Rroxscaffold_5G00336320

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000224
Physical Location & Seq
Reverse (-)
4122809 .. 4124903
2095 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00336320.1

Sequence Viewer

Length: 843 bp
ATGCCCAAATGGATCCCGTTCTACTTCGAGGTAGTGCAAATGAGTAAACGCTCTCGTGTGCAAACTACGATTAGCCATGCGAAAATTCTGGGTCGAATTAGTTCACGTCTTCAGCATCAACCTGCTAATGATCAGCTATTGATAAATGTTACAACTGAAGAGCAAAATGATAATGTGATGTCAGCCAGTAATCAAGACCCTCCTACAGGCCCATATACTGAAATGTTGGCCAATGAAATTGGTTTCATAGTTCGAAACCATGCCCCACTAAATGTGGAGAAATGGAAGAAGATTCCGAAAATTGAAGTGGATAAGTTGGTTAAAAGAATAACGTTGAAGAAACATTTTGAGAAATTTTCAACAATCGAGGAAGCAATTGAAAACAAACAAGATGATGTCAAGACTCGGGAAGAATGGGAGTTTCTATGTACTCGTTTTTCTGGTGAAAAGTTTCAGGCAGCACAGACTGGAAAGATGCAAGGTGCAATTGATCGCTTTGAAACAGAGTACAAAAGCACTAAAAAAGGTTGGGACTTGGGAGCAAAAGCAAAGTGGGTAAATGATGAAATTTGTGCAAAAGTCCTCGGAGTCAAATCAGGCTATATCAAGGGTTGTGGTTTTGGTCCTAGACCTCCACCATCAAGAGTCTCTCATTCGTCGATAAATGAAATGTCTAAAAAGAACAAAGTGTTACAAGAACAGCTTCAAGAGACCCAACACCTTGTAGGGACTCAACAACAAAAGATGGATGCACAAAATGAGGTGATCCAAAGATTGGAGGAGCAAGCCAAAAAGTTTGAGGAGTTCATGGCTAACTTTTCCAGGCAACATCCATCAAGTTAG
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

280

Amino Acids

32.24

Weight (kDa)

9.15

Isoelectric Point (pI)

53.92

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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
Acc36I ACCTGC 1 cut(s) 130
AccB7I CCANNNNNTGG 1 cut(s) 775
AclI AACGTT 1 cut(s) 332
AclWI GGATC 3 cut(s) 7, 20, 760
AcoI YGGCCR 1 cut(s) 228
AcsI RAATTY 3 cut(s) 84, 353, 567
AcuI CTGAAG 2 cut(s) 95, 177
AfaI GTAC 2 cut(s) 430, 509
AfiI CCNNNNNNNGG 2 cut(s) 206, 775
AgsI TTSAA 6 cut(s) 305, 337, 360, 380, 500, 707
AjiI CACGTC 1 cut(s) 107
AjnI CCWGG 1 cut(s) 821
AluBI AGCT 2 cut(s) 136, 703
AluI AGCT 2 cut(s) 136, 703
Alw26I GTCTC 2 cut(s) 652, 704
AlwI GGATC 3 cut(s) 7, 20, 760
Ama87I CYCGRG 1 cut(s) 405
AoxI GGCC 2 cut(s) 208, 228
ApeKI GCWGC 1 cut(s) 458
ApoI RAATTY 3 cut(s) 84, 353, 567
Asp700I GAANNNNTTC 3 cut(s) 100, 450, 702
AspS9I GGNCC 2 cut(s) 209, 623
AsuHPI GGTGA 2 cut(s) 455, 775
AsuII TTCGAA 1 cut(s) 253
AvaI CYCGRG 1 cut(s) 405
AvaII GGWCC 1 cut(s) 623
BalI TGGCCA 1 cut(s) 230
BamHI GGATCC 1 cut(s) 12
BauI CACGAG 1 cut(s) 54
BbsI GAAGAC 1 cut(s) 101
BbvI GCAGC 1 cut(s) 470
BccI CCATC 3 cut(s) 646, 739, 841
BciT130I CCWGG 1 cut(s) 823
BclI TGATCA 1 cut(s) 130
BcoDI GTCTC 2 cut(s) 652, 704
BfaI CTAG 1 cut(s) 627
BfmI CTRYAG 1 cut(s) 204
BfuAI ACCTGC 1 cut(s) 130
BisI GCNGC 1 cut(s) 459
BlsI GCNGC 1 cut(s) 460
Bme1390I CCNGG 1 cut(s) 823
Bme18I GGWCC 1 cut(s) 623
BmeT110I CYCGRG 1 cut(s) 405
BmgBI CACGTC 1 cut(s) 107
BmgT120I GGNCC 2 cut(s) 209, 623
BmiI GGNNCC 1 cut(s) 14
BmrFI CCNGG 1 cut(s) 823
BmsI GCATC 3 cut(s) 124, 465, 739
BpiI GAAGAC 1 cut(s) 101
Bpu14I TTCGAA 1 cut(s) 253
BsaI GGTCTC 1 cut(s) 704
BsaJI CCNNGG 1 cut(s) 583
Bsc4I CCNNNNNNNGG 2 cut(s) 206, 775
Bse1I ACTGG 2 cut(s) 186, 472
BseBI CCWGG 1 cut(s) 823
BseDI CCNNGG 1 cut(s) 583
BseGI GGATG 2 cut(s) 754, 829
BseLI CCNNNNNNNGG 2 cut(s) 206, 775
BseNI ACTGG 2 cut(s) 186, 472
BseRI GAGGAG 2 cut(s) 794, 815
BseXI GCAGC 1 cut(s) 470
BshFI GGCC 2 cut(s) 210, 230
BsiHKCI CYCGRG 1 cut(s) 405
BslFI GGGAC 2 cut(s) 545, 742
BslI CCNNNNNNNGG 2 cut(s) 206, 775
BsmAI GTCTC 2 cut(s) 652, 704
BsmFI GGGAC 2 cut(s) 545, 742
BsnI GGCC 2 cut(s) 210, 230
Bso31I GGTCTC 1 cut(s) 704
BsoBI CYCGRG 1 cut(s) 405
Bsp119I TTCGAA 1 cut(s) 253
Bsp143I GATC 4 cut(s) 12, 130, 490, 765
BspANI GGCC 2 cut(s) 210, 230
BspLI GGNNCC 1 cut(s) 14
BspMI ACCTGC 1 cut(s) 130
BspPI GGATC 3 cut(s) 7, 20, 760
BspQI GCTCTTC 1 cut(s) 153
BspT104I TTCGAA 1 cut(s) 253
BspTNI GGTCTC 1 cut(s) 704
BsrI ACTGG 2 cut(s) 186, 472
BssECI CCNNGG 1 cut(s) 583
BssMI GATC 4 cut(s) 12, 130, 490, 765
BssSI CACGAG 1 cut(s) 54
Bst2BI CACGAG 1 cut(s) 54
Bst2UI CCWGG 1 cut(s) 823
Bst6I CTCTTC 1 cut(s) 153
BstBI TTCGAA 1 cut(s) 253
BstC8I GCNNGC 1 cut(s) 786
BstENI CCTNNNNNAGG 1 cut(s) 204
BstF5I GGATG 2 cut(s) 754, 829
BstKTI GATC 4 cut(s) 15, 133, 493, 768
BstMAI GTCTC 2 cut(s) 652, 704
BstMBI GATC 4 cut(s) 12, 130, 490, 765
BstNI CCWGG 1 cut(s) 823
BstSCI CCNGG 1 cut(s) 821
BstSFI CTRYAG 1 cut(s) 204
BstV1I GCAGC 1 cut(s) 470
BstV2I GAAGAC 1 cut(s) 101
BstX2I RGATCY 1 cut(s) 12
BstYI RGATCY 1 cut(s) 12
BsuRI GGCC 2 cut(s) 210, 230
BtrI CACGTC 1 cut(s) 107
BtsCI GGATG 2 cut(s) 754, 829
BveI ACCTGC 1 cut(s) 130
Cac8I GCNNGC 1 cut(s) 786
Cfr13I GGNCC 2 cut(s) 209, 623
Csp6I GTAC 2 cut(s) 429, 508
CspCI CAANNNNNGTGG 2 cut(s) 595, 630
CviAII CATG 3 cut(s) 77, 260, 808
CviJI RGCY 9 cut(s) 75, 136, 185, 210, 230, 600, 703, 788, 812
CviKI_1 RGCY 9 cut(s) 75, 136, 185, 210, 230, 600, 703, 788, 812
CviQI GTAC 2 cut(s) 429, 508
DpnI GATC 4 cut(s) 14, 132, 492, 767
DpnII GATC 4 cut(s) 12, 130, 490, 765
EaeI YGGCCR 1 cut(s) 228
Eam1104I CTCTTC 1 cut(s) 153
EarI CTCTTC 1 cut(s) 153
Eco31I GGTCTC 1 cut(s) 704
Eco47I GGWCC 1 cut(s) 623
Eco57I CTGAAG 2 cut(s) 95, 177
Eco88I CYCGRG 1 cut(s) 405
EcoNI CCTNNNNNAGG 1 cut(s) 204
EcoRII CCWGG 1 cut(s) 821
FaeI CATG 3 cut(s) 80, 263, 811
FaiI YATR 8 cut(s) 78, 214, 216, 248, 261, 427, 603, 809
FalI AAGNNNNNCTT 2 cut(s) 687, 719
FaqI GGGAC 2 cut(s) 545, 742
FatI CATG 3 cut(s) 76, 259, 807
FbaI TGATCA 1 cut(s) 130
Fnu4HI GCNGC 1 cut(s) 459
FokI GGATG 2 cut(s) 761, 816
Fsp4HI GCNGC 1 cut(s) 459
FspBI CTAG 1 cut(s) 627
GluI GCNGC 1 cut(s) 459
HaeIII GGCC 2 cut(s) 210, 230
Hin1II CATG 3 cut(s) 80, 263, 811
HinfI GANTC 5 cut(s) 292, 403, 588, 645, 730
HphI GGTGA 2 cut(s) 455, 775
Hpy166II GTNNAC 2 cut(s) 47, 104
Hpy188I TCNGA 2 cut(s) 297, 587
Hpy188III TCNNGA 5 cut(s) 194, 400, 407, 642, 707
Hpy8I GTNNAC 2 cut(s) 47, 104
Hpy99I CGWCG 1 cut(s) 661
HpyCH4IV ACGT 2 cut(s) 106, 332
HpyCH4V TGCA 6 cut(s) 37, 61, 478, 485, 575, 752
HpySE526I ACGT 2 cut(s) 106, 332
Hsp92II CATG 3 cut(s) 80, 263, 811
Ksp22I TGATCA 1 cut(s) 130
Kzo9I GATC 4 cut(s) 12, 130, 490, 765
LguI GCTCTTC 1 cut(s) 153
LmnI GCTCC 2 cut(s) 539, 781
Lsp1109I GCAGC 1 cut(s) 470
LweI GCATC 3 cut(s) 124, 465, 739
MaeI CTAG 1 cut(s) 627
MaeII ACGT 2 cut(s) 106, 332
MaeIII GTNAC 2 cut(s) 148, 690
MalI GATC 4 cut(s) 14, 132, 492, 767
MboI GATC 4 cut(s) 12, 130, 490, 765
MboII GAAGA 6 cut(s) 101, 170, 298, 301, 349, 422
MfeI CAATTG 2 cut(s) 375, 486
MflI RGATCY 1 cut(s) 12
MlsI TGGCCA 1 cut(s) 230
MluCI AATT 8 cut(s) 84, 96, 237, 300, 353, 375, 486, 567
MluNI TGGCCA 1 cut(s) 230
MlyI GAGTC 4 cut(s) 397, 597, 654, 724
MnlI CCTC 8 cut(s) 22, 210, 361, 593, 642, 754, 772, 793
Mox20I TGGCCA 1 cut(s) 230
MroXI GAANNNNTTC 3 cut(s) 100, 450, 702
MscI TGGCCA 1 cut(s) 230
MseI TTAA 1 cut(s) 321
Msp20I TGGCCA 1 cut(s) 230
MspR9I CCNGG 1 cut(s) 823
MunI CAATTG 2 cut(s) 375, 486
MvaI CCWGG 1 cut(s) 823
NdeII GATC 4 cut(s) 12, 130, 490, 765
NlaIII CATG 3 cut(s) 80, 263, 811
NlaIV GGNNCC 1 cut(s) 14
NspV TTCGAA 1 cut(s) 253
PciSI GCTCTTC 1 cut(s) 153
PdmI GAANNNNTTC 3 cut(s) 100, 450, 702
PfeI GAWTC 1 cut(s) 292
PflMI CCANNNNNTGG 1 cut(s) 775
PkrI GCNGC 1 cut(s) 460
PleI GAGTC 4 cut(s) 397, 596, 653, 724
PpsI GAGTC 4 cut(s) 397, 596, 653, 724
Psp1406I AACGTT 1 cut(s) 332
Psp6I CCWGG 1 cut(s) 821
PspGI CCWGG 1 cut(s) 821
PspN4I GGNNCC 1 cut(s) 14
PspPI GGNCC 2 cut(s) 209, 623
PsuI RGATCY 1 cut(s) 12
RsaI GTAC 2 cut(s) 430, 509
RsaNI GTAC 2 cut(s) 429, 508
SapI GCTCTTC 1 cut(s) 153
SaqAI TTAA 1 cut(s) 321
SatI GCNGC 1 cut(s) 459
Sau3AI GATC 4 cut(s) 12, 130, 490, 765
Sau96I GGNCC 2 cut(s) 209, 623
SchI GAGTC 4 cut(s) 397, 597, 654, 724
ScrFI CCNGG 1 cut(s) 823
SfaNI GCATC 3 cut(s) 124, 465, 739
SfcI CTRYAG 1 cut(s) 204
SfuI TTCGAA 1 cut(s) 253
SinI GGWCC 1 cut(s) 623
Sse9I AATT 8 cut(s) 84, 96, 237, 300, 353, 375, 486, 567
SspMI CTAG 1 cut(s) 627
StyD4I CCNGG 1 cut(s) 821
TaiI ACGT 2 cut(s) 109, 335
TaqI TCGA 5 cut(s) 27, 94, 253, 366, 659
TasI AATT 8 cut(s) 84, 96, 237, 300, 353, 375, 486, 567
TatI WGTACW 2 cut(s) 428, 507
TfiI GAWTC 1 cut(s) 292
Tru1I TTAA 1 cut(s) 321
Tru9I TTAA 1 cut(s) 321
TseI GCWGC 1 cut(s) 458
TspDTI ATGAA 5 cut(s) 235, 249, 579, 681, 796
Van91I CCANNNNNTGG 1 cut(s) 775
VpaK11BI GGWCC 1 cut(s) 623
XagI CCTNNNNNAGG 1 cut(s) 204
XapI RAATTY 3 cut(s) 84, 353, 567
XmnI GAANNNNTTC 3 cut(s) 100, 450, 702
XspI CTAG 1 cut(s) 627
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.