Rroxscaffold_8G00436850

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000008
OG0000224
Physical Location & Seq
Forward (+)
19929 .. 47694
27766 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_8G00436850.1

Sequence Viewer

Length: 711 bp
ATGGTTGTCGTGGTAGCCGTGGTGGGGGTAGAGGAGGAAGTGGAGAAAATAAAAATAGAAAGAAAGCGGCAGAAAGTGGTGATTTTGATCCCGTGTCCGGCAAGAAAGGAGTCTCCAAAGAATTCGGAGGACTCGGAAGACAACGCCGCATTAAAGGAGGCACGAATGCTCGGCGGGGCTTTCTGTTGGACGGGGTCGCGGCCTACCCCAAATCAATTCAAATCCCAACATAACCTCCGTAAACAACAACAAACCGAACAACAACATCCATCAAATTTAAAAGAACAGGGTTATCGAGCAACACTAAAACTAAGCCGATATCATACAAGGAAGAGTGAGTGGACAAAACCGAAACGAGAATCAAAACAATTTATGCCGTTGACTATTGCTACAACTGACGAGTTAAATGATATTGTAATGTCAGTGAATATTCAAAGGTCTACTATAGGTCTAGAAAGAGAAGTGCGGCGAAAGACAAGACGGTTGAATTCTGAGAAGCTGCATTCTCAGCTTAATGCTAAAATACCGGTCACTTTGATACAACATAATGAAAGGCCCACAGGTCCATATGCAGAATTGTTCGTGAATGATATTAGCTTAATAGTTAGGAACTTTGCACCTATGAATGTGGAAAAATGGAATGACATTGAACCAGCTTGTGTGACTAAGATGATTGAAAGAATAACCCTACTTCATGGTCGAAAATGGTGA
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

236

Amino Acids

27.34

Weight (kDa)

9.8

Isoelectric Point (pI)

57.47

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)
AccI GTMKAC 1 cut(s) 440
AccII CGCG 1 cut(s) 199
AciI CCGC 5 cut(s) 67, 147, 174, 199, 466
AclWI GGATC 1 cut(s) 82
AcsI RAATTY 3 cut(s) 121, 274, 487
AfiI CCNNNNNNNGG 2 cut(s) 24, 97
AgeI ACCGGT 1 cut(s) 526
AgsI TTSAA 5 cut(s) 220, 434, 487, 650, 677
AluBI AGCT 4 cut(s) 499, 511, 597, 656
AluI AGCT 4 cut(s) 499, 511, 597, 656
Alw26I GTCTC 1 cut(s) 117
AlwI GGATC 1 cut(s) 82
AoxI GGCC 2 cut(s) 200, 554
ApeKI GCWGC 1 cut(s) 499
ApoI RAATTY 3 cut(s) 121, 274, 487
AsiGI ACCGGT 1 cut(s) 526
AspS9I GGNCC 2 cut(s) 555, 563
AsuHPI GGTGA 1 cut(s) 91
AvaII GGWCC 1 cut(s) 563
BbsI GAAGAC 1 cut(s) 144
BbvI GCAGC 1 cut(s) 486
BccI CCATC 1 cut(s) 277
BceAI ACGGC 2 cut(s) 2, 361
BcoDI GTCTC 1 cut(s) 117
BfaI CTAG 1 cut(s) 452
BfmI CTRYAG 1 cut(s) 444
BisI GCNGC 5 cut(s) 68, 147, 200, 467, 500
BlsI GCNGC 5 cut(s) 69, 148, 201, 468, 501
Bme18I GGWCC 1 cut(s) 563
BmgT120I GGNCC 2 cut(s) 555, 563
BpiI GAAGAC 1 cut(s) 144
BsaBI GATNNNNATC 1 cut(s) 86
BsaJI CCNNGG 1 cut(s) 18
BsaWI WCCGGW 1 cut(s) 526
BsaXI ACNNNNNCTCC 2 cut(s) 219, 249
Bsc4I CCNNNNNNNGG 2 cut(s) 24, 97
Bse118I RCCGGY 1 cut(s) 526
Bse8I GATNNNNATC 1 cut(s) 86
BseDI CCNNGG 1 cut(s) 18
BseGI GGATG 1 cut(s) 265
BseJI GATNNNNATC 1 cut(s) 86
BseLI CCNNNNNNNGG 2 cut(s) 24, 97
BseMII CTCAG 2 cut(s) 483, 521
BseRI GAGGAG 1 cut(s) 47
BseXI GCAGC 1 cut(s) 486
Bsh1236I CGCG 1 cut(s) 199
BshFI GGCC 2 cut(s) 202, 556
BshTI ACCGGT 1 cut(s) 526
BsiSI CCGG 2 cut(s) 98, 527
BslI CCNNNNNNNGG 2 cut(s) 24, 97
BsmAI GTCTC 1 cut(s) 117
BsmI GAATGC 2 cut(s) 171, 502
BsnI GGCC 2 cut(s) 202, 556
Bsp143I GATC 1 cut(s) 87
BspACI CCGC 5 cut(s) 67, 147, 174, 199, 466
BspANI GGCC 2 cut(s) 202, 556
BspCNI CTCAG 2 cut(s) 484, 520
BspFNI CGCG 1 cut(s) 199
BspPI GGATC 1 cut(s) 82
BsrFI RCCGGY 1 cut(s) 526
BssAI RCCGGY 1 cut(s) 526
BssECI CCNNGG 1 cut(s) 18
BssMI GATC 1 cut(s) 87
Bst4CI ACNGT 1 cut(s) 483
Bst6I CTCTTC 1 cut(s) 326
BstDEI CTNAG 4 cut(s) 311, 492, 507, 666
BstDSI CCRYGG 1 cut(s) 18
BstF5I GGATG 1 cut(s) 265
BstFNI CGCG 1 cut(s) 199
BstKTI GATC 1 cut(s) 90
BstMAI GTCTC 1 cut(s) 117
BstMBI GATC 1 cut(s) 87
BstMWI GCNNNNNNNGC 1 cut(s) 508
BstSFI CTRYAG 1 cut(s) 444
BstUI CGCG 1 cut(s) 199
BstV1I GCAGC 1 cut(s) 486
BstV2I GAAGAC 1 cut(s) 144
BsuRI GGCC 2 cut(s) 202, 556
BtgI CCRYGG 1 cut(s) 18
BtsCI GGATG 1 cut(s) 265
BtsIMutI CAGTG 1 cut(s) 429
Cfr10I RCCGGY 1 cut(s) 526
Cfr13I GGNCC 2 cut(s) 555, 563
CspAI ACCGGT 1 cut(s) 526
CviAII CATG 1 cut(s) 695
CviJI RGCY 9 cut(s) 17, 179, 202, 315, 499, 511, 556, 597, 656
CviKI_1 RGCY 9 cut(s) 17, 179, 202, 315, 499, 511, 556, 597, 656
DdeI CTNAG 4 cut(s) 311, 492, 507, 666
DpnI GATC 1 cut(s) 89
DpnII GATC 1 cut(s) 87
DraI TTTAAA 1 cut(s) 279
Eam1104I CTCTTC 1 cut(s) 326
EarI CTCTTC 1 cut(s) 326
Eco32I GATATC 1 cut(s) 320
Eco47I GGWCC 1 cut(s) 563
EcoRI GAATTC 2 cut(s) 121, 487
EcoRV GATATC 1 cut(s) 320
FaeI CATG 1 cut(s) 698
FaiI YATR 9 cut(s) 231, 324, 374, 446, 546, 568, 570, 623, 696
FatI CATG 1 cut(s) 694
FauI CCCGC 1 cut(s) 167
FauNDI CATATG 1 cut(s) 568
FblI GTMKAC 1 cut(s) 440
Fnu4HI GCNGC 5 cut(s) 68, 147, 200, 467, 500
FokI GGATG 1 cut(s) 252
Fsp4HI GCNGC 5 cut(s) 68, 147, 200, 467, 500
FspBI CTAG 1 cut(s) 452
GluI GCNGC 5 cut(s) 68, 147, 200, 467, 500
HaeIII GGCC 2 cut(s) 202, 556
HapII CCGG 2 cut(s) 98, 527
Hin1II CATG 1 cut(s) 698
HincII GTYRAC 1 cut(s) 381
HindII GTYRAC 1 cut(s) 381
HinfI GANTC 3 cut(s) 110, 131, 359
HpaII CCGG 2 cut(s) 98, 527
HphI GGTGA 1 cut(s) 91
Hpy166II GTNNAC 4 cut(s) 242, 342, 381, 441
Hpy188I TCNGA 3 cut(s) 127, 136, 493
Hpy188III TCNNGA 2 cut(s) 452, 583
Hpy8I GTNNAC 4 cut(s) 242, 342, 381, 441
HpyCH4III ACNGT 1 cut(s) 483
HpyCH4V TGCA 3 cut(s) 502, 572, 617
HpyF10VI GCNNNNNNNGC 1 cut(s) 508
HpyF3I CTNAG 4 cut(s) 311, 492, 507, 666
Hsp92II CATG 1 cut(s) 698
Kzo9I GATC 1 cut(s) 87
LpnPI CCDG 5 cut(s) 111, 272, 540, 546, 666
Lsp1109I GCAGC 1 cut(s) 486
MaeI CTAG 1 cut(s) 452
MaeIII GTNAC 2 cut(s) 529, 661
MalI GATC 1 cut(s) 89
MboI GATC 1 cut(s) 87
MboII GAAGA 2 cut(s) 149, 343
MluCI AATT 6 cut(s) 121, 215, 274, 368, 487, 575
MlyI GAGTC 2 cut(s) 119, 125
MmeI TCCRAC 1 cut(s) 167
MnlI CCTC 5 cut(s) 25, 28, 121, 151, 245
MseI TTAA 5 cut(s) 152, 278, 404, 513, 599
MspI CCGG 2 cut(s) 98, 527
Mva1269I GAATGC 2 cut(s) 171, 502
MvnI CGCG 1 cut(s) 199
MwoI GCNNNNNNNGC 1 cut(s) 508
NdeI CATATG 1 cut(s) 568
NdeII GATC 1 cut(s) 87
NlaIII CATG 1 cut(s) 698
NmeAIII GCCGAG 1 cut(s) 150
NmuCI GTSAC 2 cut(s) 529, 661
PcsI WCGNNNNNNNCGW 1 cut(s) 15
PctI GAATGC 2 cut(s) 171, 502
PfeI GAWTC 1 cut(s) 359
PflFI GACNNNGTC 1 cut(s) 193
PinAI ACCGGT 1 cut(s) 526
PkrI GCNGC 5 cut(s) 69, 148, 201, 468, 501
PleI GAGTC 2 cut(s) 118, 125
PpsI GAGTC 2 cut(s) 118, 125
PspPI GGNCC 2 cut(s) 555, 563
PsyI GACNNNGTC 1 cut(s) 193
SaqAI TTAA 5 cut(s) 152, 278, 404, 513, 599
SatI GCNGC 5 cut(s) 68, 147, 200, 467, 500
Sau3AI GATC 1 cut(s) 87
Sau96I GGNCC 2 cut(s) 555, 563
SchI GAGTC 2 cut(s) 119, 125
SetI ASST 9 cut(s) 237, 440, 451, 501, 513, 565, 599, 622, 658
SfcI CTRYAG 1 cut(s) 444
SinI GGWCC 1 cut(s) 563
Sse9I AATT 6 cut(s) 121, 215, 274, 368, 487, 575
SsiI CCGC 5 cut(s) 67, 147, 174, 199, 466
SspI AATATT 1 cut(s) 430
SspMI CTAG 1 cut(s) 452
TaaI ACNGT 1 cut(s) 483
TaqI TCGA 2 cut(s) 295, 700
TasI AATT 6 cut(s) 121, 215, 274, 368, 487, 575
TauI GCSGC 4 cut(s) 70, 149, 202, 469
TfiI GAWTC 1 cut(s) 359
Tru1I TTAA 5 cut(s) 152, 278, 404, 513, 599
Tru9I TTAA 5 cut(s) 152, 278, 404, 513, 599
TscAI CASTG 1 cut(s) 429
TseFI GTSAC 2 cut(s) 529, 661
TseI GCWGC 1 cut(s) 499
Tsp45I GTSAC 2 cut(s) 529, 661
TspDTI ATGAA 3 cut(s) 564, 638, 683
TspGWI ACGGA 1 cut(s) 227
TspRI CASTG 1 cut(s) 429
Tth111I GACNNNGTC 1 cut(s) 193
VpaK11BI GGWCC 1 cut(s) 563
XapI RAATTY 3 cut(s) 121, 274, 487
XbaI TCTAGA 1 cut(s) 451
XmiI GTMKAC 1 cut(s) 440
XspI CTAG 1 cut(s) 452
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.