Rh1BG409200

Transcription factor Pcc1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1B
OG0013541
Physical Location & Seq
Reverse (-)
53189750 .. 53191545
1796 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1BG409200.1

Sequence Viewer

Length: 387 bp
ATGGCTGCTATGGCTTCTGACAAGGCAGCTGGGCAGACGCAGTGGGAGTTTAGCTGTGACTTGGAGGTAGATTATGAGTCTGAAGAAATTGCTTGTATTGTCTACACAACATTAGCTGTTGATAAGGAGGTGATGCTTCATATGCTCAAGCTATGTCTTGACTCGTTTCATTGTGGTTCAATTAGCTTCTTATCTATTTCCGTTTATGATTTTCAGTTGCAACCAGACAAAGTAAAAAGGCAGATGTCAGTTTCTAATGGAAAGCTTTCAGTGCATTTTGAGGCAGTTGAGGCAAGATTTCTTCGAGCATCATATAGTGCTTTTGTGGATGTATTGACACTTGCCACGAAAACAGTTGAAGAATTTGGAAAAGGAATGGACTTGTGA
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

128

Amino Acids

14.31

Weight (kDa)

4.72

Isoelectric Point (pI)

29.62

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pcc1 PF09341 70 - 120 8.2e-12 Transcription factor Pcc1
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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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)
AccI GTMKAC 1 cut(s) 102
AcsI RAATTY 1 cut(s) 362
AcuI CTGAAG 1 cut(s) 102
AgsI TTSAA 2 cut(s) 180, 359
AluBI AGCT 6 cut(s) 29, 54, 116, 151, 186, 265
AluI AGCT 6 cut(s) 29, 54, 116, 151, 186, 265
ApeKI GCWGC 2 cut(s) 5, 26
ApoI RAATTY 1 cut(s) 362
Asp700I GAANNNNTTC 1 cut(s) 265
AsuHPI GGTGA 1 cut(s) 142
BbvI GCAGC 1 cut(s) 38
BisI GCNGC 2 cut(s) 6, 27
BlsI GCNGC 2 cut(s) 7, 28
BmsI GCATC 2 cut(s) 123, 317
BpuEI CTTGAG 1 cut(s) 131
BseGI GGATG 1 cut(s) 334
BseXI GCAGC 1 cut(s) 38
BseYI CCCAGC 1 cut(s) 29
Bst4CI ACNGT 1 cut(s) 355
BstF5I GGATG 1 cut(s) 334
BstMWI GCNNNNNNNGC 4 cut(s) 11, 142, 271, 290
BstV1I GCAGC 1 cut(s) 38
BtsCI GGATG 1 cut(s) 334
BtsI GCAGTG 1 cut(s) 47
BtsIMutI CAGTG 2 cut(s) 47, 276
CseI GACGC 1 cut(s) 46
CviJI RGCY 8 cut(s) 5, 14, 29, 54, 116, 151, 186, 265
CviKI_1 RGCY 8 cut(s) 5, 14, 29, 54, 116, 151, 186, 265
Eco57I CTGAAG 1 cut(s) 102
FaiI YATR 8 cut(s) 11, 75, 141, 143, 154, 207, 313, 315
FauNDI CATATG 1 cut(s) 141
FblI GTMKAC 1 cut(s) 102
Fnu4HI GCNGC 2 cut(s) 6, 27
FokI GGATG 1 cut(s) 341
Fsp4HI GCNGC 2 cut(s) 6, 27
GluI GCNGC 2 cut(s) 6, 27
GsaI CCCAGC 1 cut(s) 33
HgaI GACGC 1 cut(s) 46
HindIII AAGCTT 1 cut(s) 263
HinfI GANTC 2 cut(s) 77, 161
HphI GGTGA 1 cut(s) 142
Hpy166II GTNNAC 1 cut(s) 103
Hpy188I TCNGA 2 cut(s) 19, 82
Hpy188III TCNNGA 1 cut(s) 158
Hpy8I GTNNAC 1 cut(s) 103
HpyCH4III ACNGT 1 cut(s) 355
HpyCH4V TGCA 2 cut(s) 220, 274
HpyF10VI GCNNNNNNNGC 4 cut(s) 11, 142, 271, 290
LpnPI CCDG 2 cut(s) 15, 237
Lsp1109I GCAGC 1 cut(s) 38
LweI GCATC 2 cut(s) 123, 317
MaeIII GTNAC 1 cut(s) 56
MboII GAAGA 3 cut(s) 95, 293, 371
MluCI AATT 3 cut(s) 87, 180, 362
MlyI GAGTC 2 cut(s) 86, 155
MnlI CCTC 4 cut(s) 58, 121, 274, 283
MroXI GAANNNNTTC 1 cut(s) 265
MspA1I CMGCKG 1 cut(s) 29
MwoI GCNNNNNNNGC 4 cut(s) 11, 142, 271, 290
NdeI CATATG 1 cut(s) 141
NmuCI GTSAC 1 cut(s) 56
PdmI GAANNNNTTC 1 cut(s) 265
PkrI GCNGC 2 cut(s) 7, 28
PleI GAGTC 2 cut(s) 85, 155
PpsI GAGTC 2 cut(s) 85, 155
PspFI CCCAGC 1 cut(s) 29
PvuII CAGCTG 1 cut(s) 29
SatI GCNGC 2 cut(s) 6, 27
SchI GAGTC 2 cut(s) 86, 155
SetI ASST 8 cut(s) 31, 56, 69, 118, 132, 153, 188, 267
SfaNI GCATC 2 cut(s) 123, 317
SmlI CTYRAG 1 cut(s) 146
SmoI CTYRAG 1 cut(s) 146
Sse9I AATT 3 cut(s) 87, 180, 362
TaaI ACNGT 1 cut(s) 355
TaqI TCGA 1 cut(s) 304
TasI AATT 3 cut(s) 87, 180, 362
TscAI CASTG 2 cut(s) 47, 276
TseFI GTSAC 1 cut(s) 56
TseI GCWGC 2 cut(s) 5, 26
Tsp45I GTSAC 1 cut(s) 56
TspDTI ATGAA 2 cut(s) 128, 158
TspGWI ACGGA 1 cut(s) 190
TspRI CASTG 2 cut(s) 47, 276
XapI RAATTY 1 cut(s) 362
XmiI GTMKAC 1 cut(s) 102
XmnI GAANNNNTTC 1 cut(s) 265
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.