RchiOBHm_Chr3g0486961

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0000224
Physical Location & Seq
Reverse (-)
34035107 .. 34040045
4939 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ45140

Sequence Viewer

Length: 1311 bp
ATGGAGAAACGTCTTCGTTCGAACGTTTCCGGTGCCCAAAAGGCTAATGTTGGTGTCACTGTGACAAAACGGCGACGTGTACAAGCAAATGAACCTTCACTTCCAAATTCTTTGCAAGATGAACTCGATGTTCCTGATATGCCTATCTCTAATAGAACTACCCAAAAGGCTATTGCTAGTACCATTATCCAAAGGCCTAATGTTGGTGACTCAATGAATGCACACGTTCAGTGCCAAACTACTAACCAGCCATCAATAAATGCTACAACTGAAGGGTTGAATGATGCTAGGACATCAGTCGATATCCAAGGATCTACTACAGGTCCAGAAAAAAAAGTGCGTGGAAAGACAAGAGGTTTAAATGTTGATAAGGTGCATGAGCAGCTTGGTACTAAAATACCTGTGACTTTCAAGAAAGAAAATGGCAGACCCACAGATCCATATGCGGAAATGTTTGCTAATGAAATTGGATTCACCATTGGGAACCATGCACCTCTAAATGTGAAAAAATGGAAGGAAGTAAAACCAGAAGATATGACAAGTTTGATCAAAAGAATAACTACTAAGTACAACATTGACATGTCTCTACCTTGGGTTAAGAGATATGTGAATAAATCTTTTGGAACAGTGTTTGCTAACTTCCGTTATAAGCTGAAGAAGCATTTTGAGCAATTCTCAACAAAAGAGGAAGCATTAGAAAATAAACACAAAGATGTTAAAACTGAAGAAGAATGGGCTTTTCTGTGCACTTATTTTTCTAGTGAAGATTTTCAGATTGTTTCAGAGAAAAATTCTATTAATAGGTCACGTTTGAAATATCACCATAAAGCAGGGTCGAAGTCTTTTATGTTGCACCAAGAACAGATTGATGCACAATCAGGGGAGATGCTAGGTGCAATTGAACGCTTTGAAATGGAGTACAAAAGCATTAAAAAAGGTTGGGACTTGGGAGCGAAAGAATTATGGGATCAAATGGTTAAGATGCGAACTGAGACAACCCTTCCTGATGGGACTCGAACTATGAATGATGATGAAATATGTGCAAAGGTTCTTGGAGTAAAATCAGGCTACATCAAGGGTTGTGGTTTTGGCCCTAGGCCTCCACCATCTAGCACTTCTCGATCGTCACTAGATGAAATGTCTGAGAAGAATAAAGAGTTAGAAGATATACTTGAAGAGACCCAAGATACTATAAAGGCTCAACAAGAAAAGATTGATGCACAAAACGTGTTGATCCAAGAATTGCAGAAGCAAGGCAAAAAGTTTGAGCAGTTCATGGCAACCTTTATGAACCAACAAGCATCAAGTTAG
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

436

Amino Acids

49.52

Weight (kDa)

8.93

Isoelectric Point (pI)

44.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transposase_24 PF03004 243 - 364 2.4e-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
AccB1I GGYRCC 1 cut(s) 32
AciI CCGC 1 cut(s) 446
AclI AACGTT 1 cut(s) 24
AclWI GGATC 4 cut(s) 319, 431, 975, 1228
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 4 cut(s) 76, 223, 579, 1227
AgsI TTSAA 6 cut(s) 280, 412, 814, 902, 911, 1175
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 3 cut(s) 588, 986, 1172
Alw44I GTGCAC 1 cut(s) 745
AlwI GGATC 4 cut(s) 319, 431, 975, 1228
AoxI GGCC 3 cut(s) 194, 1090, 1097
ApaLI GTGCAC 1 cut(s) 745
ApeKI GCWGC 1 cut(s) 382
ApoI RAATTY 2 cut(s) 106, 790
AseI ATTAAT 1 cut(s) 798
Asp700I GAANNNNTTC 1 cut(s) 768
AspA2I CCTAGG 1 cut(s) 1094
AspS9I GGNCC 2 cut(s) 323, 1091
AsuHPI GGTGA 3 cut(s) 218, 466, 812
AsuII TTCGAA 1 cut(s) 20
AvaII GGWCC 1 cut(s) 323
AvrII CCTAGG 1 cut(s) 1094
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 1 cut(s) 394
BccI CCATC 3 cut(s) 259, 1001, 1114
BceAI ACGGC 1 cut(s) 86
BclI TGATCA 1 cut(s) 546
BcoDI GTCTC 3 cut(s) 588, 986, 1172
BfaI CTAG 7 cut(s) 177, 288, 759, 890, 1095, 1110, 1130
BfmI CTRYAG 1 cut(s) 318
BglI GCCNNNNNGGC 1 cut(s) 41
BisI GCNGC 1 cut(s) 383
BlnI CCTAGG 1 cut(s) 1094
BlsI GCNGC 1 cut(s) 384
Bme18I GGWCC 1 cut(s) 323
BmgBI CACGTC 1 cut(s) 77
BmgT120I GGNCC 2 cut(s) 323, 1091
BmiI GGNNCC 2 cut(s) 34, 485
BmsI GCATC 5 cut(s) 274, 859, 876, 972, 1207
BoxI GACNNNNGTC 1 cut(s) 296
BpiI GAAGAC 1 cut(s) 5
BplI GAGNNNNNCTC 2 cut(s) 659, 691
Bpu14I TTCGAA 1 cut(s) 20
BsaI GGTCTC 1 cut(s) 1172
BsaJI CCNNGG 3 cut(s) 307, 590, 1094
BsaWI WCCGGW 1 cut(s) 29
Bsc4I CCNNNNNNNGG 1 cut(s) 203
BseDI CCNNGG 3 cut(s) 307, 590, 1094
BseLI CCNNNNNNNGG 1 cut(s) 203
BseMII CTCAG 2 cut(s) 981, 1134
BseSI GKGCMC 2 cut(s) 37, 749
BseXI GCAGC 1 cut(s) 394
Bsh1285I CGRYCG 1 cut(s) 1124
BshFI GGCC 3 cut(s) 196, 1092, 1099
BshNI GGYRCC 1 cut(s) 32
BsiEI CGRYCG 1 cut(s) 1124
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 3 cut(s) 588, 986, 1172
BsmFI GGGAC 2 cut(s) 956, 1024
BsmI GAATGC 1 cut(s) 223
BsnI GGCC 3 cut(s) 196, 1092, 1099
Bso31I GGTCTC 1 cut(s) 1172
Bsp119I TTCGAA 1 cut(s) 20
Bsp1286I GDGCHC 2 cut(s) 37, 749
Bsp1407I TGTACA 1 cut(s) 79
Bsp143I GATC 6 cut(s) 311, 436, 546, 967, 1121, 1233
BspACI CCGC 1 cut(s) 446
BspANI GGCC 3 cut(s) 196, 1092, 1099
BspCNI CTCAG 2 cut(s) 982, 1135
BspLI GGNNCC 2 cut(s) 34, 485
BspPI GGATC 4 cut(s) 319, 431, 975, 1228
BspT104I TTCGAA 1 cut(s) 20
BspT107I GGYRCC 1 cut(s) 32
BspTNI GGTCTC 1 cut(s) 1172
BsrGI TGTACA 1 cut(s) 79
BssECI CCNNGG 3 cut(s) 307, 590, 1094
BssMI GATC 6 cut(s) 311, 436, 546, 967, 1121, 1233
BssT1I CCWWGG 3 cut(s) 307, 590, 1094
Bst4CI ACNGT 2 cut(s) 61, 628
Bst6I CTCTTC 1 cut(s) 1170
BstAUI TGTACA 1 cut(s) 79
BstBI TTCGAA 1 cut(s) 20
BstDEI CTNAG 3 cut(s) 564, 990, 1143
BstKTI GATC 6 cut(s) 314, 439, 549, 970, 1124, 1236
BstMAI GTCTC 3 cut(s) 588, 986, 1172
BstMBI GATC 6 cut(s) 311, 436, 546, 967, 1121, 1233
BstMCI CGRYCG 1 cut(s) 1124
BstMWI GCNNNNNNNGC 4 cut(s) 41, 382, 658, 667
BstNSI RCATGY 1 cut(s) 583
BstPAI GACNNNNGTC 1 cut(s) 296
BstSFI CTRYAG 1 cut(s) 318
BstSLI GKGCMC 2 cut(s) 37, 749
BstV1I GCAGC 1 cut(s) 394
BstV2I GAAGAC 1 cut(s) 5
BstX2I RGATCY 2 cut(s) 311, 436
BstYI RGATCY 2 cut(s) 311, 436
BsuRI GGCC 3 cut(s) 196, 1092, 1099
BtrI CACGTC 1 cut(s) 77
BtsIMutI CAGTG 3 cut(s) 57, 236, 633
Cfr13I GGNCC 2 cut(s) 323, 1091
Csp6I GTAC 5 cut(s) 80, 180, 390, 568, 919
CspCI CAANNNNNGTGG 2 cut(s) 1063, 1098
CviAII CATG 4 cut(s) 377, 488, 580, 1276
CviQI GTAC 5 cut(s) 80, 180, 390, 568, 919
DdeI CTNAG 3 cut(s) 564, 990, 1143
DpnI GATC 6 cut(s) 313, 438, 548, 969, 1123, 1235
DpnII GATC 6 cut(s) 311, 436, 546, 967, 1121, 1233
DraI TTTAAA 1 cut(s) 360
Eam1104I CTCTTC 1 cut(s) 1170
EarI CTCTTC 1 cut(s) 1170
Eco130I CCWWGG 3 cut(s) 307, 590, 1094
Eco147I AGGCCT 2 cut(s) 196, 1099
Eco31I GGTCTC 1 cut(s) 1172
Eco32I GATATC 1 cut(s) 304
Eco47I GGWCC 1 cut(s) 323
Eco57I CTGAAG 3 cut(s) 291, 674, 744
EcoRV GATATC 1 cut(s) 304
EcoT14I CCWWGG 3 cut(s) 307, 590, 1094
ErhI CCWWGG 3 cut(s) 307, 590, 1094
FaeI CATG 4 cut(s) 380, 491, 583, 1279
FalI AAGNNNNNCTT 2 cut(s) 1155, 1187
FaqI GGGAC 2 cut(s) 956, 1024
FatI CATG 4 cut(s) 376, 487, 579, 1275
FauNDI CATATG 1 cut(s) 442
FbaI TGATCA 1 cut(s) 546
Fnu4HI GCNGC 1 cut(s) 383
Fsp4HI GCNGC 1 cut(s) 383
FspBI CTAG 7 cut(s) 177, 288, 759, 890, 1095, 1110, 1130
GluI GCNGC 1 cut(s) 383
HaeIII GGCC 3 cut(s) 196, 1092, 1099
HapII CCGG 1 cut(s) 30
Hin1II CATG 4 cut(s) 380, 491, 583, 1279
HinfI GANTC 3 cut(s) 209, 471, 1012
HpaII CCGG 1 cut(s) 30
HphI GGTGA 3 cut(s) 218, 466, 812
Hpy166II GTNNAC 2 cut(s) 80, 747
Hpy188I TCNGA 3 cut(s) 774, 784, 1144
Hpy188III TCNNGA 5 cut(s) 134, 326, 412, 1004, 1119
Hpy8I GTNNAC 2 cut(s) 80, 747
Hpy99I CGWCG 1 cut(s) 78
HpyAV CCTTC 4 cut(s) 105, 266, 508, 1010
HpyCH4III ACNGT 2 cut(s) 61, 628
HpyCH4IV ACGT 6 cut(s) 10, 24, 76, 225, 808, 1227
HpyF10VI GCNNNNNNNGC 4 cut(s) 41, 382, 658, 667
HpyF3I CTNAG 3 cut(s) 564, 990, 1143
HpySE526I ACGT 6 cut(s) 10, 24, 76, 225, 808, 1227
Hsp92II CATG 4 cut(s) 380, 491, 583, 1279
Ksp22I TGATCA 1 cut(s) 546
Kzo9I GATC 6 cut(s) 311, 436, 546, 967, 1121, 1233
LmnI GCTCC 1 cut(s) 950
Lsp1109I GCAGC 1 cut(s) 394
LweI GCATC 5 cut(s) 274, 859, 876, 972, 1207
MaeI CTAG 7 cut(s) 177, 288, 759, 890, 1095, 1110, 1130
MaeII ACGT 6 cut(s) 10, 24, 76, 225, 808, 1227
MaeIII GTNAC 6 cut(s) 55, 61, 206, 403, 804, 1125
MalI GATC 6 cut(s) 313, 438, 548, 969, 1123, 1235
MboI GATC 6 cut(s) 311, 436, 546, 967, 1121, 1233
MboII GAAGA 9 cut(s) 5, 542, 667, 737, 740, 776, 1159, 1175, 1187
MfeI CAATTG 1 cut(s) 897
MflI RGATCY 2 cut(s) 311, 436
MhlI GDGCHC 2 cut(s) 37, 749
MluCI AATT 7 cut(s) 106, 465, 671, 790, 897, 959, 1241
MlyI GAGTC 2 cut(s) 203, 1006
MnlI CCTC 4 cut(s) 347, 504, 679, 1110
MroXI GAANNNNTTC 1 cut(s) 768
MseI TTAA 6 cut(s) 359, 597, 717, 798, 930, 978
MslI CAYNNNNRTG 2 cut(s) 578, 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 6 cut(s) 311, 436, 546, 967, 1121, 1233
NlaIII CATG 4 cut(s) 380, 491, 583, 1279
NlaIV GGNNCC 2 cut(s) 34, 485
NmuCI GTSAC 6 cut(s) 55, 61, 206, 403, 804, 1125
NspI RCATGY 1 cut(s) 583
NspV TTCGAA 1 cut(s) 20
PceI AGGCCT 2 cut(s) 196, 1099
PciI ACATGT 1 cut(s) 579
PctI GAATGC 1 cut(s) 223
PdmI GAANNNNTTC 1 cut(s) 768
PfeI GAWTC 1 cut(s) 471
PkrI GCNGC 1 cut(s) 384
Ple19I CGATCG 1 cut(s) 1124
PleI GAGTC 2 cut(s) 203, 1006
PpsI GAGTC 2 cut(s) 203, 1006
PscI ACATGT 1 cut(s) 579
PshAI GACNNNNGTC 1 cut(s) 296
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, 1091
PsuI RGATCY 2 cut(s) 311, 436
PvuI CGATCG 1 cut(s) 1124
RsaI GTAC 5 cut(s) 81, 181, 391, 569, 920
RsaNI GTAC 5 cut(s) 80, 180, 390, 568, 919
RseI CAYNNNNRTG 2 cut(s) 578, 711
SaqAI TTAA 6 cut(s) 359, 597, 717, 798, 930, 978
SatI GCNGC 1 cut(s) 383
Sau3AI GATC 6 cut(s) 311, 436, 546, 967, 1121, 1233
Sau96I GGNCC 2 cut(s) 323, 1091
SchI GAGTC 2 cut(s) 203, 1006
SduI GDGCHC 2 cut(s) 37, 749
SfaNI GCATC 5 cut(s) 274, 859, 876, 972, 1207
SfcI CTRYAG 1 cut(s) 318
SfuI TTCGAA 1 cut(s) 20
SinI GGWCC 1 cut(s) 323
SmiMI CAYNNNNRTG 2 cut(s) 578, 711
Sse9I AATT 7 cut(s) 106, 465, 671, 790, 897, 959, 1241
SseBI AGGCCT 2 cut(s) 196, 1099
SsiI CCGC 1 cut(s) 446
SspMI CTAG 7 cut(s) 177, 288, 759, 890, 1095, 1110, 1130
StuI AGGCCT 2 cut(s) 196, 1099
StyI CCWWGG 3 cut(s) 307, 590, 1094
TaaI ACNGT 2 cut(s) 61, 628
TaiI ACGT 6 cut(s) 13, 27, 79, 228, 811, 1230
TaqI TCGA 6 cut(s) 20, 126, 300, 836, 1015, 1120
TasI AATT 7 cut(s) 106, 465, 671, 790, 897, 959, 1241
TatI WGTACW 3 cut(s) 79, 567, 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 3 cut(s) 64, 236, 633
TseFI GTSAC 6 cut(s) 55, 61, 206, 403, 804, 1125
TseI GCWGC 1 cut(s) 382
Tsp45I GTSAC 6 cut(s) 55, 61, 206, 403, 804, 1125
TspDTI ATGAA 9 cut(s) 105, 135, 230, 477, 1037, 1047, 1149, 1264, 1304
TspGWI ACGGA 1 cut(s) 632
TspRI CASTG 3 cut(s) 64, 236, 633
VneI GTGCAC 1 cut(s) 745
VpaK11BI GGWCC 1 cut(s) 323
VspI ATTAAT 1 cut(s) 798
XapI RAATTY 2 cut(s) 106, 790
XceI RCATGY 1 cut(s) 583
XmaJI CCTAGG 1 cut(s) 1094
XmnI GAANNNNTTC 1 cut(s) 768
XspI CTAG 7 cut(s) 177, 288, 759, 890, 1095, 1110, 1130
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.