RLG00000023059

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr5
OG0000224
Physical Location & Seq
Reverse (-)
17501663 .. 17502748
1086 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000023059

Sequence Viewer

Length: 747 bp
ATGTGTCTTCAAACTTTTAAGAAGCGGTTGACTATTGCTACAACTGACGAGCTAAGTGATATTGTAATGTCAGCGAATATTCAAAGGCCTACTTTAGATGTAGAAAGAGAAGAGCGGCGAAAGACAAGACAACTGCATTCTAAGAAGCTACGTTCCCAATTTAATCGTAGAATACCCATCACTTTGATACAACATAATGGAAGACCCACAGGTCCATATGCAGAACTATTTGTGAATGATATCAGCTTAATAGTTAGGAACCTTGCTCCTCTGAATGTAGAAAAGTGGAACGACATTGGATCAACTGATGTGACTAAGATGATTGAAAGAATAACCAGCAAGTTCGACATTAATATGTCCCTCCCTTGGGTCGACTACTATGTAAACAAGATGTGTATGGCAGCATTTTTAAACTTCCGTTATGATCTAAAGAAGCATTTTGAGAAATTCCCAACAGTAGATGAAGCACGAGCAAATAAGCCTAAAAAAGTTAAGAATCAAGCAGAATGGGATTTTCTATGTACTCATTTTTCTACTGAAGAGTTACAGATCAATTCACAGAATGCTAGCAAGAAGTTACATTTGACATATCACCACAATGCTTGGTCGAAGTATTTCATATCCCATGAAAATGAGTTTGTTAGATTTGAAGAACTGAATGAGCATGCCAAAAGATTCGAGGAACTGAAGGAGGATGCCAAAAGAATTAAGGAATTGATGGCAAAATTTCTAGCTAATGACCATTAG
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

249

Amino Acids

29.51

Weight (kDa)

9.2

Isoelectric Point (pI)

49.14

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: 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)
AasI GACNNNNNNGTC 1 cut(s) 210
AccBSI CCGCTC 1 cut(s) 115
AccI GTMKAC 1 cut(s) 372
AciI CCGC 2 cut(s) 25, 115
AclWI GGATC 1 cut(s) 307
AcsI RAATTY 2 cut(s) 446, 725
AcuI CTGAAG 2 cut(s) 558, 707
AfaI GTAC 1 cut(s) 523
AfiI CCNNNNNNNGG 2 cut(s) 366, 367
AgsI TTSAA 4 cut(s) 11, 83, 326, 650
AluBI AGCT 4 cut(s) 52, 148, 246, 734
AluI AGCT 4 cut(s) 52, 148, 246, 734
AlwI GGATC 1 cut(s) 307
AoxI GGCC 1 cut(s) 86
ApeKI GCWGC 1 cut(s) 401
ApoI RAATTY 2 cut(s) 446, 725
AseI ATTAAT 1 cut(s) 351
Asp700I GAANNNNTTC 1 cut(s) 614
AspS9I GGNCC 1 cut(s) 212
AsuHPI GGTGA 1 cut(s) 584
AsuNHI GCTAGC 1 cut(s) 566
AvaII GGWCC 1 cut(s) 212
BauI CACGAG 1 cut(s) 468
BbsI GAAGAC 1 cut(s) 208
BbvI GCAGC 1 cut(s) 413
BccI CCATC 2 cut(s) 185, 712
BfaI CTAG 2 cut(s) 567, 731
BisI GCNGC 2 cut(s) 116, 402
BlsI GCNGC 2 cut(s) 117, 403
Bme18I GGWCC 1 cut(s) 212
BmgT120I GGNCC 1 cut(s) 212
BmiI GGNNCC 1 cut(s) 260
BmsI GCATC 1 cut(s) 685
BmtI GCTAGC 1 cut(s) 570
BpiI GAAGAC 1 cut(s) 208
BsaJI CCNNGG 1 cut(s) 365
Bsc4I CCNNNNNNNGG 2 cut(s) 366, 367
BseDI CCNNGG 1 cut(s) 365
BseGI GGATG 1 cut(s) 700
BseLI CCNNNNNNNGG 2 cut(s) 366, 367
BseRI GAGGAG 1 cut(s) 258
BseXI GCAGC 1 cut(s) 413
BshFI GGCC 1 cut(s) 88
BslFI GGGAC 1 cut(s) 343
BslI CCNNNNNNNGG 2 cut(s) 366, 367
BsmFI GGGAC 1 cut(s) 343
BsmI GAATGC 2 cut(s) 136, 568
BsnI GGCC 1 cut(s) 88
Bsp143I GATC 3 cut(s) 299, 424, 549
BspACI CCGC 2 cut(s) 25, 115
BspANI GGCC 1 cut(s) 88
BspLI GGNNCC 1 cut(s) 260
BspOI GCTAGC 1 cut(s) 570
BspPI GGATC 1 cut(s) 307
BspQI GCTCTTC 1 cut(s) 105
BsrBI CCGCTC 1 cut(s) 115
BssECI CCNNGG 1 cut(s) 365
BssMI GATC 3 cut(s) 299, 424, 549
BssSI CACGAG 1 cut(s) 468
BssT1I CCWWGG 1 cut(s) 365
Bst2BI CACGAG 1 cut(s) 468
Bst4CI ACNGT 1 cut(s) 457
Bst6I CTCTTC 2 cut(s) 105, 534
BstC8I GCNNGC 2 cut(s) 568, 666
BstDEI CTNAG 3 cut(s) 53, 141, 315
BstF5I GGATG 1 cut(s) 700
BstKTI GATC 3 cut(s) 302, 427, 552
BstMBI GATC 3 cut(s) 299, 424, 549
BstNSI RCATGY 1 cut(s) 668
BstV1I GCAGC 1 cut(s) 413
BstV2I GAAGAC 1 cut(s) 208
BsuRI GGCC 1 cut(s) 88
BtsCI GGATG 1 cut(s) 700
Cac8I GCNNGC 2 cut(s) 568, 666
Cfr13I GGNCC 1 cut(s) 212
Csp6I GTAC 1 cut(s) 522
CspCI CAANNNNNGTGG 2 cut(s) 584, 619
CviAII CATG 2 cut(s) 626, 665
CviJI RGCY 6 cut(s) 52, 88, 148, 246, 481, 734
CviKI_1 RGCY 6 cut(s) 52, 88, 148, 246, 481, 734
CviQI GTAC 1 cut(s) 522
DdeI CTNAG 3 cut(s) 53, 141, 315
DpnI GATC 3 cut(s) 301, 426, 551
DpnII GATC 3 cut(s) 299, 424, 549
DraI TTTAAA 1 cut(s) 411
DrdI GACNNNNNNGTC 1 cut(s) 210
DseDI GACNNNNNNGTC 1 cut(s) 210
Eam1104I CTCTTC 2 cut(s) 105, 534
EarI CTCTTC 2 cut(s) 105, 534
Eco130I CCWWGG 1 cut(s) 365
Eco147I AGGCCT 1 cut(s) 88
Eco32I GATATC 1 cut(s) 241
Eco47I GGWCC 1 cut(s) 212
Eco57I CTGAAG 2 cut(s) 558, 707
EcoRV GATATC 1 cut(s) 241
EcoT14I CCWWGG 1 cut(s) 365
ErhI CCWWGG 1 cut(s) 365
FaeI CATG 2 cut(s) 629, 668
FalI AAGNNNNNCTT 2 cut(s) 76, 108
FaqI GGGAC 1 cut(s) 343
FatI CATG 2 cut(s) 625, 664
FauNDI CATATG 1 cut(s) 217
FblI GTMKAC 1 cut(s) 372
Fnu4HI GCNGC 2 cut(s) 116, 402
FokI GGATG 1 cut(s) 707
Fsp4HI GCNGC 2 cut(s) 116, 402
FspBI CTAG 2 cut(s) 567, 731
GluI GCNGC 2 cut(s) 116, 402
HaeIII GGCC 1 cut(s) 88
Hin1II CATG 2 cut(s) 629, 668
HincII GTYRAC 2 cut(s) 30, 373
HindII GTYRAC 2 cut(s) 30, 373
HinfI GANTC 2 cut(s) 496, 675
HphI GGTGA 1 cut(s) 584
Hpy166II GTNNAC 3 cut(s) 30, 373, 385
Hpy188I TCNGA 1 cut(s) 273
Hpy8I GTNNAC 3 cut(s) 30, 373, 385
HpyAV CCTTC 1 cut(s) 682
HpyCH4III ACNGT 1 cut(s) 457
HpyCH4IV ACGT 1 cut(s) 151
HpyCH4V TGCA 2 cut(s) 136, 221
HpyF3I CTNAG 3 cut(s) 53, 141, 315
HpySE526I ACGT 1 cut(s) 151
Hsp92II CATG 2 cut(s) 629, 668
Kzo9I GATC 3 cut(s) 299, 424, 549
LguI GCTCTTC 1 cut(s) 105
LmnI GCTCC 1 cut(s) 271
LpnPI CCDG 2 cut(s) 195, 349
Lsp1109I GCAGC 1 cut(s) 413
LweI GCATC 1 cut(s) 685
MaeI CTAG 2 cut(s) 567, 731
MaeII ACGT 1 cut(s) 151
MaeIII GTNAC 3 cut(s) 310, 543, 576
MalI GATC 3 cut(s) 301, 426, 551
MbiI CCGCTC 1 cut(s) 115
MboI GATC 3 cut(s) 299, 424, 549
MboII GAAGA 4 cut(s) 122, 213, 551, 662
MluCI AATT 6 cut(s) 158, 446, 553, 705, 713, 725
MnlI CCTC 4 cut(s) 279, 371, 673, 685
MroXI GAANNNNTTC 1 cut(s) 614
MseI TTAA 7 cut(s) 18, 162, 248, 351, 410, 492, 708
MslI CAYNNNNRTG 3 cut(s) 353, 597, 630
Mva1269I GAATGC 2 cut(s) 136, 568
NdeI CATATG 1 cut(s) 217
NdeII GATC 3 cut(s) 299, 424, 549
NheI GCTAGC 1 cut(s) 566
NlaIII CATG 2 cut(s) 629, 668
NlaIV GGNNCC 1 cut(s) 260
NmuCI GTSAC 1 cut(s) 310
NspI RCATGY 1 cut(s) 668
PaeI GCATGC 1 cut(s) 668
PceI AGGCCT 1 cut(s) 88
PciSI GCTCTTC 1 cut(s) 105
PctI GAATGC 2 cut(s) 136, 568
PdmI GAANNNNTTC 1 cut(s) 614
PfeI GAWTC 2 cut(s) 496, 675
PkrI GCNGC 2 cut(s) 117, 403
PshBI ATTAAT 1 cut(s) 351
PspN4I GGNNCC 1 cut(s) 260
PspPI GGNCC 1 cut(s) 212
RsaI GTAC 1 cut(s) 523
RsaNI GTAC 1 cut(s) 522
RseI CAYNNNNRTG 3 cut(s) 353, 597, 630
SalI GTCGAC 1 cut(s) 371
SapI GCTCTTC 1 cut(s) 105
SaqAI TTAA 7 cut(s) 18, 162, 248, 351, 410, 492, 708
SatI GCNGC 2 cut(s) 116, 402
Sau3AI GATC 3 cut(s) 299, 424, 549
Sau96I GGNCC 1 cut(s) 212
SetI ASST 7 cut(s) 54, 150, 154, 214, 248, 264, 736
SfaNI GCATC 1 cut(s) 685
SinI GGWCC 1 cut(s) 212
SmiMI CAYNNNNRTG 3 cut(s) 353, 597, 630
SphI GCATGC 1 cut(s) 668
Sse9I AATT 6 cut(s) 158, 446, 553, 705, 713, 725
SseBI AGGCCT 1 cut(s) 88
SsiI CCGC 2 cut(s) 25, 115
SspI AATATT 1 cut(s) 79
SspMI CTAG 2 cut(s) 567, 731
StuI AGGCCT 1 cut(s) 88
StyI CCWWGG 1 cut(s) 365
TaaI ACNGT 1 cut(s) 457
TaiI ACGT 1 cut(s) 154
TaqI TCGA 4 cut(s) 345, 372, 608, 678
TasI AATT 6 cut(s) 158, 446, 553, 705, 713, 725
TatI WGTACW 1 cut(s) 521
TauI GCSGC 1 cut(s) 118
TfiI GAWTC 2 cut(s) 496, 675
Tru1I TTAA 7 cut(s) 18, 162, 248, 351, 410, 492, 708
Tru9I TTAA 7 cut(s) 18, 162, 248, 351, 410, 492, 708
TseFI GTSAC 1 cut(s) 310
TseI GCWGC 1 cut(s) 401
Tsp45I GTSAC 1 cut(s) 310
TspDTI ATGAA 3 cut(s) 477, 607, 642
TspGWI ACGGA 1 cut(s) 407
VpaK11BI GGWCC 1 cut(s) 212
VspI ATTAAT 1 cut(s) 351
XapI RAATTY 2 cut(s) 446, 725
XceI RCATGY 1 cut(s) 668
XmiI GTMKAC 1 cut(s) 372
XmnI GAANNNNTTC 1 cut(s) 614
XspI CTAG 2 cut(s) 567, 731
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.