I GTNNAC 2 cut(s) 671, 958
Hpy99I CGWCG 2 cut(s) 41, 162
HpyAV CCTTC 3 cut(s) 16, 231, 688
HpyCH4III ACNGT 1 cut(s) 898
HpyCH4V TGCA 4 cut(s) 217, 574, 794, 824
HpyF10VI GCNNNNNNNGC 6 cut(s) 47, 126, 135, 214, 223, 455
HpyF3I CTNAG 7 cut(s) 12, 145, 354, 408, 711, 741, 771
Hsp92I GRCGYC 2 cut(s) 39, 191
Hsp92II CATG 2 cut(s) 638, 644
HspAI GCGC 1 cut(s) 191
KasI GGCGCC 1 cut(s) 190
Kzo9I GATC 3 cut(s) 404, 626, 910
LguI GCTCTTC 1 cut(s) 353
LmnI GCTCC 1 cut(s) 143
Lsp1109I GCAGC 2 cut(s) 234, 467
LweI GCATC 3 cut(s) 436, 490, 907
MaeI CTAG 2 cut(s) 452, 605
MaeIII GTNAC 8 cut(s) 71, 322, 697, 727, 757, 787, 817, 898
MalI GATC 3 cut(s) 406, 628, 912
MbiI CCGCTC 1 cut(s) 155
MboI GATC 3 cut(s) 404, 626, 910
MflI RGATCY 2 cut(s) 404, 910
MluCI AATT 2 cut(s) 504, 565
Mly113I GGCGCC 1 cut(s) 191
MlyI GAGTC 3 cut(s) 513, 724, 754
MmeI TCCRAC 1 cut(s) 348
MseI TTAA 2 cut(s) 507, 864
MslI CAYNNNNRTG 4 cut(s) 444, 486, 639, 645
MspA1I CMGCKG 1 cut(s) 419
MspI CCGG 2 cut(s) 108, 953
MspR9I CCNGG 2 cut(s) 23, 228
MvaI CCWGG 2 cut(s) 23, 228
MwoI GCNNNNNNNGC 6 cut(s) 47, 126, 135, 214, 223, 455
NarI GGCGCC 1 cut(s) 191
NdeII GATC 3 cut(s) 404, 626, 910
NlaIII CATG 2 cut(s) 638, 644
NlaIV GGNNCC 4 cut(s) 139, 151, 192, 232
NmuCI GTSAC 6 cut(s) 71, 727, 757, 787, 817, 898
PciSI GCTCTTC 1 cut(s) 353
PfeI GAWTC 5 cut(s) 53, 707, 737, 767, 857
PinAI ACCGGT 1 cut(s) 107
PkrI GCNGC 3 cut(s) 122, 249, 457
PleI GAGTC 3 cut(s) 513, 724, 754
PluTI GGCGCC 1 cut(s) 194
PpsI GAGTC 3 cut(s) 513, 724, 754
Psp6I CCWGG 2 cut(s) 21, 226
PspGI CCWGG 2 cut(s) 21, 226
PspN4I GGNNCC 4 cut(s) 139, 151, 192, 232
PspPI GGNCC 5 cut(s) 16, 25, 149, 230, 689
PstI CTGCAG 2 cut(s) 796, 826
PsuI RGATCY 2 cut(s) 404, 910
PvuII CAGCTG 1 cut(s) 419
RseI CAYNNNNRTG 4 cut(s) 444, 486, 639, 645
SapI GCTCTTC 1 cut(s) 353
SaqAI TTAA 2 cut(s) 507, 864
SatI GCNGC 3 cut(s) 121, 248, 456
Sau3AI GATC 3 cut(s) 404, 626, 910
Sau96I GGNCC 5 cut(s) 16, 25, 149, 230, 689
SchI GAGTC 3 cut(s) 513, 724, 754
ScrFI CCNGG 2 cut(s) 23, 228
SetI ASST 9 cut(s) 30, 146, 249, 297, 360, 421, 513, 699, 949
SfaNI GCATC 3 cut(s) 436, 490, 907
SfcI CTRYAG 5 cut(s) 181, 316, 702, 792, 822
SfoI GGCGCC 1 cut(s) 192
SinI GGWCC 3 cut(s) 16, 25, 230
SmiMI CAYNNNNRTG 4 cut(s) 444, 486, 639, 645
Sse9I AATT 2 cut(s) 504, 565
SsiI CCGC 3 cut(s) 19, 120, 153
SspDI GGCGCC 1 cut(s) 190
SspMI CTAG 2 cut(s) 452, 605
StyD4I CCNGG 2 cut(s) 21, 226
TaaI ACNGT 1 cut(s) 898
TaqI TCGA 2 cut(s) 36, 462
TasI AATT 2 cut(s) 504, 565
TauI GCSGC 1 cut(s) 123
TfiI GAWTC 5 cut(s) 53, 707, 737, 767, 857
Tru1I TTAA 2 cut(s) 507, 864
Tru9I TTAA 2 cut(s) 507, 864
TseFI GTSAC 6 cut(s) 71, 727, 757, 787, 817, 898
TseI GCWGC 2 cut(s) 247, 455
Tsp45I GTSAC 6 cut(s) 71, 727, 757, 787, 817, 898
TspDTI ATGAA 3 cut(s) 182, 287, 623
VpaK11BI GGWCC 3 cut(s) 16, 25, 230
XapI RAATTY 1 cut(s) 565
XspI CTAG 2 cut(s) 452, 605
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.