Rroxscaffold_4G00278640

Transcription factor Pcc1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0013541
Physical Location & Seq
Forward (+)
1552227 .. 1553580
1354 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00278640.1

Sequence Viewer

Length: 348 bp
ATGGCTGCTATGGCTTCTGACAAGGCAGCTGGGCAGACGCTGTGGGATTTTAGCTGTAAATTGGGTGAGAATGCTGGGGTTAATCTAGAGGTAGAGACTTATAGTGACTTGGAGGTAGATTATGAGTCTGAAGAAATTGCTTCTATTGTCCACACGACATTAGCTGTTGATAAGGAGTTGCAACCGGACAAAGTGAAAAGGCAGATGTCAGTTTCCAATGGAAAGCTTTCAGTGCATTTTGAGGCAGTTGAGGCAAGATTTCTTCGAGCATCATATAGTGCTTTTGTGGATGTATTGACACTTGCCACAAAAACAGTTGAAGAATTTGGAAAAGGAATGGAGTTGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Pcc1

Protein Analysis

115

Amino Acids

12.64

Weight (kDa)

4.59

Isoelectric Point (pI)

25.12

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pcc1 PF09341 36 - 107 1.7e-21 Transcription factor Pcc1
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: OG0013541)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G53045
fragaria_vesca FvH4_7g31970 FvH4_7g31970 FvH4_7g31970
malus_domestica MD01G1222500.v1.1 MD07G1293100.v1.1
prunus_persica Prupe.2G312900_v2.0.a1 Prupe.2G312900_v2.0.a1
pyrus_communis pycom01g23190 pycom07g26610
rosa_chinensis RchiOBHm_Chr1g0381471
rosa_roxburghii Rroxscaffold_4G00278640
rosa_rugosa Rorug01G0428700
rosa_samantha Rh1AG452000 Rh1BG409200 Rh1CG423700 Rh1DG440500
rosa_wichuraiana Rw1G039450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AcsI RAATTY 1 cut(s) 323
AcuI CTGAAG 1 cut(s) 150
AgsI TTSAA 1 cut(s) 320
AluBI AGCT 4 cut(s) 29, 54, 164, 226
AluI AGCT 4 cut(s) 29, 54, 164, 226
Alw26I GTCTC 1 cut(s) 89
AlwNI CAGNNNCTG 1 cut(s) 40
ApeKI GCWGC 2 cut(s) 5, 26
ApoI RAATTY 1 cut(s) 323
Asp700I GAANNNNTTC 1 cut(s) 226
AsuHPI GGTGA 1 cut(s) 77
BbvI GCAGC 1 cut(s) 38
BcoDI GTCTC 1 cut(s) 89
BfaI CTAG 1 cut(s) 86
BisI GCNGC 2 cut(s) 6, 27
BlsI GCNGC 2 cut(s) 7, 28
BmsI GCATC 1 cut(s) 278
BsaWI WCCGGW 1 cut(s) 184
BseGI GGATG 1 cut(s) 295
BseXI GCAGC 1 cut(s) 38
BseYI CCCAGC 2 cut(s) 29, 74
BsiSI CCGG 1 cut(s) 185
BsmAI GTCTC 1 cut(s) 89
BsmI GAATGC 1 cut(s) 76
Bst4CI ACNGT 1 cut(s) 316
BstF5I GGATG 1 cut(s) 295
BstMAI GTCTC 1 cut(s) 89
BstMWI GCNNNNNNNGC 3 cut(s) 11, 232, 251
BstV1I GCAGC 1 cut(s) 38
BtsCI GGATG 1 cut(s) 295
BtsIMutI CAGTG 1 cut(s) 237
CaiI CAGNNNCTG 1 cut(s) 40
CseI GACGC 1 cut(s) 46
CviJI RGCY 6 cut(s) 5, 14, 29, 54, 164, 226
CviKI_1 RGCY 6 cut(s) 5, 14, 29, 54, 164, 226
Eco57I CTGAAG 1 cut(s) 150
FaiI YATR 5 cut(s) 11, 102, 123, 274, 276
Fnu4HI GCNGC 2 cut(s) 6, 27
FokI GGATG 1 cut(s) 302
Fsp4HI GCNGC 2 cut(s) 6, 27
FspBI CTAG 1 cut(s) 86
GluI GCNGC 2 cut(s) 6, 27
GsaI CCCAGC 2 cut(s) 33, 78
HapII CCGG 1 cut(s) 185
HgaI GACGC 1 cut(s) 46
HindIII AAGCTT 1 cut(s) 224
HinfI GANTC 1 cut(s) 125
HpaII CCGG 1 cut(s) 185
HphI GGTGA 1 cut(s) 77
Hpy166II GTNNAC 1 cut(s) 151
Hpy188I TCNGA 2 cut(s) 19, 130
Hpy188III TCNNGA 1 cut(s) 86
Hpy8I GTNNAC 1 cut(s) 151
HpyCH4III ACNGT 1 cut(s) 316
HpyCH4V TGCA 2 cut(s) 181, 235
HpyF10VI GCNNNNNNNGC 3 cut(s) 11, 232, 251
LpnPI CCDG 3 cut(s) 15, 60, 198
Lsp1109I GCAGC 1 cut(s) 38
LweI GCATC 1 cut(s) 278
MaeI CTAG 1 cut(s) 86
MaeIII GTNAC 1 cut(s) 104
MboII GAAGA 3 cut(s) 143, 254, 332
MluCI AATT 3 cut(s) 59, 135, 323
MlyI GAGTC 1 cut(s) 134
MnlI CCTC 4 cut(s) 82, 106, 235, 244
MroXI GAANNNNTTC 1 cut(s) 226
MseI TTAA 1 cut(s) 81
MspA1I CMGCKG 1 cut(s) 29
MspI CCGG 1 cut(s) 185
Mva1269I GAATGC 1 cut(s) 76
MwoI GCNNNNNNNGC 3 cut(s) 11, 232, 251
NmuCI GTSAC 1 cut(s) 104
PctI GAATGC 1 cut(s) 76
PdmI GAANNNNTTC 1 cut(s) 226
PkrI GCNGC 2 cut(s) 7, 28
PleI GAGTC 1 cut(s) 133
PpsI GAGTC 1 cut(s) 133
PspFI CCCAGC 2 cut(s) 29, 74
PstNI CAGNNNCTG 1 cut(s) 40
PvuII CAGCTG 1 cut(s) 29
SaqAI TTAA 1 cut(s) 81
SatI GCNGC 2 cut(s) 6, 27
SchI GAGTC 1 cut(s) 134
SetI ASST 6 cut(s) 31, 56, 93, 117, 166, 228
SfaNI GCATC 1 cut(s) 278
Sse9I AATT 3 cut(s) 59, 135, 323
SspMI CTAG 1 cut(s) 86
TaaI ACNGT 1 cut(s) 316
TaqI TCGA 1 cut(s) 265
TasI AATT 3 cut(s) 59, 135, 323
Tru1I TTAA 1 cut(s) 81
Tru9I TTAA 1 cut(s) 81
TscAI CASTG 1 cut(s) 237
TseFI GTSAC 1 cut(s) 104
TseI GCWGC 2 cut(s) 5, 26
Tsp45I GTSAC 1 cut(s) 104
TspRI CASTG 1 cut(s) 237
XapI RAATTY 1 cut(s) 323
XbaI TCTAGA 1 cut(s) 85
XmnI GAANNNNTTC 1 cut(s) 226
XspI CTAG 1 cut(s) 86
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.