RchiOBHm_Chr3g0492141

THO complex subunit 4A-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0004491
Physical Location & Seq
Forward (+)
38886226 .. 38889343
3118 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ45503

Sequence Viewer

Length: 669 bp
ATGCCCTTCCCTCAGGACCGCCTGGACCTCCCTCTCGACGCCCTCATCGCCGAATCCAAGCAACAACGCCGTCACAACAGCCACGCTCACCAGCCACGAGGGCATAACGGTCATTTCGGCGGCGGAGGCTCCACCTCAGGCCCCTCTCGTCGGCCGATGAACCGCAACGCCTACAGAACGGCGCCGTATCCCACTCTGCCGGAAATGCAAGGACAGCCTAGACCCAGAAGGATTGAGCTGCCATTGGCTTTGAGCCAAGCGATGAACAGTGAGGGAAGCACCAAGCTTTATATATCTAACTTGGACTATGATGTTACCAATCGAGATATAGAGTTGCTCTTCTCTGAGGTTGGTGAATTGGAAAGGCACTCAATCCATTATGATAAAAGTGGAAGATCTAAGGGAACAGCTGAAGTTGTCTATAAGCACTATTCAGATGCTCTAGCAGCAATCGAGAGATACAACAATCAGCATCTTGATGGAAAGAAAGTGGAAATTAAGCTTGTGGGACTCAATGTTGTTTCTCCTGTTCCTCTGCTTCTGCCTCCAAATACAAATTTCATGCAAGAACATCCAACTCCCGTCTTCCAGAGGCTAGGAAGAGCTGGTTCAAGGGATCGTTTCATGGTCATGGTGGTGTTGGACTTGAAAGAGGCTGTGGACAGGTGA
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

222

Amino Acids

25.05

Weight (kDa)

9.33

Isoelectric Point (pI)

52.9

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 96 - 164 6.4e-16 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) 181
AciI CCGC 4 cut(s) 19, 120, 123, 163
AclWI GGATC 1 cut(s) 624
AcoI YGGCCR 1 cut(s) 152
AcsI RAATTY 1 cut(s) 556
AcuI CTGAAG 1 cut(s) 432
AcyI GRCGYC 2 cut(s) 39, 182
AfiI CCNNNNNNNGG 1 cut(s) 150
AgsI TTSAA 2 cut(s) 612, 649
AjnI CCWGG 1 cut(s) 21
AluBI AGCT 5 cut(s) 238, 286, 410, 502, 605
AluI AGCT 5 cut(s) 238, 286, 410, 502, 605
AlwI GGATC 1 cut(s) 624
AoxI GGCC 2 cut(s) 139, 152
ApeKI GCWGC 2 cut(s) 238, 446
ApoI RAATTY 1 cut(s) 556
AspLEI GCGC 1 cut(s) 184
AspS9I GGNCC 3 cut(s) 16, 25, 140
AsuHPI GGTGA 2 cut(s) 80, 365
AvaII GGWCC 2 cut(s) 16, 25
AxyI CCTNAGG 2 cut(s) 12, 136
BanI GGYRCC 1 cut(s) 181
BauI CACGAG 1 cut(s) 96
BbsI GAAGAC 1 cut(s) 577
BbvI GCAGC 2 cut(s) 225, 458
BccI CCATC 1 cut(s) 473
BceAI ACGGC 3 cut(s) 54, 169, 195
BciT130I CCWGG 1 cut(s) 23
BciVI GTATCC 1 cut(s) 198
BfaI CTAG 3 cut(s) 219, 443, 596
BfmI CTRYAG 1 cut(s) 172
BfoI RGCGCY 1 cut(s) 185
BfuI GTATCC 1 cut(s) 198
BglI GCCNNNNNGGC 1 cut(s) 100
BglII AGATCT 1 cut(s) 395
BisI GCNGC 3 cut(s) 121, 239, 447
BlsI GCNGC 3 cut(s) 122, 240, 448
Bme1390I CCNGG 1 cut(s) 23
Bme18I GGWCC 2 cut(s) 16, 25
BmgT120I GGNCC 3 cut(s) 16, 25, 140
BmiI GGNNCC 3 cut(s) 130, 142, 183
BmrFI CCNGG 1 cut(s) 23
BmsI GCATC 2 cut(s) 427, 481
BpiI GAAGAC 1 cut(s) 577
BsaHI GRCGYC 2 cut(s) 39, 182
Bsc4I CCNNNNNNNGG 1 cut(s) 150
Bse21I CCTNAGG 2 cut(s) 12, 136
BseBI CCWGG 1 cut(s) 23
BseGI GGATG 1 cut(s) 571
BseLI CCNNNNNNNGG 1 cut(s) 150
BseMII CTCAG 3 cut(s) 26, 150, 336
BseX3I CGGCCG 1 cut(s) 152
BseXI GCAGC 2 cut(s) 225, 458
Bsh1285I CGRYCG 1 cut(s) 155
BshFI GGCC 2 cut(s) 141, 154
BshNI GGYRCC 1 cut(s) 181
BsiEI CGRYCG 1 cut(s) 155
BsiSI CCGG 1 cut(s) 200
BslFI GGGAC 1 cut(s) 522
BslI CCNNNNNNNGG 1 cut(s) 150
BsmFI GGGAC 1 cut(s) 522
BsnI GGCC 2 cut(s) 141, 154
Bsp143I GATC 2 cut(s) 395, 616
BspACI CCGC 4 cut(s) 19, 120, 123, 163
BspANI GGCC 2 cut(s) 141, 154
BspCNI CTCAG 3 cut(s) 25, 149, 337
BspLI GGNNCC 3 cut(s) 130, 142, 183
BspPI GGATC 1 cut(s) 624
BspQI GCTCTTC 2 cut(s) 344, 595
BspT107I GGYRCC 1 cut(s) 181
BssMI GATC 2 cut(s) 395, 616
BssNI GRCGYC 2 cut(s) 39, 182
BssSI CACGAG 1 cut(s) 96
Bst2BI CACGAG 1 cut(s) 96
Bst2UI CCWGG 1 cut(s) 23
Bst4CI ACNGT 2 cut(s) 110, 269
Bst6I CTCTTC 2 cut(s) 344, 595
BstACI GRCGYC 2 cut(s) 39, 182
BstDEI CTNAG 4 cut(s) 12, 136, 345, 399
BstF5I GGATG 1 cut(s) 571
BstH2I RGCGCY 1 cut(s) 185
BstHHI GCGC 1 cut(s) 184
BstKTI GATC 2 cut(s) 398, 619
BstMBI GATC 2 cut(s) 395, 616
BstMCI CGRYCG 1 cut(s) 155
BstMWI GCNNNNNNNGC 6 cut(s) 47, 100, 126, 205, 214, 446
BstNI CCWGG 1 cut(s) 23
BstSCI CCNGG 1 cut(s) 21
BstSFI CTRYAG 1 cut(s) 172
BstV1I GCAGC 2 cut(s) 225, 458
BstV2I GAAGAC 1 cut(s) 577
BstX2I RGATCY 1 cut(s) 395
BstYI RGATCY 1 cut(s) 395
BstZI CGGCCG 1 cut(s) 152
Bsu36I CCTNAGG 2 cut(s) 12, 136
BsuI GTATCC 1 cut(s) 198
BsuRI GGCC 2 cut(s) 141, 154
BtgZI GCGATG 2 cut(s) 31, 275
BtsCI GGATG 1 cut(s) 571
BtsIMutI CAGTG 1 cut(s) 274
CfoI GCGC 1 cut(s) 184
Cfr13I GGNCC 3 cut(s) 16, 25, 140
CseI GACGC 1 cut(s) 47
CviAII CATG 3 cut(s) 562, 625, 631
DdeI CTNAG 4 cut(s) 12, 136, 345, 399
DinI GGCGCC 1 cut(s) 183
DpnI GATC 2 cut(s) 397, 618
DpnII GATC 2 cut(s) 395, 616
EaeI YGGCCR 1 cut(s) 152
EagI CGGCCG 1 cut(s) 152
Eam1104I CTCTTC 2 cut(s) 344, 595
EarI CTCTTC 2 cut(s) 344, 595
EciI GGCGGA 1 cut(s) 138
EclXI CGGCCG 1 cut(s) 152
Eco47I GGWCC 2 cut(s) 16, 25
Eco52I CGGCCG 1 cut(s) 152
Eco57I CTGAAG 1 cut(s) 432
Eco81I CCTNAGG 2 cut(s) 12, 136
EcoO109I RGGNCCY 1 cut(s) 140
EcoRII CCWGG 1 cut(s) 21
EgeI GGCGCC 1 cut(s) 183
EheI GGCGCC 1 cut(s) 183
FaeI CATG 3 cut(s) 565, 628, 634
FaqI GGGAC 1 cut(s) 522
FatI CATG 3 cut(s) 561, 624, 630
Fnu4HI GCNGC 3 cut(s) 121, 239, 447
FokI GGATG 1 cut(s) 558
Fsp4HI GCNGC 3 cut(s) 121, 239, 447
FspBI CTAG 3 cut(s) 219, 443, 596
GlaI GCGC 1 cut(s) 183
GluI GCNGC 3 cut(s) 121, 239, 447
HaeII RGCGCY 1 cut(s) 185
HaeIII GGCC 2 cut(s) 141, 154
HapII CCGG 1 cut(s) 200
HgaI GACGC 1 cut(s) 47
HhaI GCGC 1 cut(s) 184
Hin1I GRCGYC 2 cut(s) 39, 182
Hin1II CATG 3 cut(s) 565, 628, 634
Hin6I GCGC 1 cut(s) 182
HinP1I GCGC 1 cut(s) 182
HindIII AAGCTT 2 cut(s) 284, 500
HinfI GANTC 2 cut(s) 53, 510
HpaII CCGG 1 cut(s) 200
HphI GGTGA 2 cut(s) 80, 365
Hpy166II GTNNAC 1 cut(s) 661
Hpy188I TCNGA 2 cut(s) 346, 436
Hpy188III TCNNGA 6 cut(s) 14, 35, 323, 454, 476, 589
Hpy8I GTNNAC 1 cut(s) 661
Hpy99I CGWCG 2 cut(s) 41, 153
HpyAV CCTTC 2 cut(s) 16, 222
HpyCH4III ACNGT 2 cut(s) 110, 269
HpyCH4V TGCA 2 cut(s) 208, 565
HpyF10VI GCNNNNNNNGC 6 cut(s) 47, 100, 126, 205, 214, 446
HpyF3I CTNAG 4 cut(s) 12, 136, 345, 399
Hsp92I GRCGYC 2 cut(s) 39, 182
Hsp92II CATG 3 cut(s) 565, 628, 634
HspAI GCGC 1 cut(s) 182
KasI GGCGCC 1 cut(s) 181
Kzo9I GATC 2 cut(s) 395, 616
LguI GCTCTTC 2 cut(s) 344, 595
LmnI GCTCC 1 cut(s) 134
Lsp1109I GCAGC 2 cut(s) 225, 458
LweI GCATC 2 cut(s) 427, 481
MaeI CTAG 3 cut(s) 219, 443, 596
MaeIII GTNAC 2 cut(s) 71, 313
MalI GATC 2 cut(s) 397, 618
MboI GATC 2 cut(s) 395, 616
MboII GAAGA 4 cut(s) 331, 405, 577, 612
MflI RGATCY 1 cut(s) 395
MluCI AATT 3 cut(s) 356, 495, 556
Mly113I GGCGCC 1 cut(s) 182
MlyI GAGTC 1 cut(s) 504
MmeI TCCRAC 2 cut(s) 599, 621
MseI TTAA 1 cut(s) 498
MslI CAYNNNNRTG 3 cut(s) 477, 629, 635
MspA1I CMGCKG 1 cut(s) 410
MspI CCGG 1 cut(s) 200
MspR9I CCNGG 1 cut(s) 23
MvaI CCWGG 1 cut(s) 23
MwoI GCNNNNNNNGC 6 cut(s) 47, 100, 126, 205, 214, 446
NarI GGCGCC 1 cut(s) 182
NdeII GATC 2 cut(s) 395, 616
NlaIII CATG 3 cut(s) 565, 628, 634
NlaIV GGNNCC 3 cut(s) 130, 142, 183
NmuCI GTSAC 1 cut(s) 71
PciSI GCTCTTC 2 cut(s) 344, 595
PfeI GAWTC 1 cut(s) 53
PkrI GCNGC 3 cut(s) 122, 240, 448
PleI GAGTC 1 cut(s) 504
PluTI GGCGCC 1 cut(s) 185
PpsI GAGTC 1 cut(s) 504
Psp6I CCWGG 1 cut(s) 21
PspGI CCWGG 1 cut(s) 21
PspN4I GGNNCC 3 cut(s) 130, 142, 183
PspPI GGNCC 3 cut(s) 16, 25, 140
PsuI RGATCY 1 cut(s) 395
PvuII CAGCTG 1 cut(s) 410
RseI CAYNNNNRTG 3 cut(s) 477, 629, 635
SapI GCTCTTC 2 cut(s) 344, 595
SaqAI TTAA 1 cut(s) 498
SatI GCNGC 3 cut(s) 121, 239, 447
Sau3AI GATC 2 cut(s) 395, 616
Sau96I GGNCC 3 cut(s) 16, 25, 140
SchI GAGTC 1 cut(s) 504
ScrFI CCNGG 1 cut(s) 23
SetI ASST 9 cut(s) 30, 137, 240, 288, 351, 412, 504, 607, 668
SfaNI GCATC 2 cut(s) 427, 481
SfcI CTRYAG 1 cut(s) 172
SfoI GGCGCC 1 cut(s) 183
SinI GGWCC 2 cut(s) 16, 25
SmiMI CAYNNNNRTG 3 cut(s) 477, 629, 635
Sse9I AATT 3 cut(s) 356, 495, 556
SsiI CCGC 4 cut(s) 19, 120, 123, 163
SspDI GGCGCC 1 cut(s) 181
SspMI CTAG 3 cut(s) 219, 443, 596
StyD4I CCNGG 1 cut(s) 21
TaaI ACNGT 2 cut(s) 110, 269
TaqI TCGA 3 cut(s) 36, 322, 453
TasI AATT 3 cut(s) 356, 495, 556
TauI GCSGC 1 cut(s) 123
TfiI GAWTC 1 cut(s) 53
Tru1I TTAA 1 cut(s) 498
Tru9I TTAA 1 cut(s) 498
TscAI CASTG 1 cut(s) 274
TseFI GTSAC 1 cut(s) 71
TseI GCWGC 2 cut(s) 238, 446
Tsp45I GTSAC 1 cut(s) 71
TspDTI ATGAA 4 cut(s) 173, 278, 550, 613
TspRI CASTG 1 cut(s) 274
VpaK11BI GGWCC 2 cut(s) 16, 25
XapI RAATTY 1 cut(s) 556
XspI CTAG 3 cut(s) 219, 443, 596
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.