RLG00000017174

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr4
OG0000224
Physical Location & Seq
Forward (+)
13738558 .. 13740745
2188 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000017174

Sequence Viewer

Length: 894 bp
ATGTCGAAACGTCTTCGTTCGAACGTTTCCGGTGCCCAAAAGGCTAATATTGGTGTCACTTTGACAAAACGGCGACGTGTACAAGCAAATGAACCTTCACTTCCAAATTCTTTGCAAGATGAACTTGATGTTCCTGATATGCCTACCTCTAATAGAACTACCCAAAGGGCTATTGCTAGTACCATTATCCAAAGGCCTATTGTTGGTGACTCAATGAATGCACACGTTCAGTGCCAAACTACTAACCAGCCATCAATAAATGCTACAACTGAAGGGTTGAATGATGCTAGAACATCAGTCGATATCCAAGGATCTACTACAGGTCCAGAAAAAAAAGTGCGTGGAAAGACAAGAGGTTTAAATGCTGATAAGGTGCATGAGCAGCTTGGTACTAAAATACCTGTGACTTTCAAGAAAGAAAATGGTAGACCCACAGGTCCATATGCAGAAATGTTTGCTAATGAAATTGGATTCACCATACGGAACCATGCACCTCTAAATGTGAAAAAATGGAAGGAAGTAAAACCAGAAGATAGGACAAGTTTGATCAAAAGAATAACTACTAAGTACGACGTTGACATGTCTCTACCTTGGGTTAAGAGATATGTGAATAAATCTTTTGGAACAGTGTTTGCTAACTTCCATGAAGCATTAGAAAATAAACACAAAGATGTTAAAACTGAAGAAGAATGGGCTTTTCTGTGCACTTATTTTTCTAGTGAAGATTTCCAGGCTGCACAATCAGGGGAGATGCTAGGTGCAATTGAACGCTTTGAAATGGAGTACAAAAGCATTAAAAAAGGTTGGGACTTGGGAGCGAAAGAATTATGGGAGCAAGGCAAAAAGTTTGAGCAGTTCATGGCAACCTTTATGAACCAACAAGCATCAAGTTAG
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

298

Amino Acids

33.57

Weight (kDa)

9.33

Isoelectric Point (pI)

43.03

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
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)
AasI GACNNNNNNGTC 1 cut(s) 435
AccB1I GGYRCC 1 cut(s) 32
AccI GTMKAC 1 cut(s) 427
AclI AACGTT 1 cut(s) 24
AclWI GGATC 1 cut(s) 319
AcsI RAATTY 1 cut(s) 106
AcuI CTGAAG 2 cut(s) 291, 702
AfaI GTAC 5 cut(s) 81, 181, 391, 569, 785
AfiI CCNNNNNNNGG 1 cut(s) 203
AflIII ACRYGT 3 cut(s) 76, 223, 579
AgsI TTSAA 4 cut(s) 280, 412, 767, 776
AjiI CACGTC 1 cut(s) 77
AjnI CCWGG 1 cut(s) 729
AluBI AGCT 1 cut(s) 385
AluI AGCT 1 cut(s) 385
Alw21I GWGCWC 1 cut(s) 707
Alw26I GTCTC 1 cut(s) 588
Alw44I GTGCAC 1 cut(s) 703
AlwI GGATC 1 cut(s) 319
AoxI GGCC 1 cut(s) 194
ApaLI GTGCAC 1 cut(s) 703
ApeKI GCWGC 2 cut(s) 382, 734
ApoI RAATTY 1 cut(s) 106
AspS9I GGNCC 2 cut(s) 323, 437
AsuHPI GGTGA 2 cut(s) 218, 466
AsuII TTCGAA 1 cut(s) 20
AvaII GGWCC 2 cut(s) 323, 437
BaeGI GKGCMC 2 cut(s) 37, 707
BanI GGYRCC 1 cut(s) 32
BbsI GAAGAC 1 cut(s) 5
Bbv12I GWGCWC 1 cut(s) 707
BbvI GCAGC 2 cut(s) 394, 721
BccI CCATC 1 cut(s) 259
BceAI ACGGC 1 cut(s) 86
BciT130I CCWGG 1 cut(s) 731
BclI TGATCA 1 cut(s) 546
BcoDI GTCTC 1 cut(s) 588
BfaI CTAG 4 cut(s) 177, 288, 717, 755
BfmI CTRYAG 1 cut(s) 318
BglI GCCNNNNNGGC 1 cut(s) 41
BisI GCNGC 2 cut(s) 383, 735
BlsI GCNGC 2 cut(s) 384, 736
Bme1390I CCNGG 1 cut(s) 731
Bme18I GGWCC 2 cut(s) 323, 437
BmgBI CACGTC 1 cut(s) 77
BmgT120I GGNCC 2 cut(s) 323, 437
BmiI GGNNCC 2 cut(s) 34, 485
BmrFI CCNGG 1 cut(s) 731
BmsI GCATC 2 cut(s) 274, 741
BpiI GAAGAC 1 cut(s) 5
Bpu14I TTCGAA 1 cut(s) 20
BsaJI CCNNGG 2 cut(s) 307, 590
BsaWI WCCGGW 1 cut(s) 29
Bsc4I CCNNNNNNNGG 1 cut(s) 203
BseBI CCWGG 1 cut(s) 731
BseDI CCNNGG 2 cut(s) 307, 590
BseLI CCNNNNNNNGG 1 cut(s) 203
BseSI GKGCMC 2 cut(s) 37, 707
BseXI GCAGC 2 cut(s) 394, 721
BsgI GTGCAG 1 cut(s) 720
BshFI GGCC 1 cut(s) 196
BshNI GGYRCC 1 cut(s) 32
BsiHKAI GWGCWC 1 cut(s) 707
BsiSI CCGG 1 cut(s) 30
BslFI GGGAC 1 cut(s) 821
BslI CCNNNNNNNGG 1 cut(s) 203
BsmAI GTCTC 1 cut(s) 588
BsmFI GGGAC 1 cut(s) 821
BsmI GAATGC 1 cut(s) 223
BsnI GGCC 1 cut(s) 196
Bsp119I TTCGAA 1 cut(s) 20
Bsp1286I GDGCHC 2 cut(s) 37, 707
Bsp1407I TGTACA 1 cut(s) 79
Bsp143I GATC 2 cut(s) 311, 546
BspANI GGCC 1 cut(s) 196
BspLI GGNNCC 2 cut(s) 34, 485
BspPI GGATC 1 cut(s) 319
BspT104I TTCGAA 1 cut(s) 20
BspT107I GGYRCC 1 cut(s) 32
BsrGI TGTACA 1 cut(s) 79
BssECI CCNNGG 2 cut(s) 307, 590
BssMI GATC 2 cut(s) 311, 546
BssT1I CCWWGG 2 cut(s) 307, 590
Bst2UI CCWGG 1 cut(s) 731
Bst4CI ACNGT 1 cut(s) 628
BstAUI TGTACA 1 cut(s) 79
BstBI TTCGAA 1 cut(s) 20
BstDEI CTNAG 1 cut(s) 564
BstKTI GATC 2 cut(s) 314, 549
BstMAI GTCTC 1 cut(s) 588
BstMBI GATC 2 cut(s) 311, 546
BstMWI GCNNNNNNNGC 2 cut(s) 41, 382
BstNI CCWGG 1 cut(s) 731
BstNSI RCATGY 1 cut(s) 583
BstSCI CCNGG 1 cut(s) 729
BstSFI CTRYAG 1 cut(s) 318
BstSLI GKGCMC 2 cut(s) 37, 707
BstV1I GCAGC 2 cut(s) 394, 721
BstV2I GAAGAC 1 cut(s) 5
BstX2I RGATCY 1 cut(s) 311
BstYI RGATCY 1 cut(s) 311
BsuRI GGCC 1 cut(s) 196
BtrI CACGTC 1 cut(s) 77
BtsIMutI CAGTG 2 cut(s) 236, 633
Cfr13I GGNCC 2 cut(s) 323, 437
Csp6I GTAC 5 cut(s) 80, 180, 390, 568, 784
CviAII CATG 5 cut(s) 377, 488, 580, 644, 859
CviJI RGCY 7 cut(s) 44, 170, 196, 250, 385, 695, 734
CviKI_1 RGCY 7 cut(s) 44, 170, 196, 250, 385, 695, 734
CviQI GTAC 5 cut(s) 80, 180, 390, 568, 784
DdeI CTNAG 1 cut(s) 564
DpnI GATC 2 cut(s) 313, 548
DpnII GATC 2 cut(s) 311, 546
DraI TTTAAA 1 cut(s) 360
DrdI GACNNNNNNGTC 1 cut(s) 435
DseDI GACNNNNNNGTC 1 cut(s) 435
Eco130I CCWWGG 2 cut(s) 307, 590
Eco147I AGGCCT 1 cut(s) 196
Eco32I GATATC 1 cut(s) 304
Eco47I GGWCC 2 cut(s) 323, 437
Eco57I CTGAAG 2 cut(s) 291, 702
EcoRII CCWGG 1 cut(s) 729
EcoRV GATATC 1 cut(s) 304
EcoT14I CCWWGG 2 cut(s) 307, 590
ErhI CCWWGG 2 cut(s) 307, 590
FaeI CATG 5 cut(s) 380, 491, 583, 647, 862
FalI AAGNNNNNCTT 2 cut(s) 108, 140
FaqI GGGAC 1 cut(s) 821
FatI CATG 5 cut(s) 376, 487, 579, 643, 858
FauNDI CATATG 1 cut(s) 442
FbaI TGATCA 1 cut(s) 546
FblI GTMKAC 1 cut(s) 427
Fnu4HI GCNGC 2 cut(s) 383, 735
Fsp4HI GCNGC 2 cut(s) 383, 735
FspBI CTAG 4 cut(s) 177, 288, 717, 755
GluI GCNGC 2 cut(s) 383, 735
HaeIII GGCC 1 cut(s) 196
HapII CCGG 1 cut(s) 30
Hin1II CATG 5 cut(s) 380, 491, 583, 647, 862
HincII GTYRAC 1 cut(s) 577
HindII GTYRAC 1 cut(s) 577
HinfI GANTC 2 cut(s) 209, 471
HpaII CCGG 1 cut(s) 30
HphI GGTGA 2 cut(s) 218, 466
Hpy166II GTNNAC 4 cut(s) 80, 428, 577, 705
Hpy188III TCNNGA 3 cut(s) 134, 326, 412
Hpy8I GTNNAC 4 cut(s) 80, 428, 577, 705
Hpy99I CGWCG 2 cut(s) 78, 575
HpyAV CCTTC 3 cut(s) 105, 266, 508
HpyCH4III ACNGT 1 cut(s) 628
HpyCH4IV ACGT 5 cut(s) 10, 24, 76, 225, 573
HpyCH4V TGCA 8 cut(s) 115, 221, 376, 446, 491, 705, 737, 761
HpyF10VI GCNNNNNNNGC 2 cut(s) 41, 382
HpyF3I CTNAG 1 cut(s) 564
HpySE526I ACGT 5 cut(s) 10, 24, 76, 225, 573
Hsp92II CATG 5 cut(s) 380, 491, 583, 647, 862
Ksp22I TGATCA 1 cut(s) 546
Kzo9I GATC 2 cut(s) 311, 546
LmnI GCTCC 2 cut(s) 815, 832
Lsp1109I GCAGC 2 cut(s) 394, 721
LweI GCATC 2 cut(s) 274, 741
MaeI CTAG 4 cut(s) 177, 288, 717, 755
MaeII ACGT 5 cut(s) 10, 24, 76, 225, 573
MaeIII GTNAC 3 cut(s) 55, 206, 403
MalI GATC 2 cut(s) 313, 548
MboI GATC 2 cut(s) 311, 546
MboII GAAGA 5 cut(s) 5, 542, 695, 698, 734
MfeI CAATTG 1 cut(s) 762
MflI RGATCY 1 cut(s) 311
MhlI GDGCHC 2 cut(s) 37, 707
MluCI AATT 4 cut(s) 106, 465, 762, 824
MlyI GAGTC 1 cut(s) 203
MnlI CCTC 3 cut(s) 157, 347, 504
MseI TTAA 4 cut(s) 359, 597, 675, 795
MslI CAYNNNNRTG 1 cut(s) 669
MspI CCGG 1 cut(s) 30
MspR9I CCNGG 1 cut(s) 731
MunI CAATTG 1 cut(s) 762
Mva1269I GAATGC 1 cut(s) 223
MvaI CCWGG 1 cut(s) 731
MwoI GCNNNNNNNGC 2 cut(s) 41, 382
NdeI CATATG 1 cut(s) 442
NdeII GATC 2 cut(s) 311, 546
NlaIII CATG 5 cut(s) 380, 491, 583, 647, 862
NlaIV GGNNCC 2 cut(s) 34, 485
NmuCI GTSAC 3 cut(s) 55, 206, 403
NspI RCATGY 1 cut(s) 583
NspV TTCGAA 1 cut(s) 20
PceI AGGCCT 1 cut(s) 196
PciI ACATGT 1 cut(s) 579
PctI GAATGC 1 cut(s) 223
PfeI GAWTC 1 cut(s) 471
PkrI GCNGC 2 cut(s) 384, 736
PleI GAGTC 1 cut(s) 203
PpsI GAGTC 1 cut(s) 203
PscI ACATGT 1 cut(s) 579
Psp1406I AACGTT 1 cut(s) 24
Psp6I CCWGG 1 cut(s) 729
PspGI CCWGG 1 cut(s) 729
PspN4I GGNNCC 2 cut(s) 34, 485
PspPI GGNCC 2 cut(s) 323, 437
PsuI RGATCY 1 cut(s) 311
RsaI GTAC 5 cut(s) 81, 181, 391, 569, 785
RsaNI GTAC 5 cut(s) 80, 180, 390, 568, 784
RseI CAYNNNNRTG 1 cut(s) 669
SaqAI TTAA 4 cut(s) 359, 597, 675, 795
SatI GCNGC 2 cut(s) 383, 735
Sau3AI GATC 2 cut(s) 311, 546
Sau96I GGNCC 2 cut(s) 323, 437
SchI GAGTC 1 cut(s) 203
ScrFI CCNGG 1 cut(s) 731
SduI GDGCHC 2 cut(s) 37, 707
SfaNI GCATC 2 cut(s) 274, 741
SfcI CTRYAG 1 cut(s) 318
SfuI TTCGAA 1 cut(s) 20
SinI GGWCC 2 cut(s) 323, 437
SmiMI CAYNNNNRTG 1 cut(s) 669
Sse9I AATT 4 cut(s) 106, 465, 762, 824
SseBI AGGCCT 1 cut(s) 196
SspI AATATT 1 cut(s) 49
SspMI CTAG 4 cut(s) 177, 288, 717, 755
StuI AGGCCT 1 cut(s) 196
StyD4I CCNGG 1 cut(s) 729
StyI CCWWGG 2 cut(s) 307, 590
TaaI ACNGT 1 cut(s) 628
TaiI ACGT 5 cut(s) 13, 27, 79, 228, 576
TaqI TCGA 3 cut(s) 5, 20, 300
TasI AATT 4 cut(s) 106, 465, 762, 824
TatI WGTACW 2 cut(s) 79, 783
TfiI GAWTC 1 cut(s) 471
Tru1I TTAA 4 cut(s) 359, 597, 675, 795
Tru9I TTAA 4 cut(s) 359, 597, 675, 795
TscAI CASTG 2 cut(s) 236, 633
TseFI GTSAC 3 cut(s) 55, 206, 403
TseI GCWGC 2 cut(s) 382, 734
Tsp45I GTSAC 3 cut(s) 55, 206, 403
TspDTI ATGAA 7 cut(s) 105, 135, 230, 477, 660, 847, 887
TspGWI ACGGA 1 cut(s) 496
TspRI CASTG 2 cut(s) 236, 633
VneI GTGCAC 1 cut(s) 703
VpaK11BI GGWCC 2 cut(s) 323, 437
XapI RAATTY 1 cut(s) 106
XceI RCATGY 1 cut(s) 583
XmiI GTMKAC 1 cut(s) 427
XspI CTAG 4 cut(s) 177, 288, 717, 755
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.