RchiOBHm_Chr4g0410891

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
4
OG0000224
Physical Location & Seq
Reverse (-)
34671791 .. 34672894
1104 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ38178

Sequence Viewer

Length: 732 bp
ATGTCTCTCCTTTGGGTCGAGAGATATGTAATTACAACATGTCAGACTGTATTTTGTAATTTTCGTTATAAGTTGAAGAAACATTTTGAGAAATTTTCAACAATCGAGGAAGCAATTGAAAACAAACACGATGATGTCAAGACTCAGGAAGAATGGGAGTTTCTCTGTGCTCGTTTTTCTAGTGAAAAGTTTCAGATTCGTTCAGAGAAGAATGCTATAAATAGGTCAAAGCTGACACATCACCACAAAGCTGGGTCAAAGTCATTTATGTCTCACCAAGAGCAAATTGCAACACAGACTGGAGAGATGCAAGGTGCAATTGATCGCTTTGAAACAGAGTACAAAAGCACTAAAAAAGGTTGGGACTTGGGAGCAAAAGCAAAGTGGGATGAAATGATTAAGATGCGAACTGAGACAACTCAACCTGATGGAACTCGGACAATGACAGATGATGAAATTTGTGCAAAAGTCCTCGGAGTCAAATCAGGCTACATCAAGGGTTGTGGTTTTGGCCCTAGACCTCCACCATCAAGAGTCTCTCATTCGTCGATAAATGAAATGTCTGAAAAGAACAAAGAGTTGCAAGAACAGCTTCAAGAGACCCAACACCTTGTAGGGACTCAACAACAAAAGATTGATGCACAAAATGAGGTGATCCAAAGATTGGAGGAGCAAGCCAAAAAGTTTGAGGAGTTCATGGCTAACTTTTCTAGGCAACATCCATCAAGTTAG
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

243

Amino Acids

28.28

Weight (kDa)

7.68

Isoelectric Point (pI)

45.28

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transposase_24 PF03004 50 - 172 1.7e-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) 69
AccB7I CCANNNNNTGG 1 cut(s) 664
AclWI GGATC 1 cut(s) 649
AcsI RAATTY 2 cut(s) 92, 456
AfaI GTAC 1 cut(s) 341
AfiI CCNNNNNNNGG 1 cut(s) 664
AflIII ACRYGT 1 cut(s) 38
AgsI TTSAA 5 cut(s) 76, 99, 119, 332, 596
AluBI AGCT 3 cut(s) 232, 251, 592
AluI AGCT 3 cut(s) 232, 251, 592
Alw21I GWGCWC 1 cut(s) 172
Alw26I GTCTC 5 cut(s) 9, 276, 407, 541, 593
AlwI GGATC 1 cut(s) 649
AoxI GGCC 1 cut(s) 511
ApoI RAATTY 2 cut(s) 92, 456
Asp700I GAANNNNTTC 2 cut(s) 189, 591
AspS9I GGNCC 1 cut(s) 512
AsuHPI GGTGA 3 cut(s) 233, 266, 664
Bbv12I GWGCWC 1 cut(s) 172
BccI CCATC 3 cut(s) 422, 535, 730
BcoDI GTCTC 5 cut(s) 9, 276, 407, 541, 593
BfaI CTAG 3 cut(s) 180, 516, 711
BmgT120I GGNCC 1 cut(s) 512
BmsI GCATC 3 cut(s) 297, 393, 628
BpmI CTGGAG 1 cut(s) 321
BsaI GGTCTC 1 cut(s) 593
BsaJI CCNNGG 1 cut(s) 472
Bsc4I CCNNNNNNNGG 1 cut(s) 664
Bse1I ACTGG 1 cut(s) 304
BseDI CCNNGG 1 cut(s) 472
BseGI GGATG 2 cut(s) 394, 718
BseLI CCNNNNNNNGG 1 cut(s) 664
BseMII CTCAG 2 cut(s) 158, 402
BseNI ACTGG 1 cut(s) 304
BseRI GAGGAG 2 cut(s) 683, 704
BseYI CCCAGC 1 cut(s) 251
BshFI GGCC 1 cut(s) 513
BsiHKAI GWGCWC 1 cut(s) 172
BslFI GGGAC 2 cut(s) 377, 631
BslI CCNNNNNNNGG 1 cut(s) 664
BsmAI GTCTC 5 cut(s) 9, 276, 407, 541, 593
BsmFI GGGAC 2 cut(s) 377, 631
BsmI GAATGC 1 cut(s) 217
BsnI GGCC 1 cut(s) 513
Bso31I GGTCTC 1 cut(s) 593
Bsp1286I GDGCHC 1 cut(s) 172
Bsp143I GATC 2 cut(s) 322, 654
BspANI GGCC 1 cut(s) 513
BspCNI CTCAG 2 cut(s) 157, 403
BspPI GGATC 1 cut(s) 649
BspTNI GGTCTC 1 cut(s) 593
BsrI ACTGG 1 cut(s) 304
BssECI CCNNGG 1 cut(s) 472
BssMI GATC 2 cut(s) 322, 654
Bst4CI ACNGT 1 cut(s) 49
BstC8I GCNNGC 1 cut(s) 675
BstDEI CTNAG 2 cut(s) 144, 411
BstF5I GGATG 2 cut(s) 394, 718
BstKTI GATC 2 cut(s) 325, 657
BstMAI GTCTC 5 cut(s) 9, 276, 407, 541, 593
BstMBI GATC 2 cut(s) 322, 654
BstMWI GCNNNNNNNGC 1 cut(s) 589
BstNSI RCATGY 1 cut(s) 42
BstXI CCANNNNNNTGG 1 cut(s) 251
BsuRI GGCC 1 cut(s) 513
BtsCI GGATG 2 cut(s) 394, 718
Cac8I GCNNGC 1 cut(s) 675
Cfr13I GGNCC 1 cut(s) 512
Csp6I GTAC 1 cut(s) 340
CspCI CAANNNNNGTGG 2 cut(s) 484, 519
CviAII CATG 2 cut(s) 39, 697
CviJI RGCY 7 cut(s) 232, 251, 489, 513, 592, 677, 701
CviKI_1 RGCY 7 cut(s) 232, 251, 489, 513, 592, 677, 701
CviQI GTAC 1 cut(s) 340
DdeI CTNAG 2 cut(s) 144, 411
DpnI GATC 2 cut(s) 324, 656
DpnII GATC 2 cut(s) 322, 654
Eco31I GGTCTC 1 cut(s) 593
FaeI CATG 2 cut(s) 42, 700
FaiI YATR 6 cut(s) 27, 40, 69, 218, 269, 698
FalI AAGNNNNNCTT 2 cut(s) 576, 608
FaqI GGGAC 2 cut(s) 377, 631
FatI CATG 2 cut(s) 38, 696
FokI GGATG 2 cut(s) 401, 705
FspBI CTAG 3 cut(s) 180, 516, 711
GsaI CCCAGC 1 cut(s) 255
GsuI CTGGAG 1 cut(s) 321
HaeIII GGCC 1 cut(s) 513
Hin1II CATG 2 cut(s) 42, 700
HinfI GANTC 5 cut(s) 142, 196, 477, 534, 619
HphI GGTGA 3 cut(s) 233, 266, 664
Hpy188I TCNGA 6 cut(s) 45, 195, 205, 438, 476, 565
Hpy188III TCNNGA 5 cut(s) 19, 139, 146, 531, 596
Hpy99I CGWCG 1 cut(s) 550
HpyCH4III ACNGT 1 cut(s) 49
HpyCH4V TGCA 6 cut(s) 290, 310, 317, 464, 583, 641
HpyF10VI GCNNNNNNNGC 1 cut(s) 589
HpyF3I CTNAG 2 cut(s) 144, 411
Hsp92II CATG 2 cut(s) 42, 700
Kzo9I GATC 2 cut(s) 322, 654
LmnI GCTCC 2 cut(s) 371, 670
LpnPI CCDG 5 cut(s) 131, 237, 285, 438, 471
LweI GCATC 3 cut(s) 297, 393, 628
MaeI CTAG 3 cut(s) 180, 516, 711
MalI GATC 2 cut(s) 324, 656
MboI GATC 2 cut(s) 322, 654
MboII GAAGA 3 cut(s) 88, 161, 220
MfeI CAATTG 2 cut(s) 114, 318
MhlI GDGCHC 1 cut(s) 172
MluCI AATT 7 cut(s) 30, 58, 92, 114, 285, 318, 456
MlyI GAGTC 4 cut(s) 136, 486, 543, 613
MnlI CCTC 6 cut(s) 100, 482, 531, 643, 661, 682
MroXI GAANNNNTTC 2 cut(s) 189, 591
MseI TTAA 1 cut(s) 399
MslI CAYNNNNRTG 1 cut(s) 132
MunI CAATTG 2 cut(s) 114, 318
Mva1269I GAATGC 1 cut(s) 217
MwoI GCNNNNNNNGC 1 cut(s) 589
NdeII GATC 2 cut(s) 322, 654
NlaIII CATG 2 cut(s) 42, 700
NspI RCATGY 1 cut(s) 42
PciI ACATGT 1 cut(s) 38
PctI GAATGC 1 cut(s) 217
PdmI GAANNNNTTC 2 cut(s) 189, 591
PfeI GAWTC 1 cut(s) 196
PflMI CCANNNNNTGG 1 cut(s) 664
PleI GAGTC 4 cut(s) 136, 485, 542, 613
PpsI GAGTC 4 cut(s) 136, 485, 542, 613
PscI ACATGT 1 cut(s) 38
PsiI TTATAA 1 cut(s) 69
PspFI CCCAGC 1 cut(s) 251
PspPI GGNCC 1 cut(s) 512
RsaI GTAC 1 cut(s) 341
RsaNI GTAC 1 cut(s) 340
RseI CAYNNNNRTG 1 cut(s) 132
SaqAI TTAA 1 cut(s) 399
Sau3AI GATC 2 cut(s) 322, 654
Sau96I GGNCC 1 cut(s) 512
SchI GAGTC 4 cut(s) 136, 486, 543, 613
SduI GDGCHC 1 cut(s) 172
SfaNI GCATC 3 cut(s) 297, 393, 628
SmiMI CAYNNNNRTG 1 cut(s) 132
Sse9I AATT 7 cut(s) 30, 58, 92, 114, 285, 318, 456
SspMI CTAG 3 cut(s) 180, 516, 711
TaaI ACNGT 1 cut(s) 49
TaqI TCGA 3 cut(s) 18, 105, 548
TasI AATT 7 cut(s) 30, 58, 92, 114, 285, 318, 456
TatI WGTACW 1 cut(s) 339
TfiI GAWTC 1 cut(s) 196
Tru1I TTAA 1 cut(s) 399
Tru9I TTAA 1 cut(s) 399
TspDTI ATGAA 4 cut(s) 405, 468, 570, 685
Van91I CCANNNNNTGG 1 cut(s) 664
XapI RAATTY 2 cut(s) 92, 456
XceI RCATGY 1 cut(s) 42
XmnI GAANNNNTTC 2 cut(s) 189, 591
XspI CTAG 3 cut(s) 180, 516, 711
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.