Rroxscaffold_3G00244770

spliceosomal complex assembly

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0019676
Physical Location & Seq
Forward (+)
37577889 .. 37592096
14208 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00244770.1

Sequence Viewer

Length: 465 bp
ATGATTGCTCGTGTTTATGTTGATGATATCATATTTGGCTCTACCTCGATACTTATGTTAAAGAATTTACTAACATTGGAAAGTGAATTTAAGATGAGCATGTGTGGGGAGCTAAAATTTAAGATAGCATGTTCGTCAACCGAAAGTGGGTATCACAAAGTTCGTAAATATGTCGAGAATCTTGTGAAAAAGTTTGGACTTGAATCTGCAAAAATTGTCACTAATCCAATGAGTACAAGTACCAAACTTAGTGAGGATCTCACAGGTAAGTCCGTCGATCAAACTCTCTATAGGAGTATGATTGGTAGTCTTCTTTATCTCACTGCTAGTAGGCTCCGACATATCCTATTATGTTGCAGTTTGTGCTCGTTTTCGAGCAAATCCAAAGGAATCTCATTTGGAGGCGTGAAAAGGATTATACGTTATGTCTCGTACGATGAATTGTGGCATCTACTTTACCTTTGA
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
RVT_2 Retrotran_gag_2 gag_pre-integrs rve zf-CCHC

Protein Analysis

154

Amino Acids

17.42

Weight (kDa)

9.3

Isoelectric Point (pI)

38.03

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_2 PF07727 2 - 77 5e-06 Reverse transcriptase (RNA-dependent DNA polymerase)
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: OG0019676)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g40202
rosa_chinensis RchiOBHm_Chr1g0369901 RchiOBHm_Chr2g0121901
rosa_laevigata RLG00000035900
rosa_roxburghii Rroxscaffold_3G00244770 Rroxscaffold_5G00337010
rosa_wichuraiana Rw2G023390

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 1 cut(s) 264
AcsI RAATTY 3 cut(s) 64, 86, 116
AfaI GTAC 3 cut(s) 235, 241, 434
AfiI CCNNNNNNNGG 1 cut(s) 147
AgsI TTSAA 1 cut(s) 203
AluBI AGCT 1 cut(s) 112
AluI AGCT 1 cut(s) 112
Alw21I GWGCWC 1 cut(s) 368
Alw26I GTCTC 1 cut(s) 433
AlwI GGATC 1 cut(s) 264
ApoI RAATTY 3 cut(s) 64, 86, 116
BaeI ACNNNNGTAYC 2 cut(s) 41, 74
BauI CACGAG 1 cut(s) 9
BbsI GAAGAC 1 cut(s) 302
Bbv12I GWGCWC 1 cut(s) 368
BcoDI GTCTC 1 cut(s) 433
BfaI CTAG 1 cut(s) 327
BfmI CTRYAG 1 cut(s) 289
BmiI GGNNCC 1 cut(s) 335
BmsI GCATC 1 cut(s) 457
BpiI GAAGAC 1 cut(s) 302
Bsc4I CCNNNNNNNGG 1 cut(s) 147
BseLI CCNNNNNNNGG 1 cut(s) 147
BsiHKAI GWGCWC 1 cut(s) 368
BsiWI CGTACG 1 cut(s) 432
BslI CCNNNNNNNGG 1 cut(s) 147
BsmAI GTCTC 1 cut(s) 433
Bsp1286I GDGCHC 1 cut(s) 368
Bsp143I GATC 2 cut(s) 256, 277
BspLI GGNNCC 1 cut(s) 335
BspPI GGATC 1 cut(s) 264
BssMI GATC 2 cut(s) 256, 277
BssSI CACGAG 1 cut(s) 9
Bst2BI CACGAG 1 cut(s) 9
BstAPI GCANNNNNTGC 1 cut(s) 363
BstDEI CTNAG 1 cut(s) 248
BstKTI GATC 2 cut(s) 259, 280
BstMAI GTCTC 1 cut(s) 433
BstMBI GATC 2 cut(s) 256, 277
BstMWI GCNNNNNNNGC 1 cut(s) 363
BstNSI RCATGY 2 cut(s) 103, 132
BstSFI CTRYAG 1 cut(s) 289
BstV2I GAAGAC 1 cut(s) 302
BstX2I RGATCY 1 cut(s) 256
BstYI RGATCY 1 cut(s) 256
BtsI GCAGTG 1 cut(s) 321
BtsIMutI CAGTG 1 cut(s) 321
Csp6I GTAC 3 cut(s) 234, 240, 433
CviAII CATG 2 cut(s) 100, 129
CviJI RGCY 3 cut(s) 39, 112, 334
CviKI_1 RGCY 3 cut(s) 39, 112, 334
CviQI GTAC 3 cut(s) 234, 240, 433
DdeI CTNAG 1 cut(s) 248
DpnI GATC 2 cut(s) 258, 279
DpnII GATC 2 cut(s) 256, 277
Eco32I GATATC 1 cut(s) 28
EcoRV GATATC 1 cut(s) 28
FaeI CATG 2 cut(s) 103, 132
FatI CATG 2 cut(s) 99, 128
FspBI CTAG 1 cut(s) 327
Hin1II CATG 2 cut(s) 103, 132
HincII GTYRAC 1 cut(s) 138
HindII GTYRAC 1 cut(s) 138
HinfI GANTC 3 cut(s) 178, 203, 390
Hpy166II GTNNAC 1 cut(s) 138
Hpy188I TCNGA 1 cut(s) 338
Hpy188III TCNNGA 1 cut(s) 175
Hpy8I GTNNAC 1 cut(s) 138
Hpy99I CGWCG 1 cut(s) 278
HpyCH4IV ACGT 1 cut(s) 421
HpyCH4V TGCA 2 cut(s) 209, 357
HpyF10VI GCNNNNNNNGC 1 cut(s) 363
HpyF3I CTNAG 1 cut(s) 248
HpySE526I ACGT 1 cut(s) 421
Hsp92II CATG 2 cut(s) 103, 132
Kzo9I GATC 2 cut(s) 256, 277
LmnI GCTCC 2 cut(s) 109, 339
LpnPI CCDG 1 cut(s) 249
LweI GCATC 1 cut(s) 457
MaeI CTAG 1 cut(s) 327
MaeII ACGT 1 cut(s) 421
MaeIII GTNAC 1 cut(s) 217
MalI GATC 2 cut(s) 258, 279
MboI GATC 2 cut(s) 256, 277
MboII GAAGA 1 cut(s) 302
MflI RGATCY 1 cut(s) 256
MhlI GDGCHC 1 cut(s) 368
MluCI AATT 5 cut(s) 64, 86, 116, 213, 440
MmeI TCCRAC 1 cut(s) 361
MnlI CCTC 3 cut(s) 55, 247, 395
MseI TTAA 3 cut(s) 59, 90, 120
MwoI GCNNNNNNNGC 1 cut(s) 363
NdeII GATC 2 cut(s) 256, 277
NlaIII CATG 2 cut(s) 103, 132
NlaIV GGNNCC 1 cut(s) 335
NmuCI GTSAC 1 cut(s) 217
NspI RCATGY 2 cut(s) 103, 132
PfeI GAWTC 3 cut(s) 178, 203, 390
Pfl23II CGTACG 1 cut(s) 432
PspLI CGTACG 1 cut(s) 432
PspN4I GGNNCC 1 cut(s) 335
PsuI RGATCY 1 cut(s) 256
RsaI GTAC 3 cut(s) 235, 241, 434
RsaNI GTAC 3 cut(s) 234, 240, 433
SaqAI TTAA 3 cut(s) 59, 90, 120
Sau3AI GATC 2 cut(s) 256, 277
SduI GDGCHC 1 cut(s) 368
SetI ASST 5 cut(s) 47, 114, 268, 424, 462
SfaNI GCATC 1 cut(s) 457
SfcI CTRYAG 1 cut(s) 289
Sse9I AATT 5 cut(s) 64, 86, 116, 213, 440
SspMI CTAG 1 cut(s) 327
TaiI ACGT 1 cut(s) 424
TaqI TCGA 4 cut(s) 47, 174, 276, 374
TasI AATT 5 cut(s) 64, 86, 116, 213, 440
TatI WGTACW 1 cut(s) 233
TfiI GAWTC 3 cut(s) 178, 203, 390
Tru1I TTAA 3 cut(s) 59, 90, 120
Tru9I TTAA 3 cut(s) 59, 90, 120
TscAI CASTG 1 cut(s) 328
TseFI GTSAC 1 cut(s) 217
Tsp45I GTSAC 1 cut(s) 217
TspDTI ATGAA 1 cut(s) 453
TspGWI ACGGA 1 cut(s) 262
TspRI CASTG 1 cut(s) 328
XapI RAATTY 3 cut(s) 64, 86, 116
XceI RCATGY 2 cut(s) 103, 132
XspI CTAG 1 cut(s) 327
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.