Rroxscaffold_158G00443750

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000158
OG0000224
Physical Location & Seq
Forward (+)
96123 .. 98352
2230 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_158G00443750.1

Sequence Viewer

Length: 975 bp
ATGCGCCGTTCCAATGTGTCTAACATCCAAAAGCCTACTACTGGTAATGCACCGAGTAAACGCTCTCGTGTGCAAACTACCGATCAGCCATGCTCAAATGGATCTCATTCTACTTCAGGTAGTGCAATGAGTAAACGCTCTCGTGTGCAAACTACTAATCAGTCATGCGAAAATTATGTAGAAGATGGACTCAATTCTGCTATTGGTACAACTACAGAACGAACTACTACCGTTCGAAACCATGCCCCACTAAATGTGGAAAAATGGAAGAAGATTCCGAAAATTGAAGTGGATAAGTTGGTTAAAAGAATAACGTTGAAGAAACATTTTGAGAAATTTTCAACAATCGAGGAAGCAATTGAAAACAAACACGATGATGTCAAGACTCGGGAAGAATGGGAGTTTCCCTGTGCTCGTTTTTCTAGTGAAAAGTTTCAGATTCGTTCAGAGAAGAATGCTATAAATAGGTCAAAGTTGACACATCACCACAAAGCTGGGTCAAAGTCATTTATGTCTCACCAAGAGCAAATTGCAGCACAGACTGGAGAGATGCAAGGTGCAATTGATCGCTTTGAAACAGAGTACAAAAGCACTAAAAAAGGTTGGGACTTGGGAGCAAAAGCAAAGTGGGATGAAATGATTAAGATGCGAAACGAGACAACTCAACCTGATGGAACTCGGACAATGACGGACGATGAAATTTGTGCAAAAGTCCTCGGAGTCAAATCAGGATACATTAAGGGTTGTGGTTTTGGCCCTAGACCTCCACCATCAAGGGTCTCTCATTCGTCGATAAATGAAATGTCTGAAAAGAACAAAGAGTTGCAAGAACAGCTTCAAGAGACCCAACACCTTGTAGGGACTCAACAACAAAAGATTGATGCGCAAAATGAGGTGATCCAAAGATTGGAGGAGCAAGCCAAAAAGTTTGAGGAGTTCATGGCTAACTTTTCCAGGCAACATCCATCAAGTTAG
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

324

Amino Acids

36.9

Weight (kDa)

9.28

Isoelectric Point (pI)

52.17

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transposase_24 PF03004 140 - 252 7.2e-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)
Acc16I TGCGCA 1 cut(s) 885
AccB7I CCANNNNNTGG 1 cut(s) 907
AclI AACGTT 1 cut(s) 314
AclWI GGATC 2 cut(s) 109, 892
AcsI RAATTY 2 cut(s) 335, 699
AcuI CTGAAG 1 cut(s) 99
AfaI GTAC 2 cut(s) 208, 584
AfiI CCNNNNNNNGG 2 cut(s) 41, 907
AgsI TTSAA 6 cut(s) 287, 319, 342, 362, 575, 839
AjnI CCWGG 1 cut(s) 953
AluBI AGCT 2 cut(s) 494, 835
AluI AGCT 2 cut(s) 494, 835
Alw21I GWGCWC 1 cut(s) 415
Alw26I GTCTC 4 cut(s) 519, 650, 784, 836
AlwI GGATC 2 cut(s) 109, 892
Ama87I CYCGRG 1 cut(s) 387
AoxI GGCC 1 cut(s) 754
ApeKI GCWGC 1 cut(s) 533
ApoI RAATTY 2 cut(s) 335, 699
Asp700I GAANNNNTTC 2 cut(s) 432, 834
AspLEI GCGC 2 cut(s) 6, 886
AspS9I GGNCC 1 cut(s) 755
AsuHPI GGTGA 3 cut(s) 476, 509, 907
AsuII TTCGAA 1 cut(s) 235
AvaI CYCGRG 1 cut(s) 387
BauI CACGAG 2 cut(s) 66, 141
Bbv12I GWGCWC 1 cut(s) 415
BbvI GCAGC 1 cut(s) 545
BccI CCATC 4 cut(s) 179, 665, 778, 973
BciT130I CCWGG 1 cut(s) 955
BciVI GTATCC 1 cut(s) 725
BcoDI GTCTC 4 cut(s) 519, 650, 784, 836
BfaI CTAG 2 cut(s) 423, 759
BfmI CTRYAG 1 cut(s) 213
BfuI GTATCC 1 cut(s) 725
BisI GCNGC 1 cut(s) 534
BlsI GCNGC 1 cut(s) 535
Bme1390I CCNGG 1 cut(s) 955
BmeT110I CYCGRG 1 cut(s) 387
BmgT120I GGNCC 1 cut(s) 755
BmrFI CCNGG 1 cut(s) 955
BmsI GCATC 3 cut(s) 540, 636, 871
BpmI CTGGAG 1 cut(s) 564
Bpu14I TTCGAA 1 cut(s) 235
BsaI GGTCTC 2 cut(s) 784, 836
BsaJI CCNNGG 1 cut(s) 715
Bsc4I CCNNNNNNNGG 2 cut(s) 41, 907
Bse1I ACTGG 2 cut(s) 46, 547
Bse3DI GCAATG 1 cut(s) 132
BseBI CCWGG 1 cut(s) 955
BseDI CCNNGG 1 cut(s) 715
BseGI GGATG 3 cut(s) 24, 637, 961
BseLI CCNNNNNNNGG 2 cut(s) 41, 907
BseMI GCAATG 1 cut(s) 132
BseNI ACTGG 2 cut(s) 46, 547
BseRI GAGGAG 2 cut(s) 926, 947
BseXI GCAGC 1 cut(s) 545
BseYI CCCAGC 1 cut(s) 494
BshFI GGCC 1 cut(s) 756
BsiHKAI GWGCWC 1 cut(s) 415
BsiHKCI CYCGRG 1 cut(s) 387
BslFI GGGAC 2 cut(s) 620, 874
BslI CCNNNNNNNGG 2 cut(s) 41, 907
BsmAI GTCTC 4 cut(s) 519, 650, 784, 836
BsmFI GGGAC 2 cut(s) 620, 874
BsmI GAATGC 1 cut(s) 460
BsnI GGCC 1 cut(s) 756
Bso31I GGTCTC 2 cut(s) 784, 836
BsoBI CYCGRG 1 cut(s) 387
Bsp119I TTCGAA 1 cut(s) 235
Bsp1286I GDGCHC 1 cut(s) 415
Bsp143I GATC 4 cut(s) 82, 101, 565, 897
BspANI GGCC 1 cut(s) 756
BspPI GGATC 2 cut(s) 109, 892
BspT104I TTCGAA 1 cut(s) 235
BspTNI GGTCTC 2 cut(s) 784, 836
BsrDI GCAATG 1 cut(s) 132
BsrI ACTGG 2 cut(s) 46, 547
BssECI CCNNGG 1 cut(s) 715
BssMI GATC 4 cut(s) 82, 101, 565, 897
BssSI CACGAG 2 cut(s) 66, 141
Bst2BI CACGAG 2 cut(s) 66, 141
Bst2UI CCWGG 1 cut(s) 955
Bst4CI ACNGT 1 cut(s) 232
BstBI TTCGAA 1 cut(s) 235
BstC8I GCNNGC 1 cut(s) 918
BstF5I GGATG 3 cut(s) 24, 637, 961
BstHHI GCGC 2 cut(s) 6, 886
BstKTI GATC 4 cut(s) 85, 104, 568, 900
BstMAI GTCTC 4 cut(s) 519, 650, 784, 836
BstMBI GATC 4 cut(s) 82, 101, 565, 897
BstMWI GCNNNNNNNGC 1 cut(s) 832
BstNI CCWGG 1 cut(s) 955
BstSCI CCNGG 1 cut(s) 953
BstSFI CTRYAG 1 cut(s) 213
BstV1I GCAGC 1 cut(s) 545
BstX2I RGATCY 1 cut(s) 101
BstXI CCANNNNNNTGG 1 cut(s) 494
BstYI RGATCY 1 cut(s) 101
BsuI GTATCC 1 cut(s) 725
BsuRI GGCC 1 cut(s) 756
BtsCI GGATG 3 cut(s) 24, 637, 961
Cac8I GCNNGC 1 cut(s) 918
CfoI GCGC 2 cut(s) 6, 886
Cfr13I GGNCC 1 cut(s) 755
Csp6I GTAC 2 cut(s) 207, 583
CviAII CATG 4 cut(s) 90, 165, 242, 940
CviJI RGCY 7 cut(s) 34, 88, 494, 756, 835, 920, 944
CviKI_1 RGCY 7 cut(s) 34, 88, 494, 756, 835, 920, 944
CviQI GTAC 2 cut(s) 207, 583
DpnI GATC 4 cut(s) 84, 103, 567, 899
DpnII GATC 4 cut(s) 82, 101, 565, 897
Eco31I GGTCTC 2 cut(s) 784, 836
Eco57I CTGAAG 1 cut(s) 99
Eco88I CYCGRG 1 cut(s) 387
EcoRII CCWGG 1 cut(s) 953
FaeI CATG 4 cut(s) 93, 168, 245, 943
FaiI YATR 7 cut(s) 91, 166, 177, 243, 461, 512, 941
FalI AAGNNNNNCTT 2 cut(s) 819, 851
FaqI GGGAC 2 cut(s) 620, 874
FatI CATG 4 cut(s) 89, 164, 241, 939
Fnu4HI GCNGC 1 cut(s) 534
FokI GGATG 3 cut(s) 11, 644, 948
Fsp4HI GCNGC 1 cut(s) 534
FspBI CTAG 2 cut(s) 423, 759
FspI TGCGCA 1 cut(s) 885
GlaI GCGC 2 cut(s) 5, 885
GluI GCNGC 1 cut(s) 534
GsaI CCCAGC 1 cut(s) 498
GsuI CTGGAG 1 cut(s) 564
HaeIII GGCC 1 cut(s) 756
HhaI GCGC 2 cut(s) 6, 886
Hin1II CATG 4 cut(s) 93, 168, 245, 943
Hin6I GCGC 2 cut(s) 4, 884
HinP1I GCGC 2 cut(s) 4, 884
HincII GTYRAC 1 cut(s) 477
HindII GTYRAC 1 cut(s) 477
HinfI GANTC 6 cut(s) 189, 274, 385, 439, 720, 862
HphI GGTGA 3 cut(s) 476, 509, 907
Hpy166II GTNNAC 3 cut(s) 59, 134, 477
Hpy188I TCNGA 6 cut(s) 279, 438, 448, 681, 719, 808
Hpy188III TCNNGA 4 cut(s) 382, 389, 729, 839
Hpy8I GTNNAC 3 cut(s) 59, 134, 477
Hpy99I CGWCG 1 cut(s) 793
HpyCH4III ACNGT 1 cut(s) 232
HpyCH4IV ACGT 1 cut(s) 314
HpyCH4V TGCA 9 cut(s) 50, 73, 125, 148, 533, 553, 560, 707, 826
HpyF10VI GCNNNNNNNGC 1 cut(s) 832
HpySE526I ACGT 1 cut(s) 314
Hsp92II CATG 4 cut(s) 93, 168, 245, 943
HspAI GCGC 2 cut(s) 4, 884
Kzo9I GATC 4 cut(s) 82, 101, 565, 897
LmnI GCTCC 2 cut(s) 614, 913
LpnPI CCDG 9 cut(s) 27, 102, 421, 480, 528, 681, 714, 940, 967
Lsp1109I GCAGC 1 cut(s) 545
LweI GCATC 3 cut(s) 540, 636, 871
MaeI CTAG 2 cut(s) 423, 759
MaeII ACGT 1 cut(s) 314
MalI GATC 4 cut(s) 84, 103, 567, 899
MboI GATC 4 cut(s) 82, 101, 565, 897
MboII GAAGA 6 cut(s) 194, 280, 283, 331, 404, 463
MfeI CAATTG 2 cut(s) 357, 561
MflI RGATCY 1 cut(s) 101
MhlI GDGCHC 1 cut(s) 415
MluCI AATT 8 cut(s) 172, 193, 282, 335, 357, 528, 561, 699
MlyI GAGTC 4 cut(s) 183, 379, 729, 856
MnlI CCTC 6 cut(s) 343, 725, 774, 886, 904, 925
MroXI GAANNNNTTC 2 cut(s) 432, 834
MseI TTAA 3 cut(s) 303, 642, 738
MslI CAYNNNNRTG 1 cut(s) 375
MspR9I CCNGG 1 cut(s) 955
MunI CAATTG 2 cut(s) 357, 561
Mva1269I GAATGC 1 cut(s) 460
MvaI CCWGG 1 cut(s) 955
MwoI GCNNNNNNNGC 1 cut(s) 832
NdeII GATC 4 cut(s) 82, 101, 565, 897
NlaIII CATG 4 cut(s) 93, 168, 245, 943
NsbI TGCGCA 1 cut(s) 885
NspV TTCGAA 1 cut(s) 235
PctI GAATGC 1 cut(s) 460
PdmI GAANNNNTTC 2 cut(s) 432, 834
PfeI GAWTC 2 cut(s) 274, 439
PflMI CCANNNNNTGG 1 cut(s) 907
PkrI GCNGC 1 cut(s) 535
PleI GAGTC 4 cut(s) 183, 379, 728, 856
PpsI GAGTC 4 cut(s) 183, 379, 728, 856
Psp1406I AACGTT 1 cut(s) 314
Psp6I CCWGG 1 cut(s) 953
PspFI CCCAGC 1 cut(s) 494
PspGI CCWGG 1 cut(s) 953
PspPI GGNCC 1 cut(s) 755
PsuI RGATCY 1 cut(s) 101
RsaI GTAC 2 cut(s) 208, 584
RsaNI GTAC 2 cut(s) 207, 583
RseI CAYNNNNRTG 1 cut(s) 375
SaqAI TTAA 3 cut(s) 303, 642, 738
SatI GCNGC 1 cut(s) 534
Sau3AI GATC 4 cut(s) 82, 101, 565, 897
Sau96I GGNCC 1 cut(s) 755
SchI GAGTC 4 cut(s) 183, 379, 729, 856
ScrFI CCNGG 1 cut(s) 955
SduI GDGCHC 1 cut(s) 415
SfaNI GCATC 3 cut(s) 540, 636, 871
SfcI CTRYAG 1 cut(s) 213
SfuI TTCGAA 1 cut(s) 235
SmiMI CAYNNNNRTG 1 cut(s) 375
Sse9I AATT 8 cut(s) 172, 193, 282, 335, 357, 528, 561, 699
SspMI CTAG 2 cut(s) 423, 759
StyD4I CCNGG 1 cut(s) 953
TaaI ACNGT 1 cut(s) 232
TaiI ACGT 1 cut(s) 317
TaqI TCGA 3 cut(s) 235, 348, 791
TasI AATT 8 cut(s) 172, 193, 282, 335, 357, 528, 561, 699
TatI WGTACW 1 cut(s) 582
TfiI GAWTC 2 cut(s) 274, 439
Tru1I TTAA 3 cut(s) 303, 642, 738
Tru9I TTAA 3 cut(s) 303, 642, 738
TseI GCWGC 1 cut(s) 533
TspDTI ATGAA 4 cut(s) 648, 711, 813, 928
TspGWI ACGGA 1 cut(s) 704
Van91I CCANNNNNTGG 1 cut(s) 907
XapI RAATTY 2 cut(s) 335, 699
XmnI GAANNNNTTC 2 cut(s) 432, 834
XspI CTAG 2 cut(s) 423, 759
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.