Rroxscaffold_4G00301460

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0000278
Physical Location & Seq
Forward (+)
21822783 .. 21825533
2751 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00301460.1

Sequence Viewer

Length: 414 bp
ATGGCAAGTTCTAGCGTCTCACATTTCAAGGTGGAGCAGTTTGATGGAAAGGGAAATTTCACTCTATGGCAAAGGAGGGTGAAGGACATCCTAGTTCAACAAGGTCTTGCAAAACCTTTGAAGGGAAAGGATGCGAAGCCGGTGAAGATGTCGATGAAGATTGGGAAGAGTTGGAGTCCCGGTGTGTTAGCACTATTAGGCTTTATATTGCCGACAATATTATCAATAATGTTAATAATGTTGATTCGGCAACTCAGCTTTGGGAAAAAATGGAGAAGCTTCATCTTGGGAAAGGCTTGCGACGAAGTTGAATCTAAAGCGGGATCTCTACAAGCTCAAGATGGGAGAAGGTGCGAGTCTCATGGAGCACATGAACGTGTTCGTAGGATTGGTAGATCAACTAGCAAAAGTTGA
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
Retrotran_gag_2

Protein Analysis

137

Amino Acids

15.24

Weight (kDa)

10.55

Isoelectric Point (pI)

54.05

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0000278)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G29785
fragaria_vesca FvH4_1g10046 FvH4_1g17351 FvH4_1g18441 FvH4_1g24222 FvH4_2g00141 FvH4_2g05931 FvH4_2g06671 FvH4_2g14030 FvH4_2g15291 FvH4_2g22611 FvH4_2g22612 FvH4_2g26380 FvH4_2g39202 FvH4_2g39202 FvH4_3g06691 FvH4_3g08580 FvH4_3g20502 FvH4_3g20503 FvH4_3g22421 FvH4_3g42580 FvH4_4g02061 FvH4_4g06794 FvH4_4g08661 FvH4_4g11771 FvH4_4g14601 FvH4_4g14721 FvH4_4g20921 FvH4_4g33601 FvH4_4g33602 FvH4_5g07492 FvH4_5g20321 FvH4_5g21591 FvH4_5g30343 FvH4_5g37875 FvH4_6g04372 FvH4_6g04373 FvH4_6g04373 FvH4_6g21377 FvH4_6g23760 FvH4_6g29471 FvH4_6g43142 FvH4_7g14351 FvH4_7g14352 FvH4_7g22582 FvH4_7g22583 FvH4_7g22584
malus_domestica MD00G1179400.v1.1 MD01G1170500.v1.1 MD03G1286700.v1.1 MD04G1054600.v1.1 MD04G1071700.v1.1 MD04G1193900.v1.1 MD08G1054300.v1.1 MD08G1217500.v1.1 MD09G1034600.v1.1 MD09G1098100.v1.1 MD10G1018300.v1.1 MD10G1220000.v1.1 MD10G1250300.v1.1 MD12G1014400.v1.1 MD15G1021000.v1.1 MD16G1112200.v1.1
prunus_persica Prupe.1G188900_v2.0.a1 Prupe.1G258000_v2.0.a1 Prupe.4G233400_v2.0.a1
pyrus_communis pycom01g10100 pycom02g01340 pycom03g19700 pycom05g01320 pycom07g16000 pycom07g16520 pycom11g26500 pycom13g09380 pycom13g13960 pycom14g08180 pycom14g16810 pycom16g09590
rosa_chinensis RchiOBHm_Chr1g0319891 RchiOBHm_Chr1g0333711 RchiOBHm_Chr2g0115331 RchiOBHm_Chr2g0143411 RchiOBHm_Chr2g0167631 RchiOBHm_Chr3g0448581 RchiOBHm_Chr3g0494991 RchiOBHm_Chr4g0442471 RchiOBHm_Chr6g0262311 RchiOBHm_Chr6g0301831 RchiOBHm_Chr6g0301841 RchiOBHm_Chr7g0183451
rosa_roxburghii Rroxscaffold_1G00039280 Rroxscaffold_1G00047670 Rroxscaffold_1G00066330 Rroxscaffold_2G00107510 Rroxscaffold_3G00255410 Rroxscaffold_4G00301460 Rroxscaffold_5G00352730 Rroxscaffold_7G00166350 Rroxscaffold_7G00166360 Rroxscaffold_7G00203820
rosa_rugosa Rorug03G0240500 Rorug05G0191700 Rorug06G0310200
rosa_samantha Rh2BG287000 Rh4CG073500 Rh4CG176200 Rh4CG191400 Rh5BG356100 Rh5BG434100 Rh6AG110600 Rh6AG421900 Rh6AG422000 Rh6AG422100 Rh6BG428600 Rh6BG428700 Rh6BG428800 Rh6CG435200 Rh6CG435300 Rh6CG435400 Rh6DG422000 Rh6DG422100 Rh6DG422200 Rh7BG190500 Rh7CG172800 Rh7CG225200
rosa_wichuraiana Rw2G044060 Rw6G036540

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 320
AclWI GGATC 1 cut(s) 331
AcsI RAATTY 1 cut(s) 55
AfiI CCNNNNNNNGG 1 cut(s) 122
AflIII ACRYGT 1 cut(s) 376
AgsI TTSAA 4 cut(s) 28, 98, 121, 311
AluBI AGCT 3 cut(s) 258, 279, 335
AluI AGCT 3 cut(s) 258, 279, 335
Alw21I GWGCWC 1 cut(s) 370
Alw26I GTCTC 2 cut(s) 22, 363
AlwI GGATC 1 cut(s) 331
ApoI RAATTY 1 cut(s) 55
Asp700I GAANNNNTTC 1 cut(s) 378
AsuC2I CCSGG 1 cut(s) 180
AsuHPI GGTGA 2 cut(s) 91, 154
Bbv12I GWGCWC 1 cut(s) 370
BccI CCATC 2 cut(s) 38, 335
BcnI CCSGG 1 cut(s) 180
BcoDI GTCTC 2 cut(s) 22, 363
BfaI CTAG 3 cut(s) 12, 92, 402
Bme1390I CCNGG 1 cut(s) 180
BmrFI CCNGG 1 cut(s) 180
BmsI GCATC 1 cut(s) 121
BpuEI CTTGAG 1 cut(s) 321
BpuMI CCSGG 1 cut(s) 180
BsaXI ACNNNNNCTCC 2 cut(s) 166, 196
Bsc4I CCNNNNNNNGG 1 cut(s) 122
Bse118I RCCGGY 1 cut(s) 139
BseGI GGATG 2 cut(s) 87, 136
BseLI CCNNNNNNNGG 1 cut(s) 122
BseMII CTCAG 1 cut(s) 268
BsiHKAI GWGCWC 1 cut(s) 370
BsiSI CCGG 2 cut(s) 140, 180
BslFI GGGAC 1 cut(s) 162
BslI CCNNNNNNNGG 1 cut(s) 122
BsmAI GTCTC 2 cut(s) 22, 363
BsmBI CGTCTC 1 cut(s) 22
BsmFI GGGAC 1 cut(s) 162
Bsp1286I GDGCHC 1 cut(s) 370
Bsp143I GATC 2 cut(s) 323, 395
BspACI CCGC 1 cut(s) 320
BspCNI CTCAG 1 cut(s) 267
BspPI GGATC 1 cut(s) 331
BsrFI RCCGGY 1 cut(s) 139
BssAI RCCGGY 1 cut(s) 139
BssMI GATC 2 cut(s) 323, 395
Bst6I CTCTTC 1 cut(s) 161
BstC8I GCNNGC 1 cut(s) 298
BstDEI CTNAG 1 cut(s) 254
BstF5I GGATG 2 cut(s) 87, 136
BstKTI GATC 2 cut(s) 326, 398
BstMAI GTCTC 2 cut(s) 22, 363
BstMBI GATC 2 cut(s) 323, 395
BstSCI CCNGG 1 cut(s) 178
BstX2I RGATCY 1 cut(s) 323
BstYI RGATCY 1 cut(s) 323
BtsCI GGATG 2 cut(s) 87, 136
Cac8I GCNNGC 1 cut(s) 298
Cfr10I RCCGGY 1 cut(s) 139
CseI GACGC 1 cut(s) 4
CviAII CATG 2 cut(s) 362, 371
CviJI RGCY 6 cut(s) 139, 201, 258, 279, 296, 335
CviKI_1 RGCY 6 cut(s) 139, 201, 258, 279, 296, 335
DdeI CTNAG 1 cut(s) 254
DpnI GATC 2 cut(s) 325, 397
DpnII GATC 2 cut(s) 323, 395
Eam1104I CTCTTC 1 cut(s) 161
EarI CTCTTC 1 cut(s) 161
Esp3I CGTCTC 1 cut(s) 22
FaeI CATG 2 cut(s) 365, 374
FaiI YATR 4 cut(s) 67, 206, 363, 372
FaqI GGGAC 1 cut(s) 162
FatI CATG 2 cut(s) 361, 370
FauI CCCGC 1 cut(s) 313
FokI GGATG 2 cut(s) 74, 143
FspBI CTAG 3 cut(s) 12, 92, 402
HapII CCGG 2 cut(s) 140, 180
HgaI GACGC 1 cut(s) 4
Hin1II CATG 2 cut(s) 365, 374
HindIII AAGCTT 1 cut(s) 277
HinfI GANTC 4 cut(s) 175, 244, 311, 356
HpaII CCGG 2 cut(s) 140, 180
HphI GGTGA 2 cut(s) 91, 154
Hpy188III TCNNGA 1 cut(s) 338
Hpy99I CGWCG 1 cut(s) 305
HpyAV CCTTC 3 cut(s) 76, 115, 342
HpyCH4IV ACGT 1 cut(s) 376
HpyCH4V TGCA 1 cut(s) 110
HpyF3I CTNAG 1 cut(s) 254
HpySE526I ACGT 1 cut(s) 376
Hsp92II CATG 2 cut(s) 365, 374
Kzo9I GATC 2 cut(s) 323, 395
LmnI GCTCC 2 cut(s) 34, 365
LpnPI CCDG 2 cut(s) 153, 193
LweI GCATC 1 cut(s) 121
MaeI CTAG 3 cut(s) 12, 92, 402
MaeII ACGT 1 cut(s) 376
MalI GATC 2 cut(s) 325, 397
MboI GATC 2 cut(s) 323, 395
MboII GAAGA 3 cut(s) 157, 169, 178
MflI RGATCY 1 cut(s) 323
MhlI GDGCHC 1 cut(s) 370
MluCI AATT 1 cut(s) 55
MlyI GAGTC 2 cut(s) 184, 365
MmeI TCCRAC 1 cut(s) 152
MnlI CCTC 1 cut(s) 69
MroXI GAANNNNTTC 1 cut(s) 378
MseI TTAA 1 cut(s) 233
MslI CAYNNNNRTG 1 cut(s) 375
MspI CCGG 2 cut(s) 140, 180
MspR9I CCNGG 1 cut(s) 180
NciI CCSGG 1 cut(s) 180
NdeII GATC 2 cut(s) 323, 395
NlaIII CATG 2 cut(s) 365, 374
PdmI GAANNNNTTC 1 cut(s) 378
PfeI GAWTC 2 cut(s) 244, 311
PleI GAGTC 2 cut(s) 183, 364
PpsI GAGTC 2 cut(s) 183, 364
PsuI RGATCY 1 cut(s) 323
RseI CAYNNNNRTG 1 cut(s) 375
SaqAI TTAA 1 cut(s) 233
Sau3AI GATC 2 cut(s) 323, 395
SchI GAGTC 2 cut(s) 184, 365
ScrFI CCNGG 1 cut(s) 180
SduI GDGCHC 1 cut(s) 370
SetI ASST 8 cut(s) 33, 106, 118, 260, 281, 337, 353, 379
SfaNI GCATC 1 cut(s) 121
SmiMI CAYNNNNRTG 1 cut(s) 375
SmlI CTYRAG 1 cut(s) 336
SmoI CTYRAG 1 cut(s) 336
Sse9I AATT 1 cut(s) 55
SsiI CCGC 1 cut(s) 320
SspI AATATT 1 cut(s) 219
SspMI CTAG 3 cut(s) 12, 92, 402
StyD4I CCNGG 1 cut(s) 178
TaiI ACGT 1 cut(s) 379
TaqI TCGA 1 cut(s) 152
TasI AATT 1 cut(s) 55
TfiI GAWTC 2 cut(s) 244, 311
Tru1I TTAA 1 cut(s) 233
Tru9I TTAA 1 cut(s) 233
TspDTI ATGAA 3 cut(s) 170, 271, 387
XapI RAATTY 1 cut(s) 55
XmnI GAANNNNTTC 1 cut(s) 378
XspI CTAG 3 cut(s) 12, 92, 402
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.