Rh6BG428600

Mitochondrial protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6B
OG0000278
Physical Location & Seq
Reverse (-)
64922973 .. 64923832
860 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6BG428600.1

Sequence Viewer

Length: 540 bp
ATGCATGAAATCGATGAAATCGATAAATATGATGGGAAGAACAATTTGAGGACATGGCAACGTGAAGTGAGGTATATCTTAACCGAGGAGGATTTGGAATTTGTTTTGGATGGAAAACCCTCTAATATGGAGGAAGACGAGTGGTGTAAGCTTGATACTTATGCTTGTTCTATAATTCGGTGCTATTTATCGAAGGAGATCAAGTCTACTATCACAAGTGAGACAATGTCCGCGAAGGAGGTCTGGGAGAAACTTGAAAATTGTAATGTAGAAACTTCTGCAAAGCGGATCAACCTCAAGATGAAGCTTCATAGGTTCACCATGGGTGGAAATACAACAATGGAGGACCATATTAAGGAGTTCAACAAGATGCTGAAGGAACTGTCTGACTTGAAGGTGAGGATCACGGAGAAAGACAAGGTTGCAGTTCTTCTTGCCTCACTACCTGAGAATTTTGATCCTTCTTTGGAGTCCATGCTAGATGAGGATGATAATATATGTTTGGATGTGGCCATATCCATACTTCTGAGTTCTCATTGA
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 Retrotran_gag_3 Retrotrans_gag gag_pre-integrs rve zf-CCHC

Protein Analysis

179

Amino Acids

20.84

Weight (kDa)

4.79

Isoelectric Point (pI)

46.88

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 38 - 176 4.8e-23 gag-polypeptide of LTR copia-type
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AccI GTMKAC 1 cut(s) 206
AccII CGCG 1 cut(s) 233
AciI CCGC 2 cut(s) 231, 286
AclWI GGATC 3 cut(s) 296, 410, 452
AcoI YGGCCR 1 cut(s) 510
AcsI RAATTY 2 cut(s) 98, 451
AcuI CTGAAG 1 cut(s) 395
AfiI CCNNNNNNNGG 1 cut(s) 355
AgsI TTSAA 3 cut(s) 257, 364, 394
AluBI AGCT 2 cut(s) 151, 307
AluI AGCT 2 cut(s) 151, 307
Alw26I GTCTC 1 cut(s) 215
AlwI GGATC 3 cut(s) 296, 410, 452
AoxI GGCC 1 cut(s) 510
ApoI RAATTY 2 cut(s) 98, 451
AspS9I GGNCC 1 cut(s) 346
AsuHPI GGTGA 2 cut(s) 310, 409
AvaII GGWCC 1 cut(s) 346
BalI TGGCCA 1 cut(s) 512
BbsI GAAGAC 1 cut(s) 141
BccI CCATC 2 cut(s) 26, 104
BcoDI GTCTC 1 cut(s) 215
BfaI CTAG 1 cut(s) 479
Bme18I GGWCC 1 cut(s) 346
BmgT120I GGNCC 1 cut(s) 346
BmsI GCATC 1 cut(s) 360
BpiI GAAGAC 1 cut(s) 141
BpuEI CTTGAG 1 cut(s) 281
Bsa29I ATCGAT 2 cut(s) 12, 21
BsaJI CCNNGG 2 cut(s) 84, 321
BsaXI ACNNNNNCTCC 2 cut(s) 188, 218
Bsc4I CCNNNNNNNGG 1 cut(s) 355
BseCI ATCGAT 2 cut(s) 12, 21
BseDI CCNNGG 2 cut(s) 84, 321
BseGI GGATG 3 cut(s) 115, 493, 511
BseLI CCNNNNNNNGG 1 cut(s) 355
BseMII CTCAG 2 cut(s) 438, 518
BseRI GAGGAG 1 cut(s) 101
Bsh1236I CGCG 1 cut(s) 233
BshFI GGCC 1 cut(s) 512
BshVI ATCGAT 2 cut(s) 12, 21
BslI CCNNNNNNNGG 1 cut(s) 355
BsmAI GTCTC 1 cut(s) 215
BsnI GGCC 1 cut(s) 512
Bsp143I GATC 4 cut(s) 198, 288, 402, 457
Bsp19I CCATGG 1 cut(s) 321
BspACI CCGC 2 cut(s) 231, 286
BspANI GGCC 1 cut(s) 512
BspCNI CTCAG 2 cut(s) 439, 519
BspDI ATCGAT 2 cut(s) 12, 21
BspFNI CGCG 1 cut(s) 233
BspPI GGATC 3 cut(s) 296, 410, 452
BssECI CCNNGG 2 cut(s) 84, 321
BssMI GATC 4 cut(s) 198, 288, 402, 457
BssT1I CCWWGG 1 cut(s) 321
Bst4CI ACNGT 1 cut(s) 384
BstDEI CTNAG 2 cut(s) 447, 527
BstDSI CCRYGG 1 cut(s) 321
BstF5I GGATG 3 cut(s) 115, 493, 511
BstFNI CGCG 1 cut(s) 233
BstKTI GATC 4 cut(s) 201, 291, 405, 460
BstMAI GTCTC 1 cut(s) 215
BstMBI GATC 4 cut(s) 198, 288, 402, 457
BstUI CGCG 1 cut(s) 233
BstV2I GAAGAC 1 cut(s) 141
Bsu15I ATCGAT 2 cut(s) 12, 21
BsuRI GGCC 1 cut(s) 512
BsuTUI ATCGAT 2 cut(s) 12, 21
BtgI CCRYGG 1 cut(s) 321
BtsCI GGATG 3 cut(s) 115, 493, 511
Cfr13I GGNCC 1 cut(s) 346
ClaI ATCGAT 2 cut(s) 12, 21
CviAII CATG 4 cut(s) 5, 54, 322, 475
CviJI RGCY 3 cut(s) 151, 307, 512
CviKI_1 RGCY 3 cut(s) 151, 307, 512
DdeI CTNAG 2 cut(s) 447, 527
DpnI GATC 4 cut(s) 200, 290, 404, 459
DpnII GATC 4 cut(s) 198, 288, 402, 457
EaeI YGGCCR 1 cut(s) 510
Eco130I CCWWGG 1 cut(s) 321
Eco47I GGWCC 1 cut(s) 346
Eco57I CTGAAG 1 cut(s) 395
EcoT14I CCWWGG 1 cut(s) 321
EcoT22I ATGCAT 1 cut(s) 6
ErhI CCWWGG 1 cut(s) 321
FaeI CATG 4 cut(s) 8, 57, 325, 478
FatI CATG 4 cut(s) 4, 53, 321, 474
FblI GTMKAC 1 cut(s) 206
FokI GGATG 3 cut(s) 122, 500, 518
FspBI CTAG 1 cut(s) 479
HaeIII GGCC 1 cut(s) 512
Hin1II CATG 4 cut(s) 8, 57, 325, 478
HindIII AAGCTT 2 cut(s) 149, 305
HinfI GANTC 1 cut(s) 470
HphI GGTGA 2 cut(s) 310, 409
Hpy166II GTNNAC 2 cut(s) 207, 318
Hpy188I TCNGA 2 cut(s) 388, 528
Hpy188III TCNNGA 1 cut(s) 298
Hpy8I GTNNAC 2 cut(s) 207, 318
HpyAV CCTTC 5 cut(s) 187, 229, 370, 388, 471
HpyCH4III ACNGT 1 cut(s) 384
HpyCH4IV ACGT 1 cut(s) 61
HpyCH4V TGCA 3 cut(s) 4, 281, 425
HpyF3I CTNAG 2 cut(s) 447, 527
HpySE526I ACGT 1 cut(s) 61
Hsp92II CATG 4 cut(s) 8, 57, 325, 478
Kzo9I GATC 4 cut(s) 198, 288, 402, 457
LpnPI CCDG 2 cut(s) 229, 459
LweI GCATC 1 cut(s) 360
MaeI CTAG 1 cut(s) 479
MaeII ACGT 1 cut(s) 61
MalI GATC 4 cut(s) 200, 290, 404, 459
MboI GATC 4 cut(s) 198, 288, 402, 457
MboII GAAGA 3 cut(s) 49, 146, 422
MlsI TGGCCA 1 cut(s) 512
MluCI AATT 5 cut(s) 43, 98, 174, 259, 451
MluNI TGGCCA 1 cut(s) 512
MlyI GAGTC 1 cut(s) 479
Mox20I TGGCCA 1 cut(s) 512
Mph1103I ATGCAT 1 cut(s) 6
MscI TGGCCA 1 cut(s) 512
MseI TTAA 2 cut(s) 80, 354
Msp20I TGGCCA 1 cut(s) 512
MvnI CGCG 1 cut(s) 233
NcoI CCATGG 1 cut(s) 321
NdeII GATC 4 cut(s) 198, 288, 402, 457
NlaIII CATG 4 cut(s) 8, 57, 325, 478
NsiI ATGCAT 1 cut(s) 6
PcsI WCGNNNNNNNCGW 1 cut(s) 18
PflFI GACNNNGTC 1 cut(s) 226
PleI GAGTC 1 cut(s) 478
PpsI GAGTC 1 cut(s) 478
PspPI GGNCC 1 cut(s) 346
PsyI GACNNNGTC 1 cut(s) 226
SaqAI TTAA 2 cut(s) 80, 354
Sau3AI GATC 4 cut(s) 198, 288, 402, 457
Sau96I GGNCC 1 cut(s) 346
SchI GAGTC 1 cut(s) 479
SfaNI GCATC 1 cut(s) 360
SinI GGWCC 1 cut(s) 346
SmlI CTYRAG 1 cut(s) 296
SmoI CTYRAG 1 cut(s) 296
Sse9I AATT 5 cut(s) 43, 98, 174, 259, 451
SsiI CCGC 2 cut(s) 231, 286
SspMI CTAG 1 cut(s) 479
StyI CCWWGG 1 cut(s) 321
TaaI ACNGT 1 cut(s) 384
TaiI ACGT 1 cut(s) 64
TaqI TCGA 3 cut(s) 12, 21, 191
TasI AATT 5 cut(s) 43, 98, 174, 259, 451
Tru1I TTAA 2 cut(s) 80, 354
Tru9I TTAA 2 cut(s) 80, 354
TspDTI ATGAA 4 cut(s) 21, 30, 299, 317
TspGWI ACGGA 1 cut(s) 422
Tth111I GACNNNGTC 1 cut(s) 226
VpaK11BI GGWCC 1 cut(s) 346
XapI RAATTY 2 cut(s) 98, 451
XmiI GTMKAC 1 cut(s) 206
XspI CTAG 1 cut(s) 479
Zsp2I ATGCAT 1 cut(s) 6
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.