Rh1BG178500

Retroviral aspartyl protease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1B
OG0000370
Physical Location & Seq
Forward (+)
28519427 .. 28529577
10151 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1BG178500.1

Sequence Viewer

Length: 945 bp
ATGGAACTCATGGAATGGGCTGTCTTCAAAGAGAAATTTCTGGAAAAATATTTTCCACAAGTTGAGAGAGACAAGAAAGAATTAGAGTTTATTCAACTTACCCAAGGAAAGATGACTGTGATTGAATATGAGACCAAGTTCACTAAACTTTCTCGTTTTGCTCCACACATGGTAGATACCGATGATAAAAAGACAAGACGATTCATTGGAGGACTGAATTCCAATATTCGAAGAATGGTCACTCAACGTGGAATCACGTACGAGGAAGCTGTGGACAAAGCCCTAACTCAAGAGGAAGAAAATCAAAAATACCGCATGGAGAAGGAGCGAGAGAATGGCTTCCGAGGAAAGAGAAGTCATCCAATGTCTAATCAGAAAAGTGGACAACCATGGAAGCAGCAAAAAGGGAGAGACTCATTTCAGAAGACGACATCATCAACTGAAAAGAGAAAGGAGGTGGCAAGAGGGCCAATTCAGTGTTACAACTGTGGGGAAACGGGACACATGTCTAATGCTTGTCCAAAGCCACGTCGCATTCCAGGATCTTGTTTCAATTGTGGGAAGGTGGGACATTTCTCAAATCAGTGCGATGCACCAAGGCAAAAAAATAACCCACCACCTCGTCCTGTCCAGCTAAATGCCATAGCTCGTGAGAACATCGTGATGGAAGGTACGCTAATCGTATATAGTACTCATGCTTATATACTATTCGATACTGGCGCATCCGATTCCCTTATATCTTCTGCATTTGTCAAAACTTTGGGGTTGACACCAACTGAACATGACGAAATTTTAACGGTTTCAACACCGTTAGAAAACATCGGCGGCCAGCGTCATGATATTCCCGGCAAACCTGACATTCACGGCGAAGTTAACATTCGGCGGTCATGTTCGAGATCAGTTGTGAAGGTCAAGCGGTGGTCAGAGGTTAAAGGTGTGGGTTGA
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
RVP_2 RVT_1 Retrotrans_gag zf-CCHC

Protein Analysis

314

Amino Acids

35.87

Weight (kDa)

9.39

Isoelectric Point (pI)

44.54

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotrans_gag PF03732 5 - 73 9.9e-15 Retrotransposon gag protein
zf-CCHC PF00098 159 - 175 2.6e-07 Zinc knuckle
zf-CCHC PF00098 182 - 197 8.9e-06 Zinc knuckle
RVP_2 PF08284 216 - 273 2.9e-10 Retroviral aspartyl protease
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: OG0000370)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g29481 FvH4_2g11454 FvH4_3g19661 FvH4_3g28463 FvH4_3g31691 FvH4_3g34551 FvH4_3g35241 FvH4_4g06575 FvH4_4g09082 FvH4_4g15804 FvH4_4g15805 FvH4_4g16178 FvH4_4g16282 FvH4_5g25163 FvH4_6g27413 FvH4_7g02962 FvH4_7g04361
malus_domestica MD01G1095000.v1.1 MD02G1270200.v1.1 MD02G1270300.v1.1 MD02G1270400.v1.1 MD06G1059100.v1.1 MD08G1226500.v1.1
prunus_persica Prupe.1G169500_v2.0.a1 Prupe.5G195800_v2.0.a1
pyrus_communis pycom01g00010 pycom01g00770 pycom02g23140 pycom03g11760 pycom04g06090 pycom05g06900 pycom05g08070 pycom05g14500 pycom06g03050 pycom07g06250 pycom07g07540 pycom07g10580 pycom08g04990 pycom1146g00060 pycom11g01080 pycom11g15270 pycom11g15460 pycom11g24900 pycom12419g00150 pycom12424g00120 pycom13g08740 pycom13g24950 pycom13g25960 pycom13g26030 pycom13g27820 pycom16g23270 pycom16g25020 pycom16g25960 pycom17g07780 pycom17g08210 pycom17g13100
rosa_chinensis RchiOBHm_Chr1g0329421 RchiOBHm_Chr4g0397711 RchiOBHm_Chr4g0403481 RchiOBHm_Chr5g0019091 RchiOBHm_Chr5g0049101
rosa_laevigata RLG00000029892
rosa_multiflora Rmu_sc0001866.1_g000007
rosa_roxburghii Rroxscaffold_2G00094160 Rroxscaffold_3G00229110 Rroxscaffold_4G00321100 Rroxscaffold_7G00196040 Rroxscaffold_7G00196280
rosa_rugosa Rorug05G0160500 Rorug06G0096500
rosa_samantha Rh1AG098600 Rh1AG098800 Rh1BG078200 Rh1BG078700 Rh1BG178500 Rh1CG094600 Rh1CG094900 Rh1DG101700 Rh1DG109600 Rh2AG175800 Rh2AG175900 Rh2AG511400 Rh2BG114700 Rh2CG042200 Rh2CG116600 Rh2CG317500 Rh2DG327700 Rh2DG337800 Rh4CG142700 Rh4DG113100 Rh5BG335800 Rh5CG360600 Rh5DG352000 Rh6BG071400 Rh6BG417100 Rh6CG463300 Rh6CG463400 Rh7BG186600 Rh7CG196500 Rh7CG196600 Rh7CG448900 Rh7DG228300
rosa_wichuraiana Rw4G006560 Rw4G017340 Rw5G030450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 4 cut(s) 313, 825, 883, 916
AclWI GGATC 1 cut(s) 550
AcoI YGGCCR 1 cut(s) 826
AcsI RAATTY 3 cut(s) 35, 217, 789
AfaI GTAC 3 cut(s) 260, 673, 691
AflIII ACRYGT 1 cut(s) 504
AgsI TTSAA 5 cut(s) 28, 95, 125, 553, 804
AjiI CACGTC 1 cut(s) 530
AjnI CCWGG 1 cut(s) 538
AluBI AGCT 3 cut(s) 269, 634, 647
AluI AGCT 3 cut(s) 269, 634, 647
Alw26I GTCTC 3 cut(s) 63, 125, 405
AlwI GGATC 1 cut(s) 550
AoxI GGCC 2 cut(s) 467, 826
ApeKI GCWGC 1 cut(s) 397
ApoI RAATTY 3 cut(s) 35, 217, 789
Asp700I GAANNNNTTC 1 cut(s) 338
AspLEI GCGC 1 cut(s) 722
AspS9I GGNCC 1 cut(s) 467
AsuC2I CCSGG 1 cut(s) 846
AsuII TTCGAA 1 cut(s) 229
BauI CACGAG 1 cut(s) 648
BbsI GAAGAC 2 cut(s) 16, 431
BbvI GCAGC 1 cut(s) 409
BccI CCATC 1 cut(s) 658
BceAI ACGGC 1 cut(s) 880
BciT130I CCWGG 1 cut(s) 540
BcnI CCSGG 1 cut(s) 846
BcoDI GTCTC 3 cut(s) 63, 125, 405
BisI GCNGC 2 cut(s) 398, 826
BlsI GCNGC 2 cut(s) 399, 827
BmcAI AGTACT 1 cut(s) 691
Bme1390I CCNGG 2 cut(s) 540, 846
BmgBI CACGTC 1 cut(s) 530
BmgT120I GGNCC 1 cut(s) 467
BmrFI CCNGG 2 cut(s) 540, 846
BmsI GCATC 2 cut(s) 580, 731
BoxI GACNNNNGTC 1 cut(s) 505
BpiI GAAGAC 2 cut(s) 16, 431
Bpu14I TTCGAA 1 cut(s) 229
BpuEI CTTGAG 1 cut(s) 273
BpuMI CCSGG 1 cut(s) 846
BsaAI YACGTR 1 cut(s) 258
BsaI GGTCTC 1 cut(s) 125
BsaJI CCNNGG 4 cut(s) 103, 343, 389, 596
Bse1I ACTGG 1 cut(s) 721
BseBI CCWGG 1 cut(s) 540
BseDI CCNNGG 4 cut(s) 103, 343, 389, 596
BseGI GGATG 2 cut(s) 358, 722
BseNI ACTGG 1 cut(s) 721
BseXI GCAGC 1 cut(s) 409
BshFI GGCC 2 cut(s) 469, 828
BsiSI CCGG 1 cut(s) 846
BsiWI CGTACG 1 cut(s) 258
BslFI GGGAC 2 cut(s) 513, 582
BsmAI GTCTC 3 cut(s) 63, 125, 405
BsmFI GGGAC 2 cut(s) 513, 582
BsmI GAATGC 1 cut(s) 534
BsnI GGCC 2 cut(s) 469, 828
Bso31I GGTCTC 1 cut(s) 125
Bsp119I TTCGAA 1 cut(s) 229
Bsp143I GATC 2 cut(s) 542, 896
Bsp19I CCATGG 1 cut(s) 389
BspACI CCGC 4 cut(s) 313, 825, 883, 916
BspANI GGCC 2 cut(s) 469, 828
BspHI TCATGA 1 cut(s) 835
BspPI GGATC 1 cut(s) 550
BspT104I TTCGAA 1 cut(s) 229
BspTNI GGTCTC 1 cut(s) 125
BsrI ACTGG 1 cut(s) 721
BssECI CCNNGG 4 cut(s) 103, 343, 389, 596
BssMI GATC 2 cut(s) 542, 896
BssSI CACGAG 1 cut(s) 648
BssT1I CCWWGG 3 cut(s) 103, 389, 596
Bst2BI CACGAG 1 cut(s) 648
Bst2UI CCWGG 1 cut(s) 540
Bst4CI ACNGT 4 cut(s) 118, 488, 799, 810
BstBAI YACGTR 1 cut(s) 258
BstBI TTCGAA 1 cut(s) 229
BstC8I GCNNGC 1 cut(s) 830
BstDSI CCRYGG 1 cut(s) 389
BstF5I GGATG 2 cut(s) 358, 722
BstHHI GCGC 1 cut(s) 722
BstKTI GATC 2 cut(s) 545, 899
BstMAI GTCTC 3 cut(s) 63, 125, 405
BstMBI GATC 2 cut(s) 542, 896
BstNI CCWGG 1 cut(s) 540
BstNSI RCATGY 1 cut(s) 508
BstPAI GACNNNNGTC 1 cut(s) 505
BstSCI CCNGG 2 cut(s) 538, 844
BstV1I GCAGC 1 cut(s) 409
BstV2I GAAGAC 2 cut(s) 16, 431
BstX2I RGATCY 1 cut(s) 542
BstYI RGATCY 1 cut(s) 542
BsuRI GGCC 2 cut(s) 469, 828
BtgI CCRYGG 1 cut(s) 389
BtgZI GCGATG 1 cut(s) 603
BtrI CACGTC 1 cut(s) 530
BtsCI GGATG 2 cut(s) 358, 722
BtsIMutI CAGTG 2 cut(s) 482, 590
Cac8I GCNNGC 1 cut(s) 830
CciI TCATGA 1 cut(s) 835
CfoI GCGC 1 cut(s) 722
Cfr13I GGNCC 1 cut(s) 467
CseI GACGC 1 cut(s) 821
Csp6I GTAC 3 cut(s) 259, 672, 690
CviAII CATG 9 cut(s) 10, 169, 316, 390, 505, 695, 782, 836, 888
CviJI RGCY 9 cut(s) 20, 269, 281, 339, 469, 526, 634, 647, 828
CviKI_1 RGCY 9 cut(s) 20, 269, 281, 339, 469, 526, 634, 647, 828
CviQI GTAC 3 cut(s) 259, 672, 690
DpnI GATC 2 cut(s) 544, 898
DpnII GATC 2 cut(s) 542, 896
EaeI YGGCCR 1 cut(s) 826
Eco130I CCWWGG 3 cut(s) 103, 389, 596
Eco31I GGTCTC 1 cut(s) 125
EcoRI GAATTC 1 cut(s) 217
EcoRII CCWGG 1 cut(s) 538
EcoT14I CCWWGG 3 cut(s) 103, 389, 596
ErhI CCWWGG 3 cut(s) 103, 389, 596
FaeI CATG 9 cut(s) 13, 172, 319, 393, 508, 698, 785, 839, 891
FaqI GGGAC 2 cut(s) 513, 582
FatI CATG 9 cut(s) 9, 168, 315, 389, 504, 694, 781, 835, 887
Fnu4HI GCNGC 2 cut(s) 398, 826
FokI GGATG 2 cut(s) 345, 709
Fsp4HI GCNGC 2 cut(s) 398, 826
GlaI GCGC 1 cut(s) 721
GluI GCNGC 2 cut(s) 398, 826
HaeIII GGCC 2 cut(s) 469, 828
HapII CCGG 1 cut(s) 846
HgaI GACGC 1 cut(s) 821
HhaI GCGC 1 cut(s) 722
Hin1II CATG 9 cut(s) 13, 172, 319, 393, 508, 698, 785, 839, 891
Hin6I GCGC 1 cut(s) 720
HinP1I GCGC 1 cut(s) 720
HincII GTYRAC 2 cut(s) 768, 874
HindII GTYRAC 2 cut(s) 768, 874
HinfI GANTC 4 cut(s) 201, 252, 413, 728
HpaI GTTAAC 1 cut(s) 874
HpaII CCGG 1 cut(s) 846
Hpy166II GTNNAC 5 cut(s) 141, 274, 383, 768, 874
Hpy188I TCNGA 5 cut(s) 344, 375, 423, 727, 925
Hpy188III TCNNGA 6 cut(s) 41, 290, 650, 661, 836, 894
Hpy8I GTNNAC 5 cut(s) 141, 274, 383, 768, 874
Hpy99I CGWCG 1 cut(s) 534
HpyAV CCTTC 4 cut(s) 316, 556, 662, 901
HpyCH4III ACNGT 4 cut(s) 118, 488, 799, 810
HpyCH4IV ACGT 3 cut(s) 247, 257, 529
HpyCH4V TGCA 2 cut(s) 593, 746
HpySE526I ACGT 3 cut(s) 247, 257, 529
Hsp92II CATG 9 cut(s) 13, 172, 319, 393, 508, 698, 785, 839, 891
HspAI GCGC 1 cut(s) 720
KspAI GTTAAC 1 cut(s) 874
Kzo9I GATC 2 cut(s) 542, 896
LmnI GCTCC 2 cut(s) 166, 325
LpnPI CCDG 9 cut(s) 26, 525, 552, 639, 644, 702, 842, 859, 867
Lsp1109I GCAGC 1 cut(s) 409
LweI GCATC 2 cut(s) 580, 731
MaeII ACGT 3 cut(s) 247, 257, 529
MaeIII GTNAC 2 cut(s) 238, 479
MalI GATC 2 cut(s) 544, 898
MboI GATC 2 cut(s) 542, 896
MboII GAAGA 5 cut(s) 16, 243, 308, 436, 732
MfeI CAATTG 1 cut(s) 553
MflI RGATCY 1 cut(s) 542
MluCI AATT 6 cut(s) 35, 80, 217, 471, 553, 789
MlyI GAGTC 1 cut(s) 407
MnlI CCTC 8 cut(s) 203, 256, 286, 338, 448, 458, 630, 919
MroXI GAANNNNTTC 1 cut(s) 338
MseI TTAA 3 cut(s) 794, 873, 930
MslI CAYNNNNRTG 1 cut(s) 662
MspI CCGG 1 cut(s) 846
MspR9I CCNGG 2 cut(s) 540, 846
MunI CAATTG 1 cut(s) 553
Mva1269I GAATGC 1 cut(s) 534
MvaI CCWGG 1 cut(s) 540
NciI CCSGG 1 cut(s) 846
NcoI CCATGG 1 cut(s) 389
NdeII GATC 2 cut(s) 542, 896
NlaIII CATG 9 cut(s) 13, 172, 319, 393, 508, 698, 785, 839, 891
NmuCI GTSAC 1 cut(s) 238
NspI RCATGY 1 cut(s) 508
NspV TTCGAA 1 cut(s) 229
PagI TCATGA 1 cut(s) 835
PciI ACATGT 1 cut(s) 504
PctI GAATGC 1 cut(s) 534
PdmI GAANNNNTTC 1 cut(s) 338
PfeI GAWTC 3 cut(s) 201, 252, 728
Pfl23II CGTACG 1 cut(s) 258
PfoI TCCNGGA 1 cut(s) 538
PkrI GCNGC 2 cut(s) 399, 827
PleI GAGTC 1 cut(s) 407
PpsI GAGTC 1 cut(s) 407
Ppu21I YACGTR 1 cut(s) 258
PscI ACATGT 1 cut(s) 504
PshAI GACNNNNGTC 1 cut(s) 505
Psp6I CCWGG 1 cut(s) 538
PspGI CCWGG 1 cut(s) 538
PspLI CGTACG 1 cut(s) 258
PspPI GGNCC 1 cut(s) 467
PsuI RGATCY 1 cut(s) 542
RsaI GTAC 3 cut(s) 260, 673, 691
RsaNI GTAC 3 cut(s) 259, 672, 690
RseI CAYNNNNRTG 1 cut(s) 662
SaqAI TTAA 3 cut(s) 794, 873, 930
SatI GCNGC 2 cut(s) 398, 826
Sau3AI GATC 2 cut(s) 542, 896
Sau96I GGNCC 1 cut(s) 467
ScaI AGTACT 1 cut(s) 691
SchI GAGTC 1 cut(s) 407
ScrFI CCNGG 2 cut(s) 540, 846
SfaNI GCATC 2 cut(s) 580, 731
SfuI TTCGAA 1 cut(s) 229
SmiMI CAYNNNNRTG 1 cut(s) 662
SmlI CTYRAG 1 cut(s) 288
SmoI CTYRAG 1 cut(s) 288
Sse9I AATT 6 cut(s) 35, 80, 217, 471, 553, 789
SsiI CCGC 4 cut(s) 313, 825, 883, 916
SspI AATATT 2 cut(s) 50, 226
StyD4I CCNGG 2 cut(s) 538, 844
StyI CCWWGG 3 cut(s) 103, 389, 596
TaaI ACNGT 4 cut(s) 118, 488, 799, 810
TaiI ACGT 3 cut(s) 250, 260, 532
TaqI TCGA 3 cut(s) 229, 711, 893
TasI AATT 6 cut(s) 35, 80, 217, 471, 553, 789
TatI WGTACW 1 cut(s) 689
TauI GCSGC 1 cut(s) 828
TfiI GAWTC 3 cut(s) 201, 252, 728
Tru1I TTAA 3 cut(s) 794, 873, 930
Tru9I TTAA 3 cut(s) 794, 873, 930
TscAI CASTG 2 cut(s) 482, 590
TseFI GTSAC 1 cut(s) 238
TseI GCWGC 1 cut(s) 397
Tsp45I GTSAC 1 cut(s) 238
TspDTI ATGAA 1 cut(s) 193
TspRI CASTG 2 cut(s) 482, 590
XapI RAATTY 3 cut(s) 35, 217, 789
XceI RCATGY 1 cut(s) 508
XmnI GAANNNNTTC 1 cut(s) 338
ZrmI AGTACT 1 cut(s) 691
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.