Rroxscaffold_8G00436880

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000008
OG0000224
Physical Location & Seq
Forward (+)
163071 .. 165521
2451 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_8G00436880.1

Sequence Viewer

Length: 1224 bp
ATGCGCCGTTCCAATGTGTCTAACATCCAAAAGCCTACTACTGGTAATGCACCGAGTAAACGCTCTCGTGTGCAAACTACTGATCAGCCATGCCCAAATGGATCCTGTTCTACTTCAGGTAGTGCAATGAGTAAACGCTATCGTGTGCAAACTACTGATCAGCCATGCAAAAATTATGTAGAAGATGGACTCAATTCTGCTATTGGGGTCAGAATTAGTTCACGTCTTCAGCATCAAACTGCTAATGATCAGCTATTGATAAATGTTACAACTGAAGAGCAAAATGATAATGTGATGTCAGCCAGTAATCAAGACCCTCCTACAGGTCCAACAAAAAAGGAGTGGGGAAAGACAAGAGGAGTGAATGCAGATAAAGTGCTTTCTCAATTGAATGCTAAAATACCTGTCACTCTGACTGAACAAAATGGTAGGCCTACAGGCCCATATGCTGAAATGTTGGCCAATGAAATTGGTTTCACAGTTCGAAACCATGCCCCACTAAATGTGGAAAAATGGAAGAAGATTCCGAAAATTGAAGTGGATAAGTTGGTTAAAAGAATAACGTTGAAGAAACATTTTGAAAAGTTTTCAACAACCGAGGAAGCAATTGAAAACAAACACGATGATGTCAAGACTCGTGAAGAATGGGAGTTTCTCTGTGCTCGTTTTTCTAGTGAAAAGTTTCAGATTCGTTCAGAGAAGAATGCTATAAATAGGTCAAAGCTGACACATCACCACAAAGCTGGGTCAAAGTCATTTATGTCTCACCAAGAGCAAATTGCAGCACAGACTGGAGAGATGCAAGGTGCAATTGATCGCTTTGAAATAGAGTACAAAAGCACTAAAAAAGGTTGGGACTTGGGAGCAAAAGCAAAGTGGGATGAAATGATTAAGATGCGAACTGAGACAACTCAACTTGATGGAACTCGGACAATGACAGATGATGAAATTTGTGCAAAAGTCCTCGGAGTCAAATCAGGCTACATCAAGGGTTGTGGTTTTGGCCCTAAACCTCCACCATCAAGAGTCTCTCATTCGTCGATAAATGAAATGTCTGAAAAGAACAAAGAGTTGCAAGAACAGCTTCAAGAGACCCAACACCTTGTAGGGACTCAACAACAAAAGATTGATGCACAAAATGAGGTGATCCAAAGATTGGAGGAGCAAGCCAAAAAGTTTGAGGAGTTCATGGCTAACTTTTCTAGGCAACATCCATCAAGTTAG
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

407

Amino Acids

46.02

Weight (kDa)

9.14

Isoelectric Point (pI)

46.59

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transposase_24 PF03004 215 - 334 9.1e-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)
AccB7I CCANNNNNTGG 1 cut(s) 1156
AclI AACGTT 1 cut(s) 563
AclWI GGATC 3 cut(s) 96, 109, 1141
AcoI YGGCCR 1 cut(s) 459
AcsI RAATTY 1 cut(s) 948
AcuI CTGAAG 3 cut(s) 99, 212, 294
AfaI GTAC 1 cut(s) 833
AfiI CCNNNNNNNGG 3 cut(s) 41, 323, 1156
AgsI TTSAA 8 cut(s) 391, 536, 568, 581, 591, 611, 824, 1088
AjiI CACGTC 1 cut(s) 224
AluBI AGCT 4 cut(s) 253, 724, 743, 1084
AluI AGCT 4 cut(s) 253, 724, 743, 1084
Alw21I GWGCWC 1 cut(s) 664
Alw26I GTCTC 4 cut(s) 768, 899, 1033, 1085
AlwI GGATC 3 cut(s) 96, 109, 1141
AoxI GGCC 4 cut(s) 431, 439, 459, 1003
ApeKI GCWGC 1 cut(s) 782
ApoI RAATTY 1 cut(s) 948
Asp700I GAANNNNTTC 3 cut(s) 217, 681, 1083
AspLEI GCGC 1 cut(s) 6
AspS9I GGNCC 3 cut(s) 326, 440, 1004
AsuHPI GGTGA 3 cut(s) 725, 758, 1156
AsuII TTCGAA 1 cut(s) 484
AvaII GGWCC 1 cut(s) 326
BalI TGGCCA 1 cut(s) 461
BamHI GGATCC 1 cut(s) 101
BauI CACGAG 2 cut(s) 66, 636
BbsI GAAGAC 1 cut(s) 218
Bbv12I GWGCWC 1 cut(s) 664
BbvI GCAGC 1 cut(s) 794
BccI CCATC 4 cut(s) 179, 914, 1027, 1222
BclI TGATCA 3 cut(s) 82, 157, 247
BcoDI GTCTC 4 cut(s) 768, 899, 1033, 1085
BfaI CTAG 2 cut(s) 672, 1203
BfmI CTRYAG 2 cut(s) 321, 435
BisI GCNGC 1 cut(s) 783
BlsI GCNGC 1 cut(s) 784
Bme18I GGWCC 1 cut(s) 326
BmgBI CACGTC 1 cut(s) 224
BmgT120I GGNCC 3 cut(s) 326, 440, 1004
BmiI GGNNCC 1 cut(s) 103
BmsI GCATC 4 cut(s) 241, 789, 885, 1120
BpiI GAAGAC 1 cut(s) 218
BpmI CTGGAG 1 cut(s) 813
Bpu14I TTCGAA 1 cut(s) 484
BsaI GGTCTC 1 cut(s) 1085
BsaJI CCNNGG 2 cut(s) 597, 964
Bsc4I CCNNNNNNNGG 3 cut(s) 41, 323, 1156
Bse1I ACTGG 3 cut(s) 46, 303, 796
Bse3DI GCAATG 1 cut(s) 132
BseDI CCNNGG 2 cut(s) 597, 964
BseGI GGATG 3 cut(s) 24, 886, 1210
BseLI CCNNNNNNNGG 3 cut(s) 41, 323, 1156
BseMI GCAATG 1 cut(s) 132
BseMII CTCAG 1 cut(s) 894
BseNI ACTGG 3 cut(s) 46, 303, 796
BseRI GAGGAG 3 cut(s) 372, 1175, 1196
BseXI GCAGC 1 cut(s) 794
BseYI CCCAGC 1 cut(s) 743
BshFI GGCC 4 cut(s) 433, 441, 461, 1005
BsiHKAI GWGCWC 1 cut(s) 664
BslFI GGGAC 2 cut(s) 869, 1123
BslI CCNNNNNNNGG 3 cut(s) 41, 323, 1156
BsmAI GTCTC 4 cut(s) 768, 899, 1033, 1085
BsmFI GGGAC 2 cut(s) 869, 1123
BsmI GAATGC 3 cut(s) 370, 397, 709
BsnI GGCC 4 cut(s) 433, 441, 461, 1005
Bso31I GGTCTC 1 cut(s) 1085
Bsp119I TTCGAA 1 cut(s) 484
Bsp1286I GDGCHC 1 cut(s) 664
Bsp143I GATC 6 cut(s) 82, 101, 157, 247, 814, 1146
BspANI GGCC 4 cut(s) 433, 441, 461, 1005
BspCNI CTCAG 1 cut(s) 895
BspLI GGNNCC 1 cut(s) 103
BspPI GGATC 3 cut(s) 96, 109, 1141
BspQI GCTCTTC 1 cut(s) 270
BspT104I TTCGAA 1 cut(s) 484
BspTNI GGTCTC 1 cut(s) 1085
BsrDI GCAATG 1 cut(s) 132
BsrI ACTGG 3 cut(s) 46, 303, 796
BssECI CCNNGG 2 cut(s) 597, 964
BssMI GATC 6 cut(s) 82, 101, 157, 247, 814, 1146
BssSI CACGAG 2 cut(s) 66, 636
Bst2BI CACGAG 2 cut(s) 66, 636
Bst4CI ACNGT 1 cut(s) 481
Bst6I CTCTTC 1 cut(s) 270
BstBI TTCGAA 1 cut(s) 484
BstC8I GCNNGC 1 cut(s) 1167
BstDEI CTNAG 1 cut(s) 903
BstENI CCTNNNNNAGG 1 cut(s) 321
BstF5I GGATG 3 cut(s) 24, 886, 1210
BstHHI GCGC 1 cut(s) 6
BstKTI GATC 6 cut(s) 85, 104, 160, 250, 817, 1149
BstMAI GTCTC 4 cut(s) 768, 899, 1033, 1085
BstMBI GATC 6 cut(s) 82, 101, 157, 247, 814, 1146
BstMWI GCNNNNNNNGC 1 cut(s) 1081
BstSFI CTRYAG 2 cut(s) 321, 435
BstV1I GCAGC 1 cut(s) 794
BstV2I GAAGAC 1 cut(s) 218
BstX2I RGATCY 1 cut(s) 101
BstXI CCANNNNNNTGG 1 cut(s) 743
BstYI RGATCY 1 cut(s) 101
BsuRI GGCC 4 cut(s) 433, 441, 461, 1005
BtrI CACGTC 1 cut(s) 224
BtsCI GGATG 3 cut(s) 24, 886, 1210
Cac8I GCNNGC 1 cut(s) 1167
CfoI GCGC 1 cut(s) 6
Cfr13I GGNCC 3 cut(s) 326, 440, 1004
Csp6I GTAC 1 cut(s) 832
CspCI CAANNNNNGTGG 2 cut(s) 976, 1011
CviAII CATG 4 cut(s) 90, 165, 491, 1189
CviQI GTAC 1 cut(s) 832
DdeI CTNAG 1 cut(s) 903
DpnI GATC 6 cut(s) 84, 103, 159, 249, 816, 1148
DpnII GATC 6 cut(s) 82, 101, 157, 247, 814, 1146
EaeI YGGCCR 1 cut(s) 459
Eam1104I CTCTTC 1 cut(s) 270
EarI CTCTTC 1 cut(s) 270
Eco147I AGGCCT 1 cut(s) 433
Eco31I GGTCTC 1 cut(s) 1085
Eco47I GGWCC 1 cut(s) 326
Eco57I CTGAAG 3 cut(s) 99, 212, 294
EcoNI CCTNNNNNAGG 1 cut(s) 321
FaeI CATG 4 cut(s) 93, 168, 494, 1192
FaiI YATR 9 cut(s) 91, 166, 177, 445, 447, 492, 710, 761, 1190
FalI AAGNNNNNCTT 2 cut(s) 1068, 1100
FaqI GGGAC 2 cut(s) 869, 1123
FatI CATG 4 cut(s) 89, 164, 490, 1188
FauNDI CATATG 1 cut(s) 445
FbaI TGATCA 3 cut(s) 82, 157, 247
Fnu4HI GCNGC 1 cut(s) 783
FokI GGATG 3 cut(s) 11, 893, 1197
Fsp4HI GCNGC 1 cut(s) 783
FspBI CTAG 2 cut(s) 672, 1203
GlaI GCGC 1 cut(s) 5
GluI GCNGC 1 cut(s) 783
GsaI CCCAGC 1 cut(s) 747
GsuI CTGGAG 1 cut(s) 813
HaeIII GGCC 4 cut(s) 433, 441, 461, 1005
HhaI GCGC 1 cut(s) 6
Hin1II CATG 4 cut(s) 93, 168, 494, 1192
Hin6I GCGC 1 cut(s) 4
HinP1I GCGC 1 cut(s) 4
HinfI GANTC 7 cut(s) 189, 523, 634, 688, 969, 1026, 1111
HphI GGTGA 3 cut(s) 725, 758, 1156
Hpy166II GTNNAC 3 cut(s) 59, 134, 221
Hpy188I TCNGA 8 cut(s) 212, 414, 528, 687, 697, 930, 968, 1057
Hpy188III TCNNGA 5 cut(s) 311, 631, 638, 1023, 1088
Hpy8I GTNNAC 3 cut(s) 59, 134, 221
Hpy99I CGWCG 1 cut(s) 1042
HpyCH4III ACNGT 1 cut(s) 481
HpyCH4IV ACGT 2 cut(s) 223, 563
HpyF10VI GCNNNNNNNGC 1 cut(s) 1081
HpyF3I CTNAG 1 cut(s) 903
HpySE526I ACGT 2 cut(s) 223, 563
Hsp92II CATG 4 cut(s) 93, 168, 494, 1192
HspAI GCGC 1 cut(s) 4
Ksp22I TGATCA 3 cut(s) 82, 157, 247
Kzo9I GATC 6 cut(s) 82, 101, 157, 247, 814, 1146
LguI GCTCTTC 1 cut(s) 270
LmnI GCTCC 2 cut(s) 863, 1162
Lsp1109I GCAGC 1 cut(s) 794
LweI GCATC 4 cut(s) 241, 789, 885, 1120
MaeI CTAG 2 cut(s) 672, 1203
MaeII ACGT 2 cut(s) 223, 563
MaeIII GTNAC 2 cut(s) 265, 406
MalI GATC 6 cut(s) 84, 103, 159, 249, 816, 1148
MboI GATC 6 cut(s) 82, 101, 157, 247, 814, 1146
MboII GAAGA 8 cut(s) 194, 218, 287, 529, 532, 580, 653, 712
MfeI CAATTG 3 cut(s) 386, 606, 810
MflI RGATCY 1 cut(s) 101
MhlI GDGCHC 1 cut(s) 664
MlsI TGGCCA 1 cut(s) 461
MluNI TGGCCA 1 cut(s) 461
MlyI GAGTC 5 cut(s) 183, 628, 978, 1035, 1105
MmeI TCCRAC 1 cut(s) 353
MnlI CCTC 8 cut(s) 327, 350, 592, 974, 1023, 1135, 1153, 1174
Mox20I TGGCCA 1 cut(s) 461
MroXI GAANNNNTTC 3 cut(s) 217, 681, 1083
MscI TGGCCA 1 cut(s) 461
MseI TTAA 2 cut(s) 552, 891
MslI CAYNNNNRTG 1 cut(s) 624
Msp20I TGGCCA 1 cut(s) 461
MunI CAATTG 3 cut(s) 386, 606, 810
Mva1269I GAATGC 3 cut(s) 370, 397, 709
MwoI GCNNNNNNNGC 1 cut(s) 1081
NdeI CATATG 1 cut(s) 445
NdeII GATC 6 cut(s) 82, 101, 157, 247, 814, 1146
NlaIII CATG 4 cut(s) 93, 168, 494, 1192
NlaIV GGNNCC 1 cut(s) 103
NmuCI GTSAC 1 cut(s) 406
NspV TTCGAA 1 cut(s) 484
PceI AGGCCT 1 cut(s) 433
PciSI GCTCTTC 1 cut(s) 270
PctI GAATGC 3 cut(s) 370, 397, 709
PdmI GAANNNNTTC 3 cut(s) 217, 681, 1083
PfeI GAWTC 2 cut(s) 523, 688
PflMI CCANNNNNTGG 1 cut(s) 1156
PkrI GCNGC 1 cut(s) 784
PleI GAGTC 5 cut(s) 183, 628, 977, 1034, 1105
PpsI GAGTC 5 cut(s) 183, 628, 977, 1034, 1105
Psp1406I AACGTT 1 cut(s) 563
PspFI CCCAGC 1 cut(s) 743
PspN4I GGNNCC 1 cut(s) 103
PspPI GGNCC 3 cut(s) 326, 440, 1004
PsuI RGATCY 1 cut(s) 101
RsaI GTAC 1 cut(s) 833
RsaNI GTAC 1 cut(s) 832
RseI CAYNNNNRTG 1 cut(s) 624
SapI GCTCTTC 1 cut(s) 270
SaqAI TTAA 2 cut(s) 552, 891
SatI GCNGC 1 cut(s) 783
Sau3AI GATC 6 cut(s) 82, 101, 157, 247, 814, 1146
Sau96I GGNCC 3 cut(s) 326, 440, 1004
SchI GAGTC 5 cut(s) 183, 628, 978, 1035, 1105
SduI GDGCHC 1 cut(s) 664
SfaNI GCATC 4 cut(s) 241, 789, 885, 1120
SfcI CTRYAG 2 cut(s) 321, 435
SfuI TTCGAA 1 cut(s) 484
SinI GGWCC 1 cut(s) 326
SmiMI CAYNNNNRTG 1 cut(s) 624
SseBI AGGCCT 1 cut(s) 433
SspMI CTAG 2 cut(s) 672, 1203
StuI AGGCCT 1 cut(s) 433
TaaI ACNGT 1 cut(s) 481
TaiI ACGT 2 cut(s) 226, 566
TaqI TCGA 2 cut(s) 484, 1040
TatI WGTACW 1 cut(s) 831
TfiI GAWTC 2 cut(s) 523, 688
Tru1I TTAA 2 cut(s) 552, 891
Tru9I TTAA 2 cut(s) 552, 891
TseFI GTSAC 1 cut(s) 406
TseI GCWGC 1 cut(s) 782
Tsp45I GTSAC 1 cut(s) 406
TspDTI ATGAA 5 cut(s) 480, 897, 960, 1062, 1177
Van91I CCANNNNNTGG 1 cut(s) 1156
VpaK11BI GGWCC 1 cut(s) 326
XagI CCTNNNNNAGG 1 cut(s) 321
XapI RAATTY 1 cut(s) 948
XmnI GAANNNNTTC 3 cut(s) 217, 681, 1083
XspI CTAG 2 cut(s) 672, 1203
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.