Rw2G018520

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr2
OG0000224
Physical Location & Seq
Reverse (-)
24030109 .. 24032566
2458 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw2G018520.1

Sequence Viewer

Length: 831 bp
ATGAATGCACACATTCAGTGCCAAACTACTAACCAGCCATCAATAAATGCTACAACTGAAGGGTTGAATGATGCTAGGACATCAGTCAATATCCAAGGATCTACTACAGGTACTCATTGTGTTGCTTTGTTGTATTTAAAATTTATTAATTATACATGTACTTCACTAATTAAATTTTTAACAGAAGGTCCAGAAAAAAAAGTGCGTGGAAAGACAAGAGGTTTAAATGCTGATAAGGTGCATGAGCAGCTTGGTACTAAAATACCTGTGACTTTCAAGAAAGAAAATGGCAGACCCACAGGTCCATATGCAGAAATGTTTGCTAATGAAATTGGATTCACCATTCGGAACCATGCACCTCTAAATGTGAAAAAATGGAAGGAAGTAAAACCAGAAGATAGGACAAGTTTGATCAAAAGAATAACTACTAAGTACAACATTGACATGTCTCTACCTTGGGTTAAGAGATATGTGAATAAATCTTTTGGAACAGTGTTTGCTAACTTCCGTTATAAGCTGAAGAAGCATTTTGAGCAATTCTCAACAAAAGAGGAAGCATTAGAAAATAAACACAAAGATGTTAAAACTGAAGAAGAATGGGCTTTTCTGTGCACTTATTTTTCTAGTGAAGATTTTCAGATTGTTTCAGAGAAAAATTCTATTAATAGGTCACATTTGAAATATCATCATAAAGCAGGGTCGAAGTCTTTTATGTCGCATCAAGAACAGATTATACATTTTATGAAGAAACAAAATTTCCTCTTCCAACGTCGATGGAAAACATATTCCTCGTTGTTAAGTATCTTTAACGAGAAAACTTTTTCTCGCTGA
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
DUF4216 DUF4218 Transpos_assoc Transposase_21 Transposase_24

Protein Analysis

276

Amino Acids

32.21

Weight (kDa)

9.74

Isoelectric Point (pI)

39.93

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transposase_24 PF03004 198 - 243 1.6e-06 Plant transposase (Ptta/En/Spm family)
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: OG0000224)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g08145 FvH4_4g05492 FvH4_4g15892
pyrus_communis pycom07g09690 pycom16g18380
rosa_chinensis RchiOBHm_Chr0c17g0499961 RchiOBHm_Chr1g0345631 RchiOBHm_Chr1g0345641 RchiOBHm_Chr1g0381191 RchiOBHm_Chr2g0102381 RchiOBHm_Chr2g0106131 RchiOBHm_Chr2g0148461 RchiOBHm_Chr2g0148471 RchiOBHm_Chr2g0157121 RchiOBHm_Chr3g0476041 RchiOBHm_Chr3g0476051 RchiOBHm_Chr3g0486961 RchiOBHm_Chr3g0487551 RchiOBHm_Chr4g0385011 RchiOBHm_Chr4g0410891 RchiOBHm_Chr4g0415291 RchiOBHm_Chr4g0427801 RchiOBHm_Chr4g0427811 RchiOBHm_Chr5g0001961 RchiOBHm_Chr5g0009841 RchiOBHm_Chr5g0025231 RchiOBHm_Chr6g0272461 RchiOBHm_Chr7g0199391 RchiOBHm_Chr7g0214031
rosa_laevigata RLG00000000706 RLG00000000749 RLG00000000750 RLG00000001166 RLG00000001748 RLG00000008952 RLG00000009088 RLG00000009090 RLG00000009094 RLG00000015391 RLG00000016519 RLG00000016520 RLG00000017174 RLG00000018887 RLG00000023058 RLG00000023059 RLG00000028282 RLG00000028531 RLG00000030444 RLG00000034592 RLG00000036555
rosa_multiflora Rmu_sc0000045.1_g000015 Rmu_sc0000157.1_g000011 Rmu_sc0000493.1_g000080 Rmu_sc0001307.1_g000027 Rmu_sc0001470.1_g000010 Rmu_sc0002277.1_g000022 Rmu_sc0002365.1_g000027 Rmu_sc0002693.1_g000008 Rmu_sc0002833.1_g000051 Rmu_sc0003275.1_g000066 Rmu_sc0003286.1_g000008 Rmu_sc0004234.1_g000035 Rmu_sc0004546.1_g000001 Rmu_sc0005058.1_g000004 Rmu_sc0007025.1_g000015 Rmu_sc0008144.1_g000006 Rmu_sc0008688.1_g000001 Rmu_sc0009185.1_g000010 Rmu_sc0020638.1_g000001
rosa_roxburghii Rroxscaffold_158G00443750 Rroxscaffold_1G00001770 Rroxscaffold_1G00002620 Rroxscaffold_1G00024490 Rroxscaffold_1G00035180 Rroxscaffold_1G00035190 Rroxscaffold_1G00061370 Rroxscaffold_1G00075590 Rroxscaffold_2G00110960 Rroxscaffold_2G00121340 Rroxscaffold_2G00128850 Rroxscaffold_2G00142580 Rroxscaffold_2G00142590 Rroxscaffold_3G00223630 Rroxscaffold_3G00263220 Rroxscaffold_4G00310820 Rroxscaffold_5G00336270 Rroxscaffold_5G00336280 Rroxscaffold_5G00336320 Rroxscaffold_5G00349820 Rroxscaffold_6G00395720 Rroxscaffold_6G00395910 Rroxscaffold_6G00415660 Rroxscaffold_7G00179770 Rroxscaffold_7G00184390 Rroxscaffold_7G00189270 Rroxscaffold_7G00197240 Rroxscaffold_8G00436850 Rroxscaffold_8G00436860 Rroxscaffold_8G00436880
rosa_rugosa Rorug01G0118400 Rorug02G0048900 Rorug02G0185600 Rorug02G0222600 Rorug03G0152800 Rorug04G0047600 Rorug04G0446400 Rorug05G0118900 Rorug05G0359700 Rorug05G0374800 Rorug05G0374900 Rorug05G0375000 Rorug05G0375100 Rorug05G0418900 Rorug05G0540000 Rorug05G0540000 Rorug05G0540100 Rorug06G0358700 Rorug06G0358700 Rorug06G0408700 Rorug06G0408700 Rorug06G0408800 Rorug06G0408900 Rorug07G0203000
rosa_samantha Rh1CG190700 Rh1CG196300 Rh2BG566600 Rh2CG188900 Rh3AG090900 Rh3AG278200 Rh3BG233900 Rh3CG094300 Rh4BG202100 Rh5BG543100 Rh5CG566000 Rh5DG397500 Rh7CG432800
rosa_wichuraiana Rw0G017850 Rw1G010340 Rw1G016290 Rw2G018520 Rw3G008970 Rw5G028090 Rw5G043930 Rw6G014660 Rw6G030340 Rw7G038240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 513
AasI GACNNNNNNGTC 1 cut(s) 300
AclWI GGATC 1 cut(s) 106
AcsI RAATTY 4 cut(s) 140, 173, 655, 754
AcuI CTGAAG 3 cut(s) 78, 539, 609
AfaI GTAC 4 cut(s) 112, 160, 256, 434
AflIII ACRYGT 2 cut(s) 155, 444
AgsI TTSAA 3 cut(s) 67, 277, 679
AluBI AGCT 2 cut(s) 250, 517
AluI AGCT 2 cut(s) 250, 517
Alw21I GWGCWC 1 cut(s) 614
Alw26I GTCTC 1 cut(s) 453
Alw44I GTGCAC 1 cut(s) 610
AlwI GGATC 1 cut(s) 106
ApaLI GTGCAC 1 cut(s) 610
ApeKI GCWGC 1 cut(s) 247
ApoI RAATTY 4 cut(s) 140, 173, 655, 754
AseI ATTAAT 2 cut(s) 147, 663
Asp700I GAANNNNTTC 1 cut(s) 633
AspS9I GGNCC 2 cut(s) 188, 302
AsuHPI GGTGA 1 cut(s) 331
AvaII GGWCC 2 cut(s) 188, 302
BaeGI GKGCMC 1 cut(s) 614
Bbv12I GWGCWC 1 cut(s) 614
BbvI GCAGC 1 cut(s) 259
BccI CCATC 2 cut(s) 46, 768
BclI TGATCA 1 cut(s) 411
BcoDI GTCTC 1 cut(s) 453
BfaI CTAG 2 cut(s) 75, 624
BfmI CTRYAG 1 cut(s) 105
BisI GCNGC 1 cut(s) 248
BlsI GCNGC 1 cut(s) 249
Bme18I GGWCC 2 cut(s) 188, 302
BmgT120I GGNCC 2 cut(s) 188, 302
BmiI GGNNCC 1 cut(s) 350
BmsI GCATC 2 cut(s) 61, 727
BoxI GACNNNNGTC 1 cut(s) 83
BplI GAGNNNNNCTC 2 cut(s) 524, 556
BsaJI CCNNGG 2 cut(s) 94, 455
BseDI CCNNGG 2 cut(s) 94, 455
BseSI GKGCMC 1 cut(s) 614
BseXI GCAGC 1 cut(s) 259
BsiHKAI GWGCWC 1 cut(s) 614
BsmAI GTCTC 1 cut(s) 453
BsmI GAATGC 1 cut(s) 10
Bsp1286I GDGCHC 1 cut(s) 614
Bsp143I GATC 2 cut(s) 98, 411
BspLI GGNNCC 1 cut(s) 350
BspPI GGATC 1 cut(s) 106
BssECI CCNNGG 2 cut(s) 94, 455
BssMI GATC 2 cut(s) 98, 411
BssT1I CCWWGG 2 cut(s) 94, 455
Bst4CI ACNGT 1 cut(s) 493
Bst6I CTCTTC 1 cut(s) 767
BstDEI CTNAG 1 cut(s) 429
BstKTI GATC 2 cut(s) 101, 414
BstMAI GTCTC 1 cut(s) 453
BstMBI GATC 2 cut(s) 98, 411
BstMWI GCNNNNNNNGC 3 cut(s) 247, 523, 532
BstNSI RCATGY 2 cut(s) 159, 448
BstPAI GACNNNNGTC 1 cut(s) 83
BstSFI CTRYAG 1 cut(s) 105
BstSLI GKGCMC 1 cut(s) 614
BstV1I GCAGC 1 cut(s) 259
BstX2I RGATCY 1 cut(s) 98
BstYI RGATCY 1 cut(s) 98
BtsIMutI CAGTG 2 cut(s) 23, 498
Cfr13I GGNCC 2 cut(s) 188, 302
Csp6I GTAC 4 cut(s) 111, 159, 255, 433
CviAII CATG 4 cut(s) 156, 242, 353, 445
CviJI RGCY 4 cut(s) 37, 250, 517, 602
CviKI_1 RGCY 4 cut(s) 37, 250, 517, 602
CviQI GTAC 4 cut(s) 111, 159, 255, 433
DdeI CTNAG 1 cut(s) 429
DpnI GATC 2 cut(s) 100, 413
DpnII GATC 2 cut(s) 98, 411
DraI TTTAAA 2 cut(s) 138, 225
DrdI GACNNNNNNGTC 1 cut(s) 300
DseDI GACNNNNNNGTC 1 cut(s) 300
Eam1104I CTCTTC 1 cut(s) 767
EarI CTCTTC 1 cut(s) 767
Eco130I CCWWGG 2 cut(s) 94, 455
Eco47I GGWCC 2 cut(s) 188, 302
Eco57I CTGAAG 3 cut(s) 78, 539, 609
EcoT14I CCWWGG 2 cut(s) 94, 455
ErhI CCWWGG 2 cut(s) 94, 455
FaeI CATG 4 cut(s) 159, 245, 356, 448
FatI CATG 4 cut(s) 155, 241, 352, 444
FauNDI CATATG 1 cut(s) 307
FbaI TGATCA 1 cut(s) 411
Fnu4HI GCNGC 1 cut(s) 248
Fsp4HI GCNGC 1 cut(s) 248
FspBI CTAG 2 cut(s) 75, 624
GluI GCNGC 1 cut(s) 248
Hin1II CATG 4 cut(s) 159, 245, 356, 448
HinfI GANTC 1 cut(s) 336
HphI GGTGA 1 cut(s) 331
Hpy166II GTNNAC 1 cut(s) 612
Hpy188I TCNGA 3 cut(s) 348, 639, 649
Hpy188III TCNNGA 3 cut(s) 191, 277, 722
Hpy8I GTNNAC 1 cut(s) 612
Hpy99I CGWCG 1 cut(s) 774
HpyAV CCTTC 3 cut(s) 53, 179, 373
HpyCH4III ACNGT 1 cut(s) 493
HpyCH4IV ACGT 1 cut(s) 769
HpyCH4V TGCA 5 cut(s) 8, 241, 311, 356, 612
HpyF10VI GCNNNNNNNGC 3 cut(s) 247, 523, 532
HpyF3I CTNAG 1 cut(s) 429
HpySE526I ACGT 1 cut(s) 769
Hsp92II CATG 4 cut(s) 159, 245, 356, 448
Ksp22I TGATCA 1 cut(s) 411
Kzo9I GATC 2 cut(s) 98, 411
LpnPI CCDG 7 cut(s) 47, 93, 204, 279, 285, 405, 681
Lsp1109I GCAGC 1 cut(s) 259
LweI GCATC 2 cut(s) 61, 727
MaeI CTAG 2 cut(s) 75, 624
MaeII ACGT 1 cut(s) 769
MaeIII GTNAC 2 cut(s) 268, 669
MalI GATC 2 cut(s) 100, 413
MboI GATC 2 cut(s) 98, 411
MboII GAAGA 7 cut(s) 407, 532, 602, 605, 641, 754, 757
MflI RGATCY 1 cut(s) 98
MhlI GDGCHC 1 cut(s) 614
MluCI AATT 8 cut(s) 140, 148, 168, 173, 330, 536, 655, 754
MmeI TCCRAC 1 cut(s) 790
MnlI CCTC 5 cut(s) 212, 369, 544, 770, 799
MroXI GAANNNNTTC 1 cut(s) 633
MslI CAYNNNNRTG 2 cut(s) 443, 576
Mva1269I GAATGC 1 cut(s) 10
MwoI GCNNNNNNNGC 3 cut(s) 247, 523, 532
NdeI CATATG 1 cut(s) 307
NdeII GATC 2 cut(s) 98, 411
NlaIII CATG 4 cut(s) 159, 245, 356, 448
NlaIV GGNNCC 1 cut(s) 350
NmuCI GTSAC 2 cut(s) 268, 669
NspI RCATGY 2 cut(s) 159, 448
PciI ACATGT 2 cut(s) 155, 444
PctI GAATGC 1 cut(s) 10
PdmI GAANNNNTTC 1 cut(s) 633
PfeI GAWTC 1 cut(s) 336
PkrI GCNGC 1 cut(s) 249
PscI ACATGT 2 cut(s) 155, 444
PshAI GACNNNNGTC 1 cut(s) 83
PshBI ATTAAT 2 cut(s) 147, 663
PsiI TTATAA 1 cut(s) 513
PspN4I GGNNCC 1 cut(s) 350
PspPI GGNCC 2 cut(s) 188, 302
PsrI GAACNNNNNNTAC 2 cut(s) 717, 749
PsuI RGATCY 1 cut(s) 98
RsaI GTAC 4 cut(s) 112, 160, 256, 434
RsaNI GTAC 4 cut(s) 111, 159, 255, 433
RseI CAYNNNNRTG 2 cut(s) 443, 576
SatI GCNGC 1 cut(s) 248
Sau3AI GATC 2 cut(s) 98, 411
Sau96I GGNCC 2 cut(s) 188, 302
SduI GDGCHC 1 cut(s) 614
SfaNI GCATC 2 cut(s) 61, 727
SfcI CTRYAG 1 cut(s) 105
SinI GGWCC 2 cut(s) 188, 302
SmiMI CAYNNNNRTG 2 cut(s) 443, 576
Sse9I AATT 8 cut(s) 140, 148, 168, 173, 330, 536, 655, 754
SspMI CTAG 2 cut(s) 75, 624
StyI CCWWGG 2 cut(s) 94, 455
TaaI ACNGT 1 cut(s) 493
TaiI ACGT 1 cut(s) 772
TaqI TCGA 2 cut(s) 701, 772
TasI AATT 8 cut(s) 140, 148, 168, 173, 330, 536, 655, 754
TatI WGTACW 2 cut(s) 158, 432
TfiI GAWTC 1 cut(s) 336
TscAI CASTG 2 cut(s) 23, 498
TseFI GTSAC 2 cut(s) 268, 669
TseI GCWGC 1 cut(s) 247
Tsp45I GTSAC 2 cut(s) 268, 669
TspDTI ATGAA 3 cut(s) 17, 342, 758
TspGWI ACGGA 1 cut(s) 497
TspRI CASTG 2 cut(s) 23, 498
VneI GTGCAC 1 cut(s) 610
VpaK11BI GGWCC 2 cut(s) 188, 302
VspI ATTAAT 2 cut(s) 147, 663
XapI RAATTY 4 cut(s) 140, 173, 655, 754
XceI RCATGY 2 cut(s) 159, 448
XmnI GAANNNNTTC 1 cut(s) 633
XspI CTAG 2 cut(s) 75, 624
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.