Rorug05G0438900

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000005
OG0000276
Physical Location & Seq
Reverse (-)
61013305 .. 61016413
3109 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug05G0438900.1

Sequence Viewer

Length: 855 bp
ATGAAAGGGGTATACCCTGTGAGGCCACAAGTGCCAGCGGTTGGAGGATATGAAGGTGTGGGAGAGGTACACTCTGTCGGCTCTGCGGTTAAAGGATTATCGCCTGGAGATTTGGTCATCCCATCTCCACCTTCTTCCGGGATGTGGCAAACTTATGTTGTGAAAGATCAGGGTGTATGGCACAAGATTAATAAAGATTCACCCTTGGAATATGCTGCTACCATTACTGTAAATCCATTGACTGCTCTAAGAATGCTTGAAGACTTCACCACTTTAAAGTCAGGAGATGCTGTTGTTCAAAATGGAGCCACCAGCATCGTGGGGCAGTGCATTATTCAGCTTGCAAAGAATCGTGGCATTCATAGTGTTAATATTATAAGAGACAGGGCTGGCTCAGATGAAGTAAAGGAAAAGCTTAAAAAACTTGGTGCTGATGAAGTTTTTACTGAGAGCGAACTGCAAGTCAAGGATGTCAAGGGCCTTCTGTCTGGCATACCTGAACCTGCATTGGGATTTAACTGCGTCGGAGGCAATGCTGCTTCCTTGGTTCTTAAATTTTTGGGGCGTGGCGGCACTATGGTGACTTATGGTGGCATGTCTAAGAAACCAATTACTGTATCAACTTCATATTTCATTTTTAAGGATCTTTCCTTGAGGGGATTCTGGTTGCAGAGTTGGATGAGTACAGAGAAGGCAGCAGAGTGCAGAGTTCTGATAGATCACCTCCTTGACCTAGCACGGGAAGGAAAATTAAAATATGAGATGGAGCTGGTGCCTTTCGACAGTTTCCACACTGCATTAGACAAAGCACTTGGGAAACAAGGGAGCCAACCGAAGCAAGTAATCAAATTCTGA
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
HMA

Protein Analysis

284

Amino Acids

30.74

Weight (kDa)

8.8

Isoelectric Point (pI)

35.25

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
ADH_N PF08240 3 - 40 7.4e-06 Alcohol dehydrogenase GroES-like domain
ADH_zinc_N PF00107 107 - 233 2.4e-16 Zinc-binding dehydrogenase
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: OG0000276)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G05030 AT4G05030
fragaria_vesca FvH4_3g24080 FvH4_3g24080 FvH4_3g24100 FvH4_3g24100 FvH4_3g42050 FvH4_3g42060 FvH4_3g42070 FvH4_3g42071 FvH4_3g42080 FvH4_3g42090 FvH4_3g42100 FvH4_3g42110
malus_domestica MD03G1038100.v1.1 MD03G1038400.v1.1 MD03G1038600.v1.1 MD03G1038900.v1.1 MD03G1039000.v1.1 MD03G1039100.v1.1 MD03G1188500.v1.1 MD10G1233100.v1.1 MD10G1233300.v1.1 MD10G1341200.v1.1 MD11G1039200.v1.1 MD11G1039300.v1.1 MD11G1204400.v1.1 MD11G1204600.v1.1
prunus_persica Prupe.2G123900_v2.0.a1 Prupe.4G001900_v2.0.a1 Prupe.4G234700_v2.0.a1 Prupe.4G234800_v2.0.a1 Prupe.6G025900_v2.0.a1 Prupe.6G030200_v2.0.a1 Prupe.6G030300_v2.0.a1 Prupe.6G030400_v2.0.a1 Prupe.6G030600_v2.0.a1 Prupe.6G030900_v2.0.a1 Prupe.6G031000_v2.0.a1 Prupe.6G031100_v2.0.a1 Prupe.6G031100_v2.0.a1
pyrus_communis pycom03g02940 pycom03g02950 pycom03g02980 pycom03g02990 pycom03g03010 pycom11g03310 pycom11g03320
rosa_chinensis RchiOBHm_Chr3g0484311 RchiOBHm_Chr5g0000231 RchiOBHm_Chr5g0042661 RchiOBHm_Chr5g0042671 RchiOBHm_Chr5g0075281 RchiOBHm_Chr5g0075291 RchiOBHm_Chr5g0075321 RchiOBHm_Chr5g0075331
rosa_laevigata RLG00000034149 RLG00000036545 RLG00000036546 RLG00000036547 RLG00000036548 RLG00000036549 RLG00000036550
rosa_multiflora Rmu_sc0000295.1_g000011 Rmu_sc0000770.1_g000041 Rmu_sc0000770.1_g000049 Rmu_sc0002564.1_g000002 Rmu_sc0002564.1_g000003 Rmu_sc0002564.1_g000016
rosa_roxburghii Rroxscaffold_1G00006200 Rroxscaffold_1G00006210 Rroxscaffold_1G00006220 Rroxscaffold_1G00006250 Rroxscaffold_1G00006270 Rroxscaffold_1G00037900 Rroxscaffold_1G00037980 Rroxscaffold_6G00397790
rosa_rugosa Rorug03G0210600 Rorug05G0203800 Rorug05G0203900 Rorug05G0438100 Rorug05G0438200 Rorug05G0438700 Rorug05G0438900 Rorug05G0438900
rosa_samantha Rh3AG259700 Rh3AG259800 Rh3BG296300 Rh3DG289900 Rh5AG001600 Rh5AG288900 Rh5AG289000 Rh5AG289200 Rh5AG494800 Rh5AG495000 Rh5AG495200 Rh5AG495300 Rh5BG293000 Rh5BG293100 Rh5BG293300 Rh5BG516400 Rh5BG516500 Rh5BG516900 Rh5BG517000 Rh5CG001900 Rh5CG325700 Rh5CG325900 Rh5CG326000 Rh5CG540200 Rh5CG540300 Rh5CG540500 Rh5CG540600 Rh5DG001900 Rh5DG302900 Rh5DG303000 Rh5DG303200 Rh5DG529100 Rh5DG529300 Rh5DG529400 Rh5DG532500
rosa_wichuraiana Rw3G023420 Rw3G023430 Rw5G000210 Rw5G026800 Rw5G045910 Rw5G045920 Rw5G045930 Rw5G045940 Rw5G045950

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 377
Acc36I ACCTGC 1 cut(s) 511
AccB1I GGYRCC 1 cut(s) 772
AccB7I CCANNNNNTGG 1 cut(s) 41
AccI GTMKAC 1 cut(s) 12
AciI CCGC 3 cut(s) 38, 86, 570
AclWI GGATC 1 cut(s) 651
AcsI RAATTY 2 cut(s) 554, 848
AfaI GTAC 2 cut(s) 69, 685
AfiI CCNNNNNNNGG 5 cut(s) 41, 137, 144, 509, 739
AgsI TTSAA 2 cut(s) 260, 299
AjnI CCWGG 1 cut(s) 103
AleI CACNNNNGTG 1 cut(s) 578
AluBI AGCT 3 cut(s) 340, 415, 769
AluI AGCT 3 cut(s) 340, 415, 769
Alw26I GTCTC 1 cut(s) 375
AlwI GGATC 1 cut(s) 651
AoxI GGCC 2 cut(s) 23, 478
ApeKI GCWGC 3 cut(s) 215, 536, 695
ApoI RAATTY 2 cut(s) 554, 848
ArsI GACNNNNNNTTYG 2 cut(s) 447, 479
AseI ATTAAT 1 cut(s) 189
AspS9I GGNCC 1 cut(s) 478
AsuC2I CCSGG 1 cut(s) 139
AsuHPI GGTGA 4 cut(s) 192, 259, 592, 713
BanI GGYRCC 1 cut(s) 772
BbsI GAAGAC 1 cut(s) 267
BbvI GCAGC 3 cut(s) 202, 523, 707
BccI CCATC 2 cut(s) 130, 757
BciT130I CCWGG 1 cut(s) 105
BcnI CCSGG 1 cut(s) 139
BcoDI GTCTC 1 cut(s) 375
BfaI CTAG 1 cut(s) 734
BfuAI ACCTGC 1 cut(s) 511
BisI GCNGC 4 cut(s) 216, 537, 571, 696
BlsI GCNGC 4 cut(s) 217, 538, 572, 697
Bme1390I CCNGG 2 cut(s) 105, 139
BmgT120I GGNCC 1 cut(s) 478
BmiI GGNNCC 3 cut(s) 307, 774, 827
BmrFI CCNGG 2 cut(s) 105, 139
BmsI GCATC 2 cut(s) 277, 324
BpiI GAAGAC 1 cut(s) 267
BplI GAGNNNNNCTC 2 cut(s) 56, 88
BpmI CTGGAG 1 cut(s) 126
BpuEI CTTGAG 1 cut(s) 673
BpuMI CCSGG 1 cut(s) 139
BsaJI CCNNGG 2 cut(s) 204, 543
BsaXI ACNNNNNCTCC 4 cut(s) 99, 129, 276, 306
Bsc4I CCNNNNNNNGG 5 cut(s) 41, 137, 144, 509, 739
Bse3DI GCAATG 1 cut(s) 538
BseBI CCWGG 1 cut(s) 105
BseDI CCNNGG 2 cut(s) 204, 543
BseGI GGATG 4 cut(s) 117, 147, 475, 684
BseLI CCNNNNNNNGG 5 cut(s) 41, 137, 144, 509, 739
BseMI GCAATG 1 cut(s) 538
BseMII CTCAG 2 cut(s) 408, 438
BseXI GCAGC 3 cut(s) 202, 523, 707
BsgI GTGCAG 1 cut(s) 724
BshFI GGCC 2 cut(s) 25, 480
BshNI GGYRCC 1 cut(s) 772
BsiSI CCGG 1 cut(s) 138
BslI CCNNNNNNNGG 5 cut(s) 41, 137, 144, 509, 739
BsmAI GTCTC 1 cut(s) 375
BsmI GAATGC 2 cut(s) 258, 357
BsnI GGCC 2 cut(s) 25, 480
Bsp143I GATC 3 cut(s) 166, 643, 718
BspACI CCGC 3 cut(s) 38, 86, 570
BspANI GGCC 2 cut(s) 25, 480
BspCNI CTCAG 2 cut(s) 407, 439
BspLI GGNNCC 3 cut(s) 307, 774, 827
BspMI ACCTGC 1 cut(s) 511
BspPI GGATC 1 cut(s) 651
BspT107I GGYRCC 1 cut(s) 772
BsrDI GCAATG 1 cut(s) 538
BssECI CCNNGG 2 cut(s) 204, 543
BssMI GATC 3 cut(s) 166, 643, 718
BssNAI GTATAC 1 cut(s) 13
BssT1I CCWWGG 2 cut(s) 204, 543
Bst1107I GTATAC 1 cut(s) 13
Bst2UI CCWGG 1 cut(s) 105
Bst4CI ACNGT 3 cut(s) 229, 616, 785
BstC8I GCNNGC 3 cut(s) 36, 342, 391
BstDEI CTNAG 4 cut(s) 248, 394, 447, 600
BstF5I GGATG 4 cut(s) 117, 147, 475, 684
BstKTI GATC 3 cut(s) 169, 646, 721
BstMAI GTCTC 1 cut(s) 375
BstMBI GATC 3 cut(s) 166, 643, 718
BstMWI GCNNNNNNNGC 2 cut(s) 31, 528
BstNI CCWGG 1 cut(s) 105
BstNSI RCATGY 1 cut(s) 598
BstSCI CCNGG 2 cut(s) 103, 137
BstV1I GCAGC 3 cut(s) 202, 523, 707
BstV2I GAAGAC 1 cut(s) 267
BstX2I RGATCY 1 cut(s) 643
BstXI CCANNNNNNTGG 1 cut(s) 319
BstYI RGATCY 1 cut(s) 643
BstZ17I GTATAC 1 cut(s) 13
BsuRI GGCC 2 cut(s) 25, 480
BtsCI GGATG 4 cut(s) 117, 147, 475, 684
BtsI GCAGTG 2 cut(s) 332, 792
BtsIMutI CAGTG 2 cut(s) 332, 792
BveI ACCTGC 1 cut(s) 511
Cac8I GCNNGC 3 cut(s) 36, 342, 391
Cfr13I GGNCC 1 cut(s) 478
CseI GACGC 1 cut(s) 511
Csp6I GTAC 2 cut(s) 68, 684
CviAII CATG 1 cut(s) 595
CviQI GTAC 2 cut(s) 68, 684
DdeI CTNAG 4 cut(s) 248, 394, 447, 600
DpnI GATC 3 cut(s) 168, 645, 720
DpnII GATC 3 cut(s) 166, 643, 718
DraI TTTAAA 1 cut(s) 276
Eco130I CCWWGG 2 cut(s) 204, 543
EcoO109I RGGNCCY 1 cut(s) 478
EcoRII CCWGG 1 cut(s) 103
EcoT14I CCWWGG 2 cut(s) 204, 543
ErhI CCWWGG 2 cut(s) 204, 543
FaeI CATG 1 cut(s) 598
FatI CATG 1 cut(s) 594
FblI GTMKAC 1 cut(s) 12
Fnu4HI GCNGC 4 cut(s) 216, 537, 571, 696
FokI GGATG 4 cut(s) 104, 154, 482, 691
Fsp4HI GCNGC 4 cut(s) 216, 537, 571, 696
FspBI CTAG 1 cut(s) 734
GluI GCNGC 4 cut(s) 216, 537, 571, 696
GsuI CTGGAG 1 cut(s) 126
HaeIII GGCC 2 cut(s) 25, 480
HapII CCGG 1 cut(s) 138
HgaI GACGC 1 cut(s) 511
Hin1II CATG 1 cut(s) 598
HindIII AAGCTT 1 cut(s) 413
HinfI GANTC 3 cut(s) 197, 349, 660
HpaII CCGG 1 cut(s) 138
HphI GGTGA 4 cut(s) 192, 259, 592, 713
Hpy166II GTNNAC 2 cut(s) 13, 70
Hpy188I TCNGA 4 cut(s) 397, 527, 714, 854
Hpy188III TCNNGA 1 cut(s) 282
Hpy8I GTNNAC 2 cut(s) 13, 70
Hpy99I CGWCG 1 cut(s) 527
HpyAV CCTTC 5 cut(s) 47, 141, 491, 685, 737
HpyCH4III ACNGT 3 cut(s) 229, 616, 785
HpyCH4V TGCA 7 cut(s) 330, 344, 460, 506, 670, 705, 797
HpyF10VI GCNNNNNNNGC 2 cut(s) 31, 528
HpyF3I CTNAG 4 cut(s) 248, 394, 447, 600
Hsp92II CATG 1 cut(s) 598
Kzo9I GATC 3 cut(s) 166, 643, 718
LmnI GCTCC 3 cut(s) 305, 766, 825
Lsp1109I GCAGC 3 cut(s) 202, 523, 707
LweI GCATC 2 cut(s) 277, 324
MaeI CTAG 1 cut(s) 734
MaeIII GTNAC 1 cut(s) 580
MalI GATC 3 cut(s) 168, 645, 720
MboI GATC 3 cut(s) 166, 643, 718
MboII GAAGA 2 cut(s) 126, 272
MflI RGATCY 1 cut(s) 643
MluCI AATT 4 cut(s) 554, 609, 749, 848
MmeI TCCRAC 3 cut(s) 22, 505, 656
MnlI CCTC 6 cut(s) 15, 38, 58, 521, 648, 734
MseI TTAA 9 cut(s) 90, 189, 275, 369, 417, 516, 552, 639, 752
MslI CAYNNNNRTG 1 cut(s) 578
MspA1I CMGCKG 1 cut(s) 38
MspI CCGG 1 cut(s) 138
MspR9I CCNGG 2 cut(s) 105, 139
Mva1269I GAATGC 2 cut(s) 258, 357
MvaI CCWGG 1 cut(s) 105
MwoI GCNNNNNNNGC 2 cut(s) 31, 528
NciI CCSGG 1 cut(s) 139
NdeII GATC 3 cut(s) 166, 643, 718
NlaIII CATG 1 cut(s) 598
NlaIV GGNNCC 3 cut(s) 307, 774, 827
NmuCI GTSAC 1 cut(s) 580
NspI RCATGY 1 cut(s) 598
OliI CACNNNNGTG 1 cut(s) 578
PctI GAATGC 2 cut(s) 258, 357
PfeI GAWTC 3 cut(s) 197, 349, 660
PflMI CCANNNNNTGG 1 cut(s) 41
PfoI TCCNGGA 1 cut(s) 137
PkrI GCNGC 4 cut(s) 217, 538, 572, 697
PshBI ATTAAT 1 cut(s) 189
PsiI TTATAA 1 cut(s) 377
Psp6I CCWGG 1 cut(s) 103
PspGI CCWGG 1 cut(s) 103
PspN4I GGNNCC 3 cut(s) 307, 774, 827
PspPI GGNCC 1 cut(s) 478
PsuI RGATCY 1 cut(s) 643
RsaI GTAC 2 cut(s) 69, 685
RsaNI GTAC 2 cut(s) 68, 684
RseI CAYNNNNRTG 1 cut(s) 578
SaqAI TTAA 9 cut(s) 90, 189, 275, 369, 417, 516, 552, 639, 752
SatI GCNGC 4 cut(s) 216, 537, 571, 696
Sau3AI GATC 3 cut(s) 166, 643, 718
Sau96I GGNCC 1 cut(s) 478
ScrFI CCNGG 2 cut(s) 105, 139
SfaNI GCATC 2 cut(s) 277, 324
SmiMI CAYNNNNRTG 1 cut(s) 578
SmlI CTYRAG 1 cut(s) 652
SmoI CTYRAG 1 cut(s) 652
Sse9I AATT 4 cut(s) 554, 609, 749, 848
SsiI CCGC 3 cut(s) 38, 86, 570
SspI AATATT 1 cut(s) 373
SspMI CTAG 1 cut(s) 734
StyD4I CCNGG 2 cut(s) 103, 137
StyI CCWWGG 2 cut(s) 204, 543
TaaI ACNGT 3 cut(s) 229, 616, 785
TaqI TCGA 1 cut(s) 780
TasI AATT 4 cut(s) 554, 609, 749, 848
TatI WGTACW 1 cut(s) 683
TauI GCSGC 1 cut(s) 573
TfiI GAWTC 3 cut(s) 197, 349, 660
Tru1I TTAA 9 cut(s) 90, 189, 275, 369, 417, 516, 552, 639, 752
Tru9I TTAA 9 cut(s) 90, 189, 275, 369, 417, 516, 552, 639, 752
TscAI CASTG 2 cut(s) 332, 799
TseFI GTSAC 1 cut(s) 580
TseI GCWGC 3 cut(s) 215, 536, 695
Tsp45I GTSAC 1 cut(s) 580
TspDTI ATGAA 7 cut(s) 17, 66, 350, 414, 450, 615, 622
TspRI CASTG 2 cut(s) 332, 799
Van91I CCANNNNNTGG 1 cut(s) 41
VspI ATTAAT 1 cut(s) 189
XapI RAATTY 2 cut(s) 554, 848
XceI RCATGY 1 cut(s) 598
XcmI CCANNNNNNNNNTGG 1 cut(s) 316
XmiI GTMKAC 1 cut(s) 12
XspI CTAG 1 cut(s) 734
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.