Rroxscaffold_2G00142590

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000224
Physical Location & Seq
Forward (+)
80708412 .. 80710360
1949 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00142590.1

Sequence Viewer

Length: 813 bp
ATGCGCCGTTCCAATGTGTCTAACATCCAAAAGCCTACTACTGGTAATGCACCGAGTAAACGCTCTCGTGTGCAAACTACTGATCAGCCATGCTCAAATGGATCTCATTCTACTTCAGGTAGTGCAATGAGTAAACGCTCTCGTGTGCAAACTACTAATCAGTCATGCGAAAATTATGTAGAAGATGGACTCAATTCTGCTATTGGTACAACTACGAACGAACTACTACTGCATCAAACTGCTAATGATCAGCTATTGATAAATGTTACAACTGAAGAGCAAAATGATAATGTGATGTCAGCCAGTAATCAAGACCCTCCTATAGGTCCAACAAAAAAGGTGCGGGGAAAGACAAGAGGAGTGAATGCAGATAAGGTGCTTTCTCAATTGAATGCTAAAATACTTGTCACTCTGACCGAACAAAATGGTAGGCCTACAGGCCCATATTCTGAAATGTTGGCCAATGAAATTGGTTTCACAGTTCGAAACCATGCCCCACTAAATGTGGAAAAATGGAAGAAGATTCCGAAAATTGAAGTGGATAAGTTGGTTAAAAGAATAACGATTCGTTCAGAGAAGAATGCTATAAATAGGTCAAAGTTGACACATCACCACAAAGCTGGGTCAAAGTCATTTATGTCTCACCAAGAGCAAATTGCAGCACAGACTGGAGAGATGCAAGGTGCAATTGATCGCTTTGAAACAGAGTACAAAAGCACTAAAAAAGGTTGGGACTTGGGAGCAAAAGCAAAGTGGGATGAAATGATTAAGATGCGAACCGAGACAACTCAACTGATGGAACTCGGACAATGA
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

270

Amino Acids

30.03

Weight (kDa)

9.65

Isoelectric Point (pI)

42.09

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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)
AciI CCGC 1 cut(s) 343
AclWI GGATC 1 cut(s) 109
AcoI YGGCCR 1 cut(s) 459
AcuI CTGAAG 2 cut(s) 99, 294
AfaI GTAC 2 cut(s) 208, 710
AfiI CCNNNNNNNGG 2 cut(s) 41, 323
AgsI TTSAA 3 cut(s) 391, 536, 701
AluBI AGCT 2 cut(s) 253, 620
AluI AGCT 2 cut(s) 253, 620
Alw26I GTCTC 2 cut(s) 645, 776
AlwI GGATC 1 cut(s) 109
AoxI GGCC 3 cut(s) 431, 439, 459
ApeKI GCWGC 1 cut(s) 659
AspLEI GCGC 1 cut(s) 6
AspS9I GGNCC 2 cut(s) 326, 440
AsuHPI GGTGA 2 cut(s) 602, 635
AsuII TTCGAA 1 cut(s) 484
AvaII GGWCC 1 cut(s) 326
BalI TGGCCA 1 cut(s) 461
BauI CACGAG 2 cut(s) 66, 141
BbvI GCAGC 1 cut(s) 671
BccI CCATC 2 cut(s) 179, 790
BclI TGATCA 2 cut(s) 82, 247
BcoDI GTCTC 2 cut(s) 645, 776
BfmI CTRYAG 2 cut(s) 321, 435
BisI GCNGC 1 cut(s) 660
BlsI GCNGC 1 cut(s) 661
Bme18I GGWCC 1 cut(s) 326
BmgT120I GGNCC 2 cut(s) 326, 440
BmsI GCATC 3 cut(s) 241, 666, 762
BpmI CTGGAG 1 cut(s) 690
Bpu14I TTCGAA 1 cut(s) 484
Bsc4I CCNNNNNNNGG 2 cut(s) 41, 323
Bse1I ACTGG 3 cut(s) 46, 303, 673
Bse3DI GCAATG 1 cut(s) 132
BseGI GGATG 2 cut(s) 24, 763
BseLI CCNNNNNNNGG 2 cut(s) 41, 323
BseMI GCAATG 1 cut(s) 132
BseNI ACTGG 3 cut(s) 46, 303, 673
BseRI GAGGAG 1 cut(s) 372
BseXI GCAGC 1 cut(s) 671
BseYI CCCAGC 1 cut(s) 620
BshFI GGCC 3 cut(s) 433, 441, 461
BslFI GGGAC 1 cut(s) 746
BslI CCNNNNNNNGG 2 cut(s) 41, 323
BsmAI GTCTC 2 cut(s) 645, 776
BsmFI GGGAC 1 cut(s) 746
BsmI GAATGC 3 cut(s) 370, 397, 586
BsnI GGCC 3 cut(s) 433, 441, 461
Bsp119I TTCGAA 1 cut(s) 484
Bsp143I GATC 4 cut(s) 82, 101, 247, 691
BspACI CCGC 1 cut(s) 343
BspANI GGCC 3 cut(s) 433, 441, 461
BspPI GGATC 1 cut(s) 109
BspQI GCTCTTC 1 cut(s) 270
BspT104I TTCGAA 1 cut(s) 484
BsrDI GCAATG 1 cut(s) 132
BsrI ACTGG 3 cut(s) 46, 303, 673
BssMI GATC 4 cut(s) 82, 101, 247, 691
BssSI CACGAG 2 cut(s) 66, 141
Bst2BI CACGAG 2 cut(s) 66, 141
Bst4CI ACNGT 1 cut(s) 481
Bst6I CTCTTC 1 cut(s) 270
BstBI TTCGAA 1 cut(s) 484
BstENI CCTNNNNNAGG 1 cut(s) 321
BstF5I GGATG 2 cut(s) 24, 763
BstHHI GCGC 1 cut(s) 6
BstKTI GATC 4 cut(s) 85, 104, 250, 694
BstMAI GTCTC 2 cut(s) 645, 776
BstMBI GATC 4 cut(s) 82, 101, 247, 691
BstSFI CTRYAG 2 cut(s) 321, 435
BstV1I GCAGC 1 cut(s) 671
BstX2I RGATCY 1 cut(s) 101
BstXI CCANNNNNNTGG 1 cut(s) 620
BstYI RGATCY 1 cut(s) 101
BsuRI GGCC 3 cut(s) 433, 441, 461
BtsCI GGATG 2 cut(s) 24, 763
CfoI GCGC 1 cut(s) 6
Cfr13I GGNCC 2 cut(s) 326, 440
Csp6I GTAC 2 cut(s) 207, 709
CviAII CATG 3 cut(s) 90, 165, 491
CviJI RGCY 8 cut(s) 34, 88, 253, 302, 433, 441, 461, 620
CviKI_1 RGCY 8 cut(s) 34, 88, 253, 302, 433, 441, 461, 620
CviQI GTAC 2 cut(s) 207, 709
DpnI GATC 4 cut(s) 84, 103, 249, 693
DpnII GATC 4 cut(s) 82, 101, 247, 691
EaeI YGGCCR 1 cut(s) 459
Eam1104I CTCTTC 1 cut(s) 270
EarI CTCTTC 1 cut(s) 270
Eco147I AGGCCT 1 cut(s) 433
Eco47I GGWCC 1 cut(s) 326
Eco57I CTGAAG 2 cut(s) 99, 294
EcoNI CCTNNNNNAGG 1 cut(s) 321
FaeI CATG 3 cut(s) 93, 168, 494
FaiI YATR 8 cut(s) 91, 166, 177, 323, 445, 492, 587, 638
FaqI GGGAC 1 cut(s) 746
FatI CATG 3 cut(s) 89, 164, 490
FauI CCCGC 1 cut(s) 336
FbaI TGATCA 2 cut(s) 82, 247
Fnu4HI GCNGC 1 cut(s) 660
FokI GGATG 2 cut(s) 11, 770
Fsp4HI GCNGC 1 cut(s) 660
GlaI GCGC 1 cut(s) 5
GluI GCNGC 1 cut(s) 660
GsaI CCCAGC 1 cut(s) 624
GsuI CTGGAG 1 cut(s) 690
HaeIII GGCC 3 cut(s) 433, 441, 461
HhaI GCGC 1 cut(s) 6
Hin1II CATG 3 cut(s) 93, 168, 494
Hin6I GCGC 1 cut(s) 4
HinP1I GCGC 1 cut(s) 4
HincII GTYRAC 1 cut(s) 603
HindII GTYRAC 1 cut(s) 603
HinfI GANTC 3 cut(s) 189, 523, 565
HphI GGTGA 2 cut(s) 602, 635
Hpy166II GTNNAC 3 cut(s) 59, 134, 603
Hpy188I TCNGA 5 cut(s) 414, 451, 528, 574, 806
Hpy188III TCNNGA 1 cut(s) 311
Hpy8I GTNNAC 3 cut(s) 59, 134, 603
HpyCH4III ACNGT 1 cut(s) 481
HpyCH4V TGCA 9 cut(s) 50, 73, 125, 148, 232, 368, 659, 679, 686
Hsp92II CATG 3 cut(s) 93, 168, 494
HspAI GCGC 1 cut(s) 4
Ksp22I TGATCA 2 cut(s) 82, 247
Kzo9I GATC 4 cut(s) 82, 101, 247, 691
LguI GCTCTTC 1 cut(s) 270
LmnI GCTCC 1 cut(s) 740
LpnPI CCDG 6 cut(s) 27, 102, 316, 423, 606, 654
Lsp1109I GCAGC 1 cut(s) 671
LweI GCATC 3 cut(s) 241, 666, 762
MaeIII GTNAC 2 cut(s) 265, 406
MalI GATC 4 cut(s) 84, 103, 249, 693
MboI GATC 4 cut(s) 82, 101, 247, 691
MboII GAAGA 5 cut(s) 194, 287, 529, 532, 589
MfeI CAATTG 2 cut(s) 386, 687
MflI RGATCY 1 cut(s) 101
MlsI TGGCCA 1 cut(s) 461
MluCI AATT 7 cut(s) 172, 193, 386, 468, 531, 654, 687
MluNI TGGCCA 1 cut(s) 461
MlyI GAGTC 1 cut(s) 183
MmeI TCCRAC 1 cut(s) 353
MnlI CCTC 2 cut(s) 327, 350
Mox20I TGGCCA 1 cut(s) 461
MscI TGGCCA 1 cut(s) 461
MseI TTAA 2 cut(s) 552, 768
Msp20I TGGCCA 1 cut(s) 461
MunI CAATTG 2 cut(s) 386, 687
Mva1269I GAATGC 3 cut(s) 370, 397, 586
NdeII GATC 4 cut(s) 82, 101, 247, 691
NlaIII CATG 3 cut(s) 93, 168, 494
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, 586
PfeI GAWTC 2 cut(s) 523, 565
PkrI GCNGC 1 cut(s) 661
PleI GAGTC 1 cut(s) 183
PpsI GAGTC 1 cut(s) 183
PspFI CCCAGC 1 cut(s) 620
PspPI GGNCC 2 cut(s) 326, 440
PsuI RGATCY 1 cut(s) 101
RsaI GTAC 2 cut(s) 208, 710
RsaNI GTAC 2 cut(s) 207, 709
SapI GCTCTTC 1 cut(s) 270
SaqAI TTAA 2 cut(s) 552, 768
SatI GCNGC 1 cut(s) 660
Sau3AI GATC 4 cut(s) 82, 101, 247, 691
Sau96I GGNCC 2 cut(s) 326, 440
SchI GAGTC 1 cut(s) 183
SetI ASST 9 cut(s) 121, 255, 328, 342, 378, 596, 622, 685, 730
SfaNI GCATC 3 cut(s) 241, 666, 762
SfcI CTRYAG 2 cut(s) 321, 435
SfuI TTCGAA 1 cut(s) 484
SinI GGWCC 1 cut(s) 326
Sse9I AATT 7 cut(s) 172, 193, 386, 468, 531, 654, 687
SseBI AGGCCT 1 cut(s) 433
SsiI CCGC 1 cut(s) 343
StuI AGGCCT 1 cut(s) 433
TaaI ACNGT 1 cut(s) 481
TaqI TCGA 1 cut(s) 484
TaqII GACCGA 1 cut(s) 431
TasI AATT 7 cut(s) 172, 193, 386, 468, 531, 654, 687
TatI WGTACW 1 cut(s) 708
TfiI GAWTC 2 cut(s) 523, 565
Tru1I TTAA 2 cut(s) 552, 768
Tru9I TTAA 2 cut(s) 552, 768
TseFI GTSAC 1 cut(s) 406
TseI GCWGC 1 cut(s) 659
Tsp45I GTSAC 1 cut(s) 406
TspDTI ATGAA 2 cut(s) 480, 774
VpaK11BI GGWCC 1 cut(s) 326
XagI CCTNNNNNAGG 1 cut(s) 321
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.