RchiOBHm_Chr3g0482111

Cold shock protein domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0019907
Physical Location & Seq
Forward (+)
28204555 .. 28205423
869 bp
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UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 315 bp
ATGAGTTATCTCTGTTCGGACCAAAAGAACAAAATCTCTTCTTCCTCACACCGAATCTCCCAAAACCCAAATCTAGGTCATTCTTCCCCTCCACCATCACCACCTGATCGCTCTCTTTCCCCTCCCAAATTGACGACCATCACTTGCATGTCCTCCGGCAAGCCGACATCAGCCACAAATCGGTTAATCTCAGCCGTAGGGTTGAGTGAGAGGTTGACCGGAATGGTGAAGTGGTTCAATGACCAGAAGGGGTTCAACTTCACCACCCCGAAGAATGGCGGCGAGGATCTCTACGTCCACCTGTCCTCGATCTGA
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
CSD zf-CCHC

Protein Analysis

104

Amino Acids

11.26

Weight (kDa)

9.56

Isoelectric Point (pI)

55.09

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CSD PF00313 73 - 104 2.2e-09 'Cold-shock' DNA-binding domain
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: OG0019907)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr3g0482111
rosa_laevigata RLG00000026065 RLG00000037055
rosa_multiflora Rmu_sc0007408.1_g000004 Rmu_sc0011150.1_g000001
rosa_samantha Rh3AG246100 Rh7BG243600

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 279
AclWI GGATC 1 cut(s) 294
AfiI CCNNNNNNNGG 3 cut(s) 74, 180, 275
AgsI TTSAA 2 cut(s) 238, 256
AlwI GGATC 1 cut(s) 294
Asp700I GAANNNNTTC 2 cut(s) 233, 251
AspS9I GGNCC 1 cut(s) 19
AsuHPI GGTGA 3 cut(s) 90, 238, 253
AvaII GGWCC 1 cut(s) 19
BccI CCATC 2 cut(s) 103, 146
BceAI ACGGC 1 cut(s) 179
BfaI CTAG 1 cut(s) 74
BisI GCNGC 1 cut(s) 280
BlsI GCNGC 1 cut(s) 281
Bme18I GGWCC 1 cut(s) 19
BmgT120I GGNCC 1 cut(s) 19
BsaWI WCCGGW 1 cut(s) 218
BsaXI ACNNNNNCTCC 2 cut(s) 41, 71
Bsc4I CCNNNNNNNGG 3 cut(s) 74, 180, 275
BseLI CCNNNNNNNGG 3 cut(s) 74, 180, 275
BseMII CTCAG 1 cut(s) 204
BsiSI CCGG 2 cut(s) 156, 219
BslI CCNNNNNNNGG 3 cut(s) 74, 180, 275
Bsp143I GATC 3 cut(s) 106, 286, 309
BspACI CCGC 1 cut(s) 279
BspCNI CTCAG 1 cut(s) 203
BspPI GGATC 1 cut(s) 294
BssMI GATC 3 cut(s) 106, 286, 309
Bst6I CTCTTC 1 cut(s) 43
BstC8I GCNNGC 1 cut(s) 161
BstDEI CTNAG 1 cut(s) 190
BstKTI GATC 3 cut(s) 109, 289, 312
BstMBI GATC 3 cut(s) 106, 286, 309
BstNSI RCATGY 1 cut(s) 151
BstX2I RGATCY 1 cut(s) 286
BstYI RGATCY 1 cut(s) 286
Cac8I GCNNGC 1 cut(s) 161
Cfr13I GGNCC 1 cut(s) 19
CviAII CATG 1 cut(s) 148
CviJI RGCY 3 cut(s) 163, 173, 194
CviKI_1 RGCY 3 cut(s) 163, 173, 194
DdeI CTNAG 1 cut(s) 190
DpnI GATC 3 cut(s) 108, 288, 311
DpnII GATC 3 cut(s) 106, 286, 309
Eam1104I CTCTTC 1 cut(s) 43
EarI CTCTTC 1 cut(s) 43
Eco47I GGWCC 1 cut(s) 19
FaeI CATG 1 cut(s) 151
FaiI YATR 1 cut(s) 149
FatI CATG 1 cut(s) 147
Fnu4HI GCNGC 1 cut(s) 280
Fsp4HI GCNGC 1 cut(s) 280
FspBI CTAG 1 cut(s) 74
GluI GCNGC 1 cut(s) 280
HapII CCGG 2 cut(s) 156, 219
Hin1II CATG 1 cut(s) 151
HincII GTYRAC 1 cut(s) 216
HindII GTYRAC 1 cut(s) 216
HinfI GANTC 1 cut(s) 54
HpaII CCGG 2 cut(s) 156, 219
HphI GGTGA 3 cut(s) 90, 238, 253
Hpy166II GTNNAC 2 cut(s) 216, 298
Hpy188I TCNGA 2 cut(s) 19, 314
Hpy8I GTNNAC 2 cut(s) 216, 298
HpyAV CCTTC 1 cut(s) 241
HpyCH4IV ACGT 1 cut(s) 294
HpyCH4V TGCA 1 cut(s) 147
HpyF3I CTNAG 1 cut(s) 190
HpySE526I ACGT 1 cut(s) 294
Hsp92II CATG 1 cut(s) 151
Kzo9I GATC 3 cut(s) 106, 286, 309
LpnPI CCDG 4 cut(s) 117, 169, 232, 257
MaeI CTAG 1 cut(s) 74
MaeII ACGT 1 cut(s) 294
MalI GATC 3 cut(s) 108, 288, 311
MboI GATC 3 cut(s) 106, 286, 309
MboII GAAGA 4 cut(s) 30, 33, 75, 283
MflI RGATCY 1 cut(s) 286
MluCI AATT 1 cut(s) 128
MnlI CCTC 6 cut(s) 55, 99, 132, 163, 204, 277
MroXI GAANNNNTTC 2 cut(s) 233, 251
MseI TTAA 1 cut(s) 185
MslI CAYNNNNRTG 1 cut(s) 146
MspI CCGG 2 cut(s) 156, 219
NdeII GATC 3 cut(s) 106, 286, 309
NlaIII CATG 1 cut(s) 151
NspI RCATGY 1 cut(s) 151
PdmI GAANNNNTTC 2 cut(s) 233, 251
PfeI GAWTC 1 cut(s) 54
PkrI GCNGC 1 cut(s) 281
PspPI GGNCC 1 cut(s) 19
PsuI RGATCY 1 cut(s) 286
RseI CAYNNNNRTG 1 cut(s) 146
SaqAI TTAA 1 cut(s) 185
SatI GCNGC 1 cut(s) 280
Sau3AI GATC 3 cut(s) 106, 286, 309
Sau96I GGNCC 1 cut(s) 19
SetI ASST 5 cut(s) 79, 106, 215, 297, 303
SinI GGWCC 1 cut(s) 19
SmiMI CAYNNNNRTG 1 cut(s) 146
Sse9I AATT 1 cut(s) 128
SsiI CCGC 1 cut(s) 279
SspMI CTAG 1 cut(s) 74
TaiI ACGT 1 cut(s) 297
TaqI TCGA 1 cut(s) 308
TasI AATT 1 cut(s) 128
TauI GCSGC 1 cut(s) 282
TfiI GAWTC 1 cut(s) 54
Tru1I TTAA 1 cut(s) 185
Tru9I TTAA 1 cut(s) 185
VpaK11BI GGWCC 1 cut(s) 19
XceI RCATGY 1 cut(s) 151
XmnI GAANNNNTTC 2 cut(s) 233, 251
XspI CTAG 1 cut(s) 74
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.