Rroxscaffold_5G00364980

General negative regulator of transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0019022
Physical Location & Seq
Reverse (-)
46253261 .. 46259357
6097 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00364980.1

Sequence Viewer

Length: 408 bp
ATGGAGATGGAAAGCTTGGACGTTGGGAACTTGAATCTTGGAAGCAAGTCTTCAAGGTGGATGATGGAGGTAGATCTTCACGGCTCCTCCTTCTTCTTCCTCTCCTTGCTTGAAGACGCAGAACTTCAATATTTGGCTGCCAAAGAGTTGAAGAAGCAATCTTGGAGATACCACAGGAGATACAACACTTGGTTTCAACGACACGAAGAGCCAAAAGTTCCTACCGATGAATATGAACAGGGTACATATGTGTACTTTGATTTCCATATTGCCAATGATGATCTACAACATGGATGGTACGATTTAGAGTTTAAAATACATGCACTCTCTCAAGACCAGCACAGAGAAATTAATTATGTATCATACAAACTCAAGACCATAACCAAGATCAATTACGGAGAGAAGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000075 GO:0000077 GO:0000278 GO:0000288 GO:0000289 GO:0000932 GO:0000956 GO:0001701 GO:0001824 GO:0001825 GO:0001829 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006139 GO:0006401 GO:0006402 GO:0006417 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006977 GO:0007049 GO:0007093 GO:0007154 GO:0007165 GO:0007275 GO:0007346 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009653 GO:0009790 GO:0009792 GO:0009889 GO:0009890 GO:0009892 GO:0009966 GO:0009968 GO:0009987 GO:0010468 GO:0010556 GO:0010558 GO:0010564 GO:0010605 GO:0010608 GO:0010629 GO:0010646 GO:0010648 GO:0010948 GO:0016070 GO:0016071 GO:0017148 GO:0019222 GO:0019439 GO:0022402 GO:0023051 GO:0023052 GO:0023057 GO:0030014 GO:0030015 GO:0030154 GO:0030330 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0031570 GO:0031571 GO:0032268 GO:0032269 GO:0032501 GO:0032502 GO:0032991 GO:0033143 GO:0033144 GO:0033146 GO:0033147 GO:0033554 GO:0034248 GO:0034249 GO:0034641 GO:0034655 GO:0035556 GO:0035770 GO:0036464 GO:0042770 GO:0043009 GO:0043170 GO:0043226 GO:0043228 GO:0043229 GO:0043232 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0044424 GO:0044444 GO:0044464 GO:0044773 GO:0044774 GO:0044783 GO:0044819 GO:0045786 GO:0045787 GO:0045930 GO:0046483 GO:0046700 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0048583 GO:0048585 GO:0048646 GO:0048856 GO:0048869 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051239 GO:0051246 GO:0051248 GO:0051716 GO:0051726 GO:0060255 GO:0065007 GO:0071156 GO:0071158 GO:0071704 GO:0072331 GO:0072395 GO:0072401 GO:0072413 GO:0072422 GO:0072431 GO:0080090 GO:0090068 GO:0090304 GO:1901360 GO:1901361 GO:1901575 GO:1901987 GO:1901988 GO:1901990 GO:1901991 GO:1902400 GO:1902402 GO:1902403 GO:1902806 GO:1902807 GO:1903047 GO:1990904 GO:2000036 GO:2000045 GO:2000112 GO:2000113 GO:2000134
KEGG Pathways
Metabolic & Signaling
ko03018 map03018
Pfam Domains
Protein Families
NOT2_3_5 Not3

Protein Analysis

135

Amino Acids

16.34

Weight (kDa)

5.6

Isoelectric Point (pI)

42.28

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NOT2_3_5_C PF04153 37 - 89 1.5e-19 NOT2/NOT3/NOT5 C-terminal
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0019022)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr5g0052311
rosa_laevigata RLG00000021617
rosa_roxburghii Rroxscaffold_2G00077060 Rroxscaffold_5G00364980 Rroxscaffold_5G00365010
rosa_samantha Rh1BG215100 Rh1DG241100 Rh5BG356500 Rh5DG371700

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AfaI GTAC 3 cut(s) 244, 254, 299
AgsI TTSAA 6 cut(s) 34, 54, 113, 128, 151, 197
AluBI AGCT 1 cut(s) 15
AluI AGCT 1 cut(s) 15
ApeKI GCWGC 1 cut(s) 137
AseI ATTAAT 1 cut(s) 351
BaeI ACNNNNGTAYC 2 cut(s) 234, 267
BbsI GAAGAC 2 cut(s) 42, 120
BbvI GCAGC 1 cut(s) 124
BccI CCATC 2 cut(s) 58, 288
BceAI ACGGC 1 cut(s) 97
BglII AGATCT 1 cut(s) 73
BisI GCNGC 1 cut(s) 138
BlsI GCNGC 1 cut(s) 139
BmiI GGNNCC 1 cut(s) 85
BpiI GAAGAC 2 cut(s) 42, 120
BpuEI CTTGAG 2 cut(s) 315, 356
BsaXI ACNNNNNCTCC 2 cut(s) 71, 101
BseGI GGATG 2 cut(s) 66, 299
BseRI GAGGAG 1 cut(s) 76
BseXI GCAGC 1 cut(s) 124
Bsp143I GATC 3 cut(s) 73, 280, 387
BspLI GGNNCC 1 cut(s) 85
BspQI GCTCTTC 1 cut(s) 201
BssMI GATC 3 cut(s) 73, 280, 387
Bst6I CTCTTC 1 cut(s) 201
BstF5I GGATG 2 cut(s) 66, 299
BstKTI GATC 3 cut(s) 76, 283, 390
BstMBI GATC 3 cut(s) 73, 280, 387
BstNSI RCATGY 1 cut(s) 323
BstV1I GCAGC 1 cut(s) 124
BstV2I GAAGAC 2 cut(s) 42, 120
BstX2I RGATCY 1 cut(s) 73
BstYI RGATCY 1 cut(s) 73
BtsCI GGATG 2 cut(s) 66, 299
CseI GACGC 1 cut(s) 125
Csp6I GTAC 3 cut(s) 243, 253, 298
CviAII CATG 2 cut(s) 290, 320
CviJI RGCY 4 cut(s) 15, 84, 137, 211
CviKI_1 RGCY 4 cut(s) 15, 84, 137, 211
CviQI GTAC 3 cut(s) 243, 253, 298
DpnI GATC 3 cut(s) 75, 282, 389
DpnII GATC 3 cut(s) 73, 280, 387
DraI TTTAAA 1 cut(s) 313
Eam1104I CTCTTC 1 cut(s) 201
EarI CTCTTC 1 cut(s) 201
FaeI CATG 2 cut(s) 293, 323
FaiI YATR 9 cut(s) 234, 247, 249, 267, 291, 321, 357, 364, 380
FalI AAGNNNNNCTT 2 cut(s) 34, 66
FatI CATG 2 cut(s) 289, 319
FauNDI CATATG 1 cut(s) 247
Fnu4HI GCNGC 1 cut(s) 138
FokI GGATG 2 cut(s) 73, 306
Fsp4HI GCNGC 1 cut(s) 138
GluI GCNGC 1 cut(s) 138
HgaI GACGC 1 cut(s) 125
Hin1II CATG 2 cut(s) 293, 323
HindIII AAGCTT 1 cut(s) 13
HinfI GANTC 1 cut(s) 34
Hpy166II GTNNAC 1 cut(s) 253
Hpy188III TCNNGA 2 cut(s) 332, 373
Hpy8I GTNNAC 1 cut(s) 253
HpyAV CCTTC 1 cut(s) 100
HpyCH4IV ACGT 1 cut(s) 21
HpyCH4V TGCA 1 cut(s) 323
HpySE526I ACGT 1 cut(s) 21
Hsp92II CATG 2 cut(s) 293, 323
Kzo9I GATC 3 cut(s) 73, 280, 387
LguI GCTCTTC 1 cut(s) 201
LmnI GCTCC 1 cut(s) 89
LpnPI CCDG 3 cut(s) 160, 224, 350
Lsp1109I GCAGC 1 cut(s) 124
MaeII ACGT 1 cut(s) 21
MalI GATC 3 cut(s) 75, 282, 389
MboI GATC 3 cut(s) 73, 280, 387
MboII GAAGA 7 cut(s) 42, 68, 85, 88, 125, 163, 218
MflI RGATCY 1 cut(s) 73
MluCI AATT 3 cut(s) 348, 352, 391
MnlI CCTC 3 cut(s) 61, 97, 110
MseI TTAA 2 cut(s) 312, 351
NdeI CATATG 1 cut(s) 247
NdeII GATC 3 cut(s) 73, 280, 387
NlaIII CATG 2 cut(s) 293, 323
NlaIV GGNNCC 1 cut(s) 85
NspI RCATGY 1 cut(s) 323
PciSI GCTCTTC 1 cut(s) 201
PfeI GAWTC 1 cut(s) 34
PkrI GCNGC 1 cut(s) 139
PshBI ATTAAT 1 cut(s) 351
PspN4I GGNNCC 1 cut(s) 85
PsuI RGATCY 1 cut(s) 73
RsaI GTAC 3 cut(s) 244, 254, 299
RsaNI GTAC 3 cut(s) 243, 253, 298
SapI GCTCTTC 1 cut(s) 201
SaqAI TTAA 2 cut(s) 312, 351
SatI GCNGC 1 cut(s) 138
Sau3AI GATC 3 cut(s) 73, 280, 387
SetI ASST 4 cut(s) 17, 24, 59, 72
SmlI CTYRAG 2 cut(s) 330, 371
SmoI CTYRAG 2 cut(s) 330, 371
Sse9I AATT 3 cut(s) 348, 352, 391
SspI AATATT 1 cut(s) 131
TaiI ACGT 1 cut(s) 24
TasI AATT 3 cut(s) 348, 352, 391
TatI WGTACW 1 cut(s) 252
TfiI GAWTC 1 cut(s) 34
Tru1I TTAA 2 cut(s) 312, 351
Tru9I TTAA 2 cut(s) 312, 351
TseI GCWGC 1 cut(s) 137
TspDTI ATGAA 2 cut(s) 243, 249
VspI ATTAAT 1 cut(s) 351
XceI RCATGY 1 cut(s) 323
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.