Rroxscaffold_5G00365010

General negative regulator of transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0019022
Physical Location & Seq
Reverse (-)
46290730 .. 46294557
3828 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00365010.1

Sequence Viewer

Length: 420 bp
ATGGAGATGGAAAGCTTGGACGTTGGGAACTTGAATCTTGGAAGCAAGTCTTCAAGGTGGATGATGGAGGTAGATCTTCACGGCTCCTCCTTCTTCTTCCTCTCCTTGCTTGAAGACGCAGAACTTGATTTCGTTGTTGCTGGCACTGCATTAGCGTGCGTATATGGTGCTTGTGAGGCGATGTTCAAGCCTGACATGCAATATTTGGCTGCCAAAGAGTTGAAGAAGCAATCTTGGAGATACCACAGGAGATACAACACTTGGTTTCAACGACACGAAGAGCCAAAAGTTCCTACCGATGAATATGAACAGGGTACATATGTGTACTTTGATTTCCATATTGCCAATGATGATCTACAACATGGATGGTACGATTTAGAGTTTGTATTTAGGATTTCGGAATTCATTTGTGCTTCTTGA
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

139

Amino Acids

16.38

Weight (kDa)

4.73

Isoelectric Point (pI)

40.18

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NOT2_3_5_C PF04153 64 - 113 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)
AcsI RAATTY 1 cut(s) 401
AfaI GTAC 3 cut(s) 316, 326, 371
AgsI TTSAA 6 cut(s) 34, 54, 113, 187, 223, 269
AluBI AGCT 1 cut(s) 15
AluI AGCT 1 cut(s) 15
ApeKI GCWGC 1 cut(s) 209
ApoI RAATTY 1 cut(s) 401
BaeI ACNNNNGTAYC 2 cut(s) 306, 339
BbsI GAAGAC 2 cut(s) 42, 120
BbvI GCAGC 1 cut(s) 196
BccI CCATC 2 cut(s) 58, 360
BceAI ACGGC 1 cut(s) 97
BglII AGATCT 1 cut(s) 73
BisI GCNGC 1 cut(s) 210
BlsI GCNGC 1 cut(s) 211
BmiI GGNNCC 1 cut(s) 85
BpiI GAAGAC 2 cut(s) 42, 120
BsaXI ACNNNNNCTCC 2 cut(s) 71, 101
BseGI GGATG 2 cut(s) 66, 371
BseRI GAGGAG 1 cut(s) 76
BseXI GCAGC 1 cut(s) 196
Bsp143I GATC 2 cut(s) 73, 352
BspLI GGNNCC 1 cut(s) 85
BspQI GCTCTTC 1 cut(s) 273
BssMI GATC 2 cut(s) 73, 352
Bst6I CTCTTC 1 cut(s) 273
BstC8I GCNNGC 2 cut(s) 142, 157
BstF5I GGATG 2 cut(s) 66, 371
BstKTI GATC 2 cut(s) 76, 355
BstMBI GATC 2 cut(s) 73, 352
BstMWI GCNNNNNNNGC 3 cut(s) 146, 176, 196
BstNSI RCATGY 1 cut(s) 199
BstV1I GCAGC 1 cut(s) 196
BstV2I GAAGAC 2 cut(s) 42, 120
BstX2I RGATCY 1 cut(s) 73
BstYI RGATCY 1 cut(s) 73
BtgZI GCGATG 1 cut(s) 194
BtsCI GGATG 2 cut(s) 66, 371
BtsI GCAGTG 1 cut(s) 144
BtsIMutI CAGTG 1 cut(s) 144
Cac8I GCNNGC 2 cut(s) 142, 157
CseI GACGC 1 cut(s) 125
Csp6I GTAC 3 cut(s) 315, 325, 370
CviAII CATG 2 cut(s) 196, 362
CviJI RGCY 5 cut(s) 15, 84, 190, 209, 283
CviKI_1 RGCY 5 cut(s) 15, 84, 190, 209, 283
CviQI GTAC 3 cut(s) 315, 325, 370
DpnI GATC 2 cut(s) 75, 354
DpnII GATC 2 cut(s) 73, 352
Eam1104I CTCTTC 1 cut(s) 273
EarI CTCTTC 1 cut(s) 273
EcoRI GAATTC 1 cut(s) 401
FaeI CATG 2 cut(s) 199, 365
FaiI YATR 8 cut(s) 163, 165, 197, 306, 319, 321, 339, 363
FalI AAGNNNNNCTT 2 cut(s) 34, 66
FatI CATG 2 cut(s) 195, 361
FauNDI CATATG 1 cut(s) 319
Fnu4HI GCNGC 1 cut(s) 210
FokI GGATG 2 cut(s) 73, 378
Fsp4HI GCNGC 1 cut(s) 210
GluI GCNGC 1 cut(s) 210
HgaI GACGC 1 cut(s) 125
Hin1II CATG 2 cut(s) 199, 365
HindIII AAGCTT 1 cut(s) 13
HinfI GANTC 1 cut(s) 34
Hpy166II GTNNAC 1 cut(s) 325
Hpy188I TCNGA 1 cut(s) 400
Hpy188III TCNNGA 1 cut(s) 417
Hpy8I GTNNAC 1 cut(s) 325
HpyAV CCTTC 1 cut(s) 100
HpyCH4IV ACGT 1 cut(s) 21
HpyCH4V TGCA 2 cut(s) 149, 199
HpyF10VI GCNNNNNNNGC 3 cut(s) 146, 176, 196
HpySE526I ACGT 1 cut(s) 21
Hsp92II CATG 2 cut(s) 199, 365
Kzo9I GATC 2 cut(s) 73, 352
LguI GCTCTTC 1 cut(s) 273
LmnI GCTCC 1 cut(s) 89
LpnPI CCDG 4 cut(s) 126, 204, 232, 296
Lsp1109I GCAGC 1 cut(s) 196
MaeII ACGT 1 cut(s) 21
MalI GATC 2 cut(s) 75, 354
MboI GATC 2 cut(s) 73, 352
MboII GAAGA 7 cut(s) 42, 68, 85, 88, 125, 235, 290
MflI RGATCY 1 cut(s) 73
MluCI AATT 1 cut(s) 401
MnlI CCTC 4 cut(s) 61, 97, 110, 169
MslI CAYNNNNRTG 1 cut(s) 154
MwoI GCNNNNNNNGC 3 cut(s) 146, 176, 196
NdeI CATATG 1 cut(s) 319
NdeII GATC 2 cut(s) 73, 352
NlaIII CATG 2 cut(s) 199, 365
NlaIV GGNNCC 1 cut(s) 85
NspI RCATGY 1 cut(s) 199
PciSI GCTCTTC 1 cut(s) 273
PfeI GAWTC 1 cut(s) 34
PkrI GCNGC 1 cut(s) 211
PspN4I GGNNCC 1 cut(s) 85
PsuI RGATCY 1 cut(s) 73
RsaI GTAC 3 cut(s) 316, 326, 371
RsaNI GTAC 3 cut(s) 315, 325, 370
RseI CAYNNNNRTG 1 cut(s) 154
SapI GCTCTTC 1 cut(s) 273
SatI GCNGC 1 cut(s) 210
Sau3AI GATC 2 cut(s) 73, 352
SetI ASST 4 cut(s) 17, 24, 59, 72
SmiMI CAYNNNNRTG 1 cut(s) 154
Sse9I AATT 1 cut(s) 401
SspI AATATT 1 cut(s) 203
TaiI ACGT 1 cut(s) 24
TasI AATT 1 cut(s) 401
TatI WGTACW 1 cut(s) 324
TfiI GAWTC 1 cut(s) 34
TscAI CASTG 1 cut(s) 151
TseI GCWGC 1 cut(s) 209
TspDTI ATGAA 3 cut(s) 315, 321, 394
TspRI CASTG 1 cut(s) 151
XapI RAATTY 1 cut(s) 401
XceI RCATGY 1 cut(s) 199
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.