RLG00000016520

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr4
OG0000224
Physical Location & Seq
Forward (+)
7267864 .. 7270050
2187 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000016520

Sequence Viewer

Length: 1110 bp
ATGTCGAAACGTCTTCGTTCGAACGTTTCCGGTGCCCAAAAGGCTAATATTGGTGTCACTTTGACAAAACGGCGACGTGTACAAGCAAATGAACCTTCACTTCCAAATTCTTTGCAAGATGAACTTGATGTTCCTGATATGCCTACCTCTAATAGAACTACCCAAAGGGCTATTGCTAGTACCATTATCCAAAGGCCTACTGTTGGTGACTCAATGAATGCACACGTTCAGTGCCAAACTACTAACCAGCCATCAATAAATGCTACAACTGAAGGGTTGAATGATGCTAGAACATCAGTCGATATCCAAGGATCTACTACAGGTCCAGAAAAAAAAGTGTGTGGAAAGACAAGAGGTTTAAATGCTGATAAGGTGCATGAGCAGCTTGGTACTAAAATACCTGTGACTTTCAAGAAAGAAAATGATAGACCCACAGGTCCATATGCAGAAATGTTTGCTAATGAAATTGGATTCACCATACGGAACCATGCACCTCTAAATGTGAAAAAATGGAAGGAAGTAAAACCAGAAGATAGGACAAGTTTGATCAAAAGAATAACTACTAAGTACGACGTTGACATGTCTCTACCTTGGGTTAAGAGATATGTGAATAAATCTTTTGGAACAGTGTTTGCTAACTTCCGTTATAAGCTGAAGAAGCATTTTGAGCAATTCTCAACAAAAGAGGAAGCATTAGAAAATAAACACAAAGATGTTAAAACTGAAGAAGAATGGGCTTTTCTGTGCACTTATTTTTCTAGTGAAGATTTCCAGATTGTTTCAGAGAAAAATTCTATTAATAGGTCACATTTGAAATATCACCATAAAGCAGGGTCGAAGTCTTTTATGTCGCATCAAGAACAGATTGCTGCACAATCAGGGGAGATGCTAGGTGCAATTGAACGCTTTGAAATGGAGTACAAAAGCATTAAAAAAGGTTGGGACTTGGGAGCGAAAGAATTATGGGATCAAATGGTTAAGATGCGAACTGAGACAACCCTTCCTGATGGGACTCGAACTATGAATGATGATGAAATATGTGCAAAGGAGCAAGGCAAAAAGTTTGAGCAGTTCATGGCAACCTTTATGAACCAACAAGCATCAAGTTAG
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

370

Amino Acids

42.06

Weight (kDa)

9.23

Isoelectric Point (pI)

43.7

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transposase_24 PF03004 243 - 308 1.3e-07 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
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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)
AanI TTATAA 1 cut(s) 648
AasI GACNNNNNNGTC 1 cut(s) 435
AccB1I GGYRCC 1 cut(s) 32
AclI AACGTT 1 cut(s) 24
AclWI GGATC 2 cut(s) 319, 975
AcsI RAATTY 2 cut(s) 106, 790
AcuI CTGAAG 3 cut(s) 291, 674, 744
AfaI GTAC 5 cut(s) 81, 181, 391, 569, 920
AfiI CCNNNNNNNGG 1 cut(s) 203
AflIII ACRYGT 3 cut(s) 76, 223, 579
AgsI TTSAA 5 cut(s) 280, 412, 814, 902, 911
AjiI CACGTC 1 cut(s) 77
AluBI AGCT 2 cut(s) 385, 652
AluI AGCT 2 cut(s) 385, 652
Alw21I GWGCWC 1 cut(s) 749
Alw26I GTCTC 2 cut(s) 588, 986
Alw44I GTGCAC 1 cut(s) 745
AlwI GGATC 2 cut(s) 319, 975
AoxI GGCC 1 cut(s) 194
ApaLI GTGCAC 1 cut(s) 745
ApeKI GCWGC 2 cut(s) 382, 869
ApoI RAATTY 2 cut(s) 106, 790
AseI ATTAAT 1 cut(s) 798
AspS9I GGNCC 2 cut(s) 323, 437
AsuHPI GGTGA 3 cut(s) 218, 466, 812
AsuII TTCGAA 1 cut(s) 20
AvaII GGWCC 2 cut(s) 323, 437
BaeGI GKGCMC 2 cut(s) 37, 749
BanI GGYRCC 1 cut(s) 32
BbsI GAAGAC 1 cut(s) 5
Bbv12I GWGCWC 1 cut(s) 749
BbvI GCAGC 2 cut(s) 394, 856
BccI CCATC 2 cut(s) 259, 1001
BceAI ACGGC 1 cut(s) 86
BclI TGATCA 1 cut(s) 546
BcoDI GTCTC 2 cut(s) 588, 986
BfaI CTAG 4 cut(s) 177, 288, 759, 890
BfmI CTRYAG 1 cut(s) 318
BglI GCCNNNNNGGC 1 cut(s) 41
BisI GCNGC 2 cut(s) 383, 870
BlsI GCNGC 2 cut(s) 384, 871
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
BmsI GCATC 4 cut(s) 274, 862, 876, 972
BpiI GAAGAC 1 cut(s) 5
BplI GAGNNNNNCTC 2 cut(s) 659, 691
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
BseDI CCNNGG 2 cut(s) 307, 590
BseLI CCNNNNNNNGG 1 cut(s) 203
BseMII CTCAG 1 cut(s) 981
BseSI GKGCMC 2 cut(s) 37, 749
BseXI GCAGC 2 cut(s) 394, 856
BsgI GTGCAG 1 cut(s) 855
BshFI GGCC 1 cut(s) 196
BshNI GGYRCC 1 cut(s) 32
BsiHKAI GWGCWC 1 cut(s) 749
BsiSI CCGG 1 cut(s) 30
BslFI GGGAC 2 cut(s) 956, 1024
BslI CCNNNNNNNGG 1 cut(s) 203
BsmAI GTCTC 2 cut(s) 588, 986
BsmFI GGGAC 2 cut(s) 956, 1024
BsmI GAATGC 1 cut(s) 223
BsnI GGCC 1 cut(s) 196
Bsp119I TTCGAA 1 cut(s) 20
Bsp1286I GDGCHC 2 cut(s) 37, 749
Bsp1407I TGTACA 1 cut(s) 79
Bsp143I GATC 3 cut(s) 311, 546, 967
BspANI GGCC 1 cut(s) 196
BspCNI CTCAG 1 cut(s) 982
BspLI GGNNCC 2 cut(s) 34, 485
BspPI GGATC 2 cut(s) 319, 975
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 3 cut(s) 311, 546, 967
BssT1I CCWWGG 2 cut(s) 307, 590
Bst4CI ACNGT 2 cut(s) 202, 628
BstAUI TGTACA 1 cut(s) 79
BstBI TTCGAA 1 cut(s) 20
BstDEI CTNAG 2 cut(s) 564, 990
BstKTI GATC 3 cut(s) 314, 549, 970
BstMAI GTCTC 2 cut(s) 588, 986
BstMBI GATC 3 cut(s) 311, 546, 967
BstMWI GCNNNNNNNGC 4 cut(s) 41, 382, 658, 667
BstNSI RCATGY 1 cut(s) 583
BstSFI CTRYAG 1 cut(s) 318
BstSLI GKGCMC 2 cut(s) 37, 749
BstV1I GCAGC 2 cut(s) 394, 856
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, 919
CviAII CATG 4 cut(s) 377, 488, 580, 1075
CviJI RGCY 7 cut(s) 44, 170, 196, 250, 385, 652, 737
CviKI_1 RGCY 7 cut(s) 44, 170, 196, 250, 385, 652, 737
CviQI GTAC 5 cut(s) 80, 180, 390, 568, 919
DdeI CTNAG 2 cut(s) 564, 990
DpnI GATC 3 cut(s) 313, 548, 969
DpnII GATC 3 cut(s) 311, 546, 967
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 3 cut(s) 291, 674, 744
EcoRV GATATC 1 cut(s) 304
EcoT14I CCWWGG 2 cut(s) 307, 590
ErhI CCWWGG 2 cut(s) 307, 590
FaeI CATG 4 cut(s) 380, 491, 583, 1078
FalI AAGNNNNNCTT 2 cut(s) 108, 140
FaqI GGGAC 2 cut(s) 956, 1024
FatI CATG 4 cut(s) 376, 487, 579, 1074
FauNDI CATATG 1 cut(s) 442
FbaI TGATCA 1 cut(s) 546
Fnu4HI GCNGC 2 cut(s) 383, 870
Fsp4HI GCNGC 2 cut(s) 383, 870
FspBI CTAG 4 cut(s) 177, 288, 759, 890
GluI GCNGC 2 cut(s) 383, 870
HaeIII GGCC 1 cut(s) 196
HapII CCGG 1 cut(s) 30
Hin1II CATG 4 cut(s) 380, 491, 583, 1078
HincII GTYRAC 1 cut(s) 577
HindII GTYRAC 1 cut(s) 577
HinfI GANTC 3 cut(s) 209, 471, 1012
HpaII CCGG 1 cut(s) 30
HphI GGTGA 3 cut(s) 218, 466, 812
Hpy166II GTNNAC 3 cut(s) 80, 577, 747
Hpy188I TCNGA 1 cut(s) 784
Hpy188III TCNNGA 6 cut(s) 134, 326, 412, 772, 857, 1004
Hpy8I GTNNAC 3 cut(s) 80, 577, 747
Hpy99I CGWCG 2 cut(s) 78, 575
HpyAV CCTTC 4 cut(s) 105, 266, 508, 1010
HpyCH4III ACNGT 2 cut(s) 202, 628
HpyCH4IV ACGT 5 cut(s) 10, 24, 76, 225, 573
HpyCH4V TGCA 9 cut(s) 115, 221, 376, 446, 491, 747, 872, 896, 1043
HpyF10VI GCNNNNNNNGC 4 cut(s) 41, 382, 658, 667
HpyF3I CTNAG 2 cut(s) 564, 990
HpySE526I ACGT 5 cut(s) 10, 24, 76, 225, 573
Hsp92II CATG 4 cut(s) 380, 491, 583, 1078
Ksp22I TGATCA 1 cut(s) 546
Kzo9I GATC 3 cut(s) 311, 546, 967
LmnI GCTCC 2 cut(s) 950, 1048
Lsp1109I GCAGC 2 cut(s) 394, 856
LweI GCATC 4 cut(s) 274, 862, 876, 972
MaeI CTAG 4 cut(s) 177, 288, 759, 890
MaeII ACGT 5 cut(s) 10, 24, 76, 225, 573
MaeIII GTNAC 4 cut(s) 55, 206, 403, 804
MalI GATC 3 cut(s) 313, 548, 969
MboI GATC 3 cut(s) 311, 546, 967
MboII GAAGA 6 cut(s) 5, 542, 667, 737, 740, 776
MfeI CAATTG 1 cut(s) 897
MflI RGATCY 1 cut(s) 311
MhlI GDGCHC 2 cut(s) 37, 749
MluCI AATT 6 cut(s) 106, 465, 671, 790, 897, 959
MlyI GAGTC 2 cut(s) 203, 1006
MnlI CCTC 4 cut(s) 157, 347, 504, 679
MseI TTAA 6 cut(s) 359, 597, 717, 798, 930, 978
MslI CAYNNNNRTG 1 cut(s) 711
MspI CCGG 1 cut(s) 30
MunI CAATTG 1 cut(s) 897
Mva1269I GAATGC 1 cut(s) 223
MwoI GCNNNNNNNGC 4 cut(s) 41, 382, 658, 667
NdeI CATATG 1 cut(s) 442
NdeII GATC 3 cut(s) 311, 546, 967
NlaIII CATG 4 cut(s) 380, 491, 583, 1078
NlaIV GGNNCC 2 cut(s) 34, 485
NmuCI GTSAC 4 cut(s) 55, 206, 403, 804
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, 871
PleI GAGTC 2 cut(s) 203, 1006
PpsI GAGTC 2 cut(s) 203, 1006
PscI ACATGT 1 cut(s) 579
PshBI ATTAAT 1 cut(s) 798
PsiI TTATAA 1 cut(s) 648
Psp1406I AACGTT 1 cut(s) 24
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, 920
RsaNI GTAC 5 cut(s) 80, 180, 390, 568, 919
RseI CAYNNNNRTG 1 cut(s) 711
SaqAI TTAA 6 cut(s) 359, 597, 717, 798, 930, 978
SatI GCNGC 2 cut(s) 383, 870
Sau3AI GATC 3 cut(s) 311, 546, 967
Sau96I GGNCC 2 cut(s) 323, 437
SchI GAGTC 2 cut(s) 203, 1006
SduI GDGCHC 2 cut(s) 37, 749
SfaNI GCATC 4 cut(s) 274, 862, 876, 972
SfcI CTRYAG 1 cut(s) 318
SfuI TTCGAA 1 cut(s) 20
SinI GGWCC 2 cut(s) 323, 437
SmiMI CAYNNNNRTG 1 cut(s) 711
Sse9I AATT 6 cut(s) 106, 465, 671, 790, 897, 959
SseBI AGGCCT 1 cut(s) 196
SspI AATATT 1 cut(s) 49
SspMI CTAG 4 cut(s) 177, 288, 759, 890
StuI AGGCCT 1 cut(s) 196
StyI CCWWGG 2 cut(s) 307, 590
TaaI ACNGT 2 cut(s) 202, 628
TaiI ACGT 5 cut(s) 13, 27, 79, 228, 576
TaqI TCGA 5 cut(s) 5, 20, 300, 836, 1015
TasI AATT 6 cut(s) 106, 465, 671, 790, 897, 959
TatI WGTACW 2 cut(s) 79, 918
TfiI GAWTC 1 cut(s) 471
Tru1I TTAA 6 cut(s) 359, 597, 717, 798, 930, 978
Tru9I TTAA 6 cut(s) 359, 597, 717, 798, 930, 978
TscAI CASTG 2 cut(s) 236, 633
TseFI GTSAC 4 cut(s) 55, 206, 403, 804
TseI GCWGC 2 cut(s) 382, 869
Tsp45I GTSAC 4 cut(s) 55, 206, 403, 804
TspDTI ATGAA 8 cut(s) 105, 135, 230, 477, 1037, 1047, 1063, 1103
TspGWI ACGGA 2 cut(s) 496, 632
TspRI CASTG 2 cut(s) 236, 633
VneI GTGCAC 1 cut(s) 745
VpaK11BI GGWCC 2 cut(s) 323, 437
VspI ATTAAT 1 cut(s) 798
XapI RAATTY 2 cut(s) 106, 790
XceI RCATGY 1 cut(s) 583
XspI CTAG 4 cut(s) 177, 288, 759, 890
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.