RchiOBHm_Chr4g0385011

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
4
OG0000224
Physical Location & Seq
Reverse (-)
420650 .. 428657
8008 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ35854

Sequence Viewer

Length: 1341 bp
ATGCGCCGTTCCAATGTGTCTAACATCCAAAAGCCTACTACTGGTAATGCACCGAGTAAACGCTCTCGTGTGCAAACTACTGATCAGCCATGCCCAAATGTATCTCGTTCTACTTCAGGTAGTGCAATGAGTAAACGCTATCGTGTGCAAACTACTGATCAGCCATGCAAAAATTATGTAGAAGATGGACTCAATTCTACTATTGGTACTACTACAGAACGAACTACTACTGGAGTCAGAATTAGTTCACGTCTTCAGCATCAAACTGCTAATGATCAGCTATTGATAAATGTTACAACTGAAGAGCAAAATGATAATGTGATGTCAGCCAGTAATCAAGACCCTCCTACAGGTCCAACAAAAAAGGTGCGGGGAAAGACAAGAGGAGTGAATGCAGATAAAGTGCTTTCTCAATTGAATGCTAAAATACCTGTCACTCTGACTGAACAAAATGGTAGGCCTACAGGCCCATATGCTGAAATGTTGGCCAATGAAATTGGTTTCACAGTTCGAAACCATGCCCCACTAAATGTGGAAAAATGGAAGAAGATTCCGAAAATTGACGTGGATAAGTTGGTTAAAAGAATAACGAACAAGTTTGACATTGACATGTCTCTCCTTTGGGTCGAGAGATATGTAATTACAACATGTCAGACTGTATTTTGTAATTTTCGTTATAAGTTGAAGAAACATTTTGAGAAATTTTCAACAATCGAGGAAGCAATTGAAAACAAACACGATGATGTCAAGACTCAGGAAGAATGGGAGTTTCTCTGTGCTCGTTTTTCTAGTGAAAAGTTTCAGATTCGTTCAGAGAAGAATGCTATAAATAGGTCAAAGCTGACACATCACCACAAAGCTGGGTCAAAGTCATTTATGTCTCACCAAGAGCAAATTGCAGCACAGACTGGAGAGATGCAAGGTGCAATTGATCGCTTTGAAACAGAGTACAAAAGCACTAAAAAGGGTTGGGACTTGGGAGCAAAAGCAAAGTGGGATGAAATGATTAAGATGCGAACTGAGACAACTCAACCTGATGGAACTCGGACAATGACAGATGATGAAATTTGTGCAAAAGTCCTCGGAGTCAAATCAGGCTACATCAAGGGTTGTGGTTTTGGCCCTAGACCTCCACCATCAAGAGTCTCTCATTCGTCGATAAATGAAATGTCTGAAAAGAACAAAGAGTTGCAAGAACAGCTTCAAGAGACCCAACACCTTGTAGGGACTCAACAACAAAAGATTGATGCACAAAATGAGGTGATCCAAAGATTGGAGGAGCAAGCCAAAAAGTTTGAGGAGTTCATGGCTAACTTTTCTAGGCAACATCCGTCAAGTTAG
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

446

Amino Acids

50.72

Weight (kDa)

9.26

Isoelectric Point (pI)

44.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transposase_24 PF03004 253 - 375 3.3e-08 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) 678
AccB7I CCANNNNNTGG 1 cut(s) 1273
AciI CCGC 1 cut(s) 370
AclWI GGATC 1 cut(s) 1258
AcoI YGGCCR 1 cut(s) 486
AcsI RAATTY 2 cut(s) 701, 1065
AcuI CTGAAG 3 cut(s) 99, 239, 321
AfaI GTAC 2 cut(s) 208, 950
AfiI CCNNNNNNNGG 3 cut(s) 41, 350, 1273
AflIII ACRYGT 2 cut(s) 609, 647
AgsI TTSAA 6 cut(s) 418, 685, 708, 728, 941, 1205
AjiI CACGTC 2 cut(s) 251, 565
AluBI AGCT 4 cut(s) 280, 841, 860, 1201
AluI AGCT 4 cut(s) 280, 841, 860, 1201
Alw21I GWGCWC 1 cut(s) 781
Alw26I GTCTC 5 cut(s) 618, 885, 1016, 1150, 1202
AlwI GGATC 1 cut(s) 1258
AoxI GGCC 4 cut(s) 458, 466, 486, 1120
ApeKI GCWGC 1 cut(s) 899
ApoI RAATTY 2 cut(s) 701, 1065
Asp700I GAANNNNTTC 3 cut(s) 244, 798, 1200
AspLEI GCGC 1 cut(s) 6
AspS9I GGNCC 3 cut(s) 353, 467, 1121
AsuHPI GGTGA 3 cut(s) 842, 875, 1273
AsuII TTCGAA 1 cut(s) 511
AvaII GGWCC 1 cut(s) 353
BalI TGGCCA 1 cut(s) 488
BauI CACGAG 1 cut(s) 66
BbsI GAAGAC 1 cut(s) 245
Bbv12I GWGCWC 1 cut(s) 781
BbvI GCAGC 1 cut(s) 911
BccI CCATC 3 cut(s) 179, 1031, 1144
BclI TGATCA 3 cut(s) 82, 157, 274
BcoDI GTCTC 5 cut(s) 618, 885, 1016, 1150, 1202
BfaI CTAG 3 cut(s) 789, 1125, 1320
BfmI CTRYAG 3 cut(s) 213, 348, 462
BisI GCNGC 1 cut(s) 900
BlsI GCNGC 1 cut(s) 901
Bme18I GGWCC 1 cut(s) 353
BmgBI CACGTC 2 cut(s) 251, 565
BmgT120I GGNCC 3 cut(s) 353, 467, 1121
BmsI GCATC 4 cut(s) 268, 906, 1002, 1237
BpiI GAAGAC 1 cut(s) 245
BpmI CTGGAG 2 cut(s) 252, 930
Bpu14I TTCGAA 1 cut(s) 511
BsaI GGTCTC 1 cut(s) 1202
BsaJI CCNNGG 1 cut(s) 1081
Bsc4I CCNNNNNNNGG 3 cut(s) 41, 350, 1273
Bse1I ACTGG 4 cut(s) 46, 235, 330, 913
Bse3DI GCAATG 1 cut(s) 132
BseDI CCNNGG 1 cut(s) 1081
BseGI GGATG 3 cut(s) 24, 1003, 1327
BseLI CCNNNNNNNGG 3 cut(s) 41, 350, 1273
BseMI GCAATG 1 cut(s) 132
BseMII CTCAG 2 cut(s) 767, 1011
BseNI ACTGG 4 cut(s) 46, 235, 330, 913
BseRI GAGGAG 3 cut(s) 399, 1292, 1313
BseXI GCAGC 1 cut(s) 911
BseYI CCCAGC 1 cut(s) 860
BshFI GGCC 4 cut(s) 460, 468, 488, 1122
BsiHKAI GWGCWC 1 cut(s) 781
BslFI GGGAC 2 cut(s) 986, 1240
BslI CCNNNNNNNGG 3 cut(s) 41, 350, 1273
BsmAI GTCTC 5 cut(s) 618, 885, 1016, 1150, 1202
BsmFI GGGAC 2 cut(s) 986, 1240
BsmI GAATGC 3 cut(s) 397, 424, 826
BsnI GGCC 4 cut(s) 460, 468, 488, 1122
Bso31I GGTCTC 1 cut(s) 1202
Bsp119I TTCGAA 1 cut(s) 511
Bsp1286I GDGCHC 1 cut(s) 781
Bsp143I GATC 5 cut(s) 82, 157, 274, 931, 1263
BspACI CCGC 1 cut(s) 370
BspANI GGCC 4 cut(s) 460, 468, 488, 1122
BspCNI CTCAG 2 cut(s) 766, 1012
BspPI GGATC 1 cut(s) 1258
BspQI GCTCTTC 1 cut(s) 297
BspT104I TTCGAA 1 cut(s) 511
BspTNI GGTCTC 1 cut(s) 1202
BsrDI GCAATG 1 cut(s) 132
BsrI ACTGG 4 cut(s) 46, 235, 330, 913
BssECI CCNNGG 1 cut(s) 1081
BssMI GATC 5 cut(s) 82, 157, 274, 931, 1263
BssSI CACGAG 1 cut(s) 66
Bst2BI CACGAG 1 cut(s) 66
Bst4CI ACNGT 2 cut(s) 508, 658
Bst6I CTCTTC 1 cut(s) 297
BstBI TTCGAA 1 cut(s) 511
BstC8I GCNNGC 1 cut(s) 1284
BstDEI CTNAG 2 cut(s) 753, 1020
BstENI CCTNNNNNAGG 1 cut(s) 348
BstF5I GGATG 3 cut(s) 24, 1003, 1327
BstHHI GCGC 1 cut(s) 6
BstKTI GATC 5 cut(s) 85, 160, 277, 934, 1266
BstMAI GTCTC 5 cut(s) 618, 885, 1016, 1150, 1202
BstMBI GATC 5 cut(s) 82, 157, 274, 931, 1263
BstMWI GCNNNNNNNGC 1 cut(s) 1198
BstNSI RCATGY 2 cut(s) 613, 651
BstSFI CTRYAG 3 cut(s) 213, 348, 462
BstV1I GCAGC 1 cut(s) 911
BstV2I GAAGAC 1 cut(s) 245
BstXI CCANNNNNNTGG 1 cut(s) 860
BsuRI GGCC 4 cut(s) 460, 468, 488, 1122
BtrI CACGTC 2 cut(s) 251, 565
BtsCI GGATG 3 cut(s) 24, 1003, 1327
Cac8I GCNNGC 1 cut(s) 1284
CfoI GCGC 1 cut(s) 6
Cfr13I GGNCC 3 cut(s) 353, 467, 1121
Csp6I GTAC 2 cut(s) 207, 949
CspCI CAANNNNNGTGG 2 cut(s) 1093, 1128
CviAII CATG 6 cut(s) 90, 165, 518, 610, 648, 1306
CviQI GTAC 2 cut(s) 207, 949
DdeI CTNAG 2 cut(s) 753, 1020
DpnI GATC 5 cut(s) 84, 159, 276, 933, 1265
DpnII GATC 5 cut(s) 82, 157, 274, 931, 1263
EaeI YGGCCR 1 cut(s) 486
Eam1104I CTCTTC 1 cut(s) 297
EarI CTCTTC 1 cut(s) 297
Eco147I AGGCCT 1 cut(s) 460
Eco31I GGTCTC 1 cut(s) 1202
Eco47I GGWCC 1 cut(s) 353
Eco57I CTGAAG 3 cut(s) 99, 239, 321
EcoNI CCTNNNNNAGG 1 cut(s) 348
FaeI CATG 6 cut(s) 93, 168, 521, 613, 651, 1309
FalI AAGNNNNNCTT 2 cut(s) 1185, 1217
FaqI GGGAC 2 cut(s) 986, 1240
FatI CATG 6 cut(s) 89, 164, 517, 609, 647, 1305
FauI CCCGC 1 cut(s) 363
FauNDI CATATG 1 cut(s) 472
FbaI TGATCA 3 cut(s) 82, 157, 274
Fnu4HI GCNGC 1 cut(s) 900
FokI GGATG 3 cut(s) 11, 1010, 1314
Fsp4HI GCNGC 1 cut(s) 900
FspBI CTAG 3 cut(s) 789, 1125, 1320
GlaI GCGC 1 cut(s) 5
GluI GCNGC 1 cut(s) 900
GsaI CCCAGC 1 cut(s) 864
GsuI CTGGAG 2 cut(s) 252, 930
HaeIII GGCC 4 cut(s) 460, 468, 488, 1122
HhaI GCGC 1 cut(s) 6
Hin1II CATG 6 cut(s) 93, 168, 521, 613, 651, 1309
Hin6I GCGC 1 cut(s) 4
HinP1I GCGC 1 cut(s) 4
HinfI GANTC 8 cut(s) 189, 234, 550, 751, 805, 1086, 1143, 1228
HphI GGTGA 3 cut(s) 842, 875, 1273
Hpy166II GTNNAC 3 cut(s) 59, 134, 248
Hpy188I TCNGA 9 cut(s) 239, 441, 555, 654, 804, 814, 1047, 1085, 1174
Hpy188III TCNNGA 6 cut(s) 338, 628, 748, 755, 1140, 1205
Hpy8I GTNNAC 3 cut(s) 59, 134, 248
Hpy99I CGWCG 1 cut(s) 1159
HpyCH4III ACNGT 2 cut(s) 508, 658
HpyCH4IV ACGT 2 cut(s) 250, 564
HpyF10VI GCNNNNNNNGC 1 cut(s) 1198
HpyF3I CTNAG 2 cut(s) 753, 1020
HpySE526I ACGT 2 cut(s) 250, 564
Hsp92II CATG 6 cut(s) 93, 168, 521, 613, 651, 1309
HspAI GCGC 1 cut(s) 4
Ksp22I TGATCA 3 cut(s) 82, 157, 274
Kzo9I GATC 5 cut(s) 82, 157, 274, 931, 1263
LguI GCTCTTC 1 cut(s) 297
LmnI GCTCC 2 cut(s) 980, 1279
Lsp1109I GCAGC 1 cut(s) 911
LweI GCATC 4 cut(s) 268, 906, 1002, 1237
MaeI CTAG 3 cut(s) 789, 1125, 1320
MaeII ACGT 2 cut(s) 250, 564
MaeIII GTNAC 2 cut(s) 292, 433
MalI GATC 5 cut(s) 84, 159, 276, 933, 1265
MboI GATC 5 cut(s) 82, 157, 274, 931, 1263
MboII GAAGA 8 cut(s) 194, 245, 314, 556, 559, 697, 770, 829
MfeI CAATTG 3 cut(s) 413, 723, 927
MhlI GDGCHC 1 cut(s) 781
MlsI TGGCCA 1 cut(s) 488
MluNI TGGCCA 1 cut(s) 488
MlyI GAGTC 6 cut(s) 183, 243, 745, 1095, 1152, 1222
MmeI TCCRAC 1 cut(s) 380
MnlI CCTC 8 cut(s) 354, 377, 709, 1091, 1140, 1252, 1270, 1291
Mox20I TGGCCA 1 cut(s) 488
MroXI GAANNNNTTC 3 cut(s) 244, 798, 1200
MscI TGGCCA 1 cut(s) 488
MseI TTAA 2 cut(s) 579, 1008
MslI CAYNNNNRTG 2 cut(s) 608, 741
Msp20I TGGCCA 1 cut(s) 488
MunI CAATTG 3 cut(s) 413, 723, 927
Mva1269I GAATGC 3 cut(s) 397, 424, 826
MwoI GCNNNNNNNGC 1 cut(s) 1198
NdeI CATATG 1 cut(s) 472
NdeII GATC 5 cut(s) 82, 157, 274, 931, 1263
NlaIII CATG 6 cut(s) 93, 168, 521, 613, 651, 1309
NmuCI GTSAC 1 cut(s) 433
NspI RCATGY 2 cut(s) 613, 651
NspV TTCGAA 1 cut(s) 511
PceI AGGCCT 1 cut(s) 460
PciI ACATGT 2 cut(s) 609, 647
PciSI GCTCTTC 1 cut(s) 297
PctI GAATGC 3 cut(s) 397, 424, 826
PdmI GAANNNNTTC 3 cut(s) 244, 798, 1200
PfeI GAWTC 2 cut(s) 550, 805
PflMI CCANNNNNTGG 1 cut(s) 1273
PkrI GCNGC 1 cut(s) 901
PleI GAGTC 6 cut(s) 183, 242, 745, 1094, 1151, 1222
PpsI GAGTC 6 cut(s) 183, 242, 745, 1094, 1151, 1222
PscI ACATGT 2 cut(s) 609, 647
PsiI TTATAA 1 cut(s) 678
PspFI CCCAGC 1 cut(s) 860
PspPI GGNCC 3 cut(s) 353, 467, 1121
RsaI GTAC 2 cut(s) 208, 950
RsaNI GTAC 2 cut(s) 207, 949
RseI CAYNNNNRTG 2 cut(s) 608, 741
SapI GCTCTTC 1 cut(s) 297
SaqAI TTAA 2 cut(s) 579, 1008
SatI GCNGC 1 cut(s) 900
Sau3AI GATC 5 cut(s) 82, 157, 274, 931, 1263
Sau96I GGNCC 3 cut(s) 353, 467, 1121
SchI GAGTC 6 cut(s) 183, 243, 745, 1095, 1152, 1222
SduI GDGCHC 1 cut(s) 781
SfaNI GCATC 4 cut(s) 268, 906, 1002, 1237
SfcI CTRYAG 3 cut(s) 213, 348, 462
SfuI TTCGAA 1 cut(s) 511
SinI GGWCC 1 cut(s) 353
SmiMI CAYNNNNRTG 2 cut(s) 608, 741
SseBI AGGCCT 1 cut(s) 460
SsiI CCGC 1 cut(s) 370
SspMI CTAG 3 cut(s) 789, 1125, 1320
StuI AGGCCT 1 cut(s) 460
TaaI ACNGT 2 cut(s) 508, 658
TaiI ACGT 2 cut(s) 253, 567
TaqI TCGA 4 cut(s) 511, 627, 714, 1157
TatI WGTACW 1 cut(s) 948
TfiI GAWTC 2 cut(s) 550, 805
Tru1I TTAA 2 cut(s) 579, 1008
Tru9I TTAA 2 cut(s) 579, 1008
TseFI GTSAC 1 cut(s) 433
TseI GCWGC 1 cut(s) 899
Tsp45I GTSAC 1 cut(s) 433
TspDTI ATGAA 5 cut(s) 507, 1014, 1077, 1179, 1294
TspGWI ACGGA 1 cut(s) 1320
Van91I CCANNNNNTGG 1 cut(s) 1273
VpaK11BI GGWCC 1 cut(s) 353
XagI CCTNNNNNAGG 1 cut(s) 348
XapI RAATTY 2 cut(s) 701, 1065
XceI RCATGY 2 cut(s) 613, 651
XmnI GAANNNNTTC 3 cut(s) 244, 798, 1200
XspI CTAG 3 cut(s) 789, 1125, 1320
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.