Rh1DG241100

General negative regulator of transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1D
OG0019022
Physical Location & Seq
Forward (+)
45688547 .. 45697881
9335 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1DG241100.1

Sequence Viewer

Length: 369 bp
ATGAGCCAACTTTCATCTTTTAGTTTCCGGCCTTATTATGGCTTTCTCAGTTGTACATCTTGGAAAACAGGATTAACTCGGGATGAGGCTAAGATGCTGGGACTTTATTTGAGGGCAATAGAGTTGTTGAAAGCTCGAGCATTTGAGTGGAGCAAAAATTGGCTTATCTGGAATTGTTATGGGATTTATAATGGGGTGTGCCCTCCTATTTATGACCACTGTTTGAATCCATACCCCAGAACACTTAATTACCAACAATATTTGGCTGCCAAAGAGTTGAAGAAGCAATCTTGGAGATACCACAGGAAATACAACACTTGGTTTCAACGACACGAAGAGCCAAAAGTTGCTACTGATGAATATGAATAG
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

122

Amino Acids

14.81

Weight (kDa)

9.16

Isoelectric Point (pI)

43.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NOT2_3_5_C PF04153 80 - 122 1.3e-13 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)
AanI TTATAA 1 cut(s) 189
AfaI GTAC 1 cut(s) 55
AfiI CCNNNNNNNGG 1 cut(s) 38
AgsI TTSAA 4 cut(s) 130, 226, 280, 326
AluBI AGCT 1 cut(s) 134
AluI AGCT 1 cut(s) 134
Ama87I CYCGRG 2 cut(s) 78, 135
AoxI GGCC 1 cut(s) 29
ApeKI GCWGC 1 cut(s) 266
AvaI CYCGRG 2 cut(s) 78, 135
BaeGI GKGCMC 1 cut(s) 203
BbvI GCAGC 1 cut(s) 253
BisI GCNGC 1 cut(s) 267
BlsI GCNGC 1 cut(s) 268
BmeT110I CYCGRG 2 cut(s) 78, 135
BmsI GCATC 1 cut(s) 84
Bsc4I CCNNNNNNNGG 1 cut(s) 38
BseGI GGATG 1 cut(s) 88
BseLI CCNNNNNNNGG 1 cut(s) 38
BseMII CTCAG 1 cut(s) 61
BseSI GKGCMC 1 cut(s) 203
BseXI GCAGC 1 cut(s) 253
BseYI CCCAGC 1 cut(s) 97
BshFI GGCC 1 cut(s) 31
BsiHKCI CYCGRG 2 cut(s) 78, 135
BsiSI CCGG 1 cut(s) 28
BslFI GGGAC 1 cut(s) 114
BslI CCNNNNNNNGG 1 cut(s) 38
BsmFI GGGAC 1 cut(s) 114
BsnI GGCC 1 cut(s) 31
BsoBI CYCGRG 2 cut(s) 78, 135
Bsp1286I GDGCHC 1 cut(s) 203
Bsp1407I TGTACA 1 cut(s) 53
BspANI GGCC 1 cut(s) 31
BspCNI CTCAG 1 cut(s) 60
BspQI GCTCTTC 1 cut(s) 330
BsrGI TGTACA 1 cut(s) 53
Bst4CI ACNGT 1 cut(s) 221
Bst6I CTCTTC 1 cut(s) 330
BstAUI TGTACA 1 cut(s) 53
BstDEI CTNAG 2 cut(s) 47, 90
BstF5I GGATG 1 cut(s) 88
BstSLI GKGCMC 1 cut(s) 203
BstV1I GCAGC 1 cut(s) 253
BsuRI GGCC 1 cut(s) 31
BtsCI GGATG 1 cut(s) 88
BtsIMutI CAGTG 1 cut(s) 217
Csp6I GTAC 1 cut(s) 54
CviJI RGCY 8 cut(s) 6, 31, 42, 89, 134, 163, 266, 340
CviKI_1 RGCY 8 cut(s) 6, 31, 42, 89, 134, 163, 266, 340
CviQI GTAC 1 cut(s) 54
DdeI CTNAG 2 cut(s) 47, 90
Eam1104I CTCTTC 1 cut(s) 330
EarI CTCTTC 1 cut(s) 330
Eco88I CYCGRG 2 cut(s) 78, 135
FaiI YATR 6 cut(s) 39, 180, 189, 213, 232, 363
FaqI GGGAC 1 cut(s) 114
Fnu4HI GCNGC 1 cut(s) 267
FokI GGATG 1 cut(s) 95
Fsp4HI GCNGC 1 cut(s) 267
GluI GCNGC 1 cut(s) 267
GsaI CCCAGC 1 cut(s) 101
HaeIII GGCC 1 cut(s) 31
HapII CCGG 1 cut(s) 28
HinfI GANTC 1 cut(s) 226
HpaII CCGG 1 cut(s) 28
Hpy188III TCNNGA 2 cut(s) 80, 169
HpyCH4III ACNGT 1 cut(s) 221
HpyF3I CTNAG 2 cut(s) 47, 90
LguI GCTCTTC 1 cut(s) 330
LmnI GCTCC 1 cut(s) 150
LpnPI CCDG 6 cut(s) 41, 54, 83, 154, 250, 289
Lsp1109I GCAGC 1 cut(s) 253
LweI GCATC 1 cut(s) 84
MboII GAAGA 2 cut(s) 292, 347
MhlI GDGCHC 1 cut(s) 203
MluCI AATT 3 cut(s) 157, 172, 247
MnlI CCTC 3 cut(s) 79, 105, 213
MseI TTAA 2 cut(s) 74, 246
MslI CAYNNNNRTG 1 cut(s) 145
MspI CCGG 1 cut(s) 28
PaeR7I CTCGAG 1 cut(s) 135
PciSI GCTCTTC 1 cut(s) 330
PfeI GAWTC 1 cut(s) 226
PkrI GCNGC 1 cut(s) 268
PsiI TTATAA 1 cut(s) 189
PspFI CCCAGC 1 cut(s) 97
PspXI VCTCGAGB 1 cut(s) 135
RsaI GTAC 1 cut(s) 55
RsaNI GTAC 1 cut(s) 54
RseI CAYNNNNRTG 1 cut(s) 145
SapI GCTCTTC 1 cut(s) 330
SaqAI TTAA 2 cut(s) 74, 246
SatI GCNGC 1 cut(s) 267
SduI GDGCHC 1 cut(s) 203
SetI ASST 1 cut(s) 136
SfaNI GCATC 1 cut(s) 84
Sfr274I CTCGAG 1 cut(s) 135
SlaI CTCGAG 1 cut(s) 135
SmiMI CAYNNNNRTG 1 cut(s) 145
SmlI CTYRAG 1 cut(s) 135
SmoI CTYRAG 1 cut(s) 135
Sse9I AATT 3 cut(s) 157, 172, 247
SspI AATATT 1 cut(s) 260
TaaI ACNGT 1 cut(s) 221
TaqI TCGA 1 cut(s) 136
TasI AATT 3 cut(s) 157, 172, 247
TatI WGTACW 1 cut(s) 53
TfiI GAWTC 1 cut(s) 226
Tru1I TTAA 2 cut(s) 74, 246
Tru9I TTAA 2 cut(s) 74, 246
TscAI CASTG 1 cut(s) 224
TseI GCWGC 1 cut(s) 266
TspRI CASTG 1 cut(s) 224
XhoI CTCGAG 1 cut(s) 135
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.