Rroxscaffold_6G00395910

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0000224
Physical Location & Seq
Forward (+)
17121235 .. 17123493
2259 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00395910.1

Sequence Viewer

Length: 1128 bp
ATGCGCCGTTCCAATGTGTCTAACATCCAAAAGCCTACTACTGGTAATGCACCGAGTAAACGCTCTCGTGTGCAAACTACTGATCAGCCATGCCCAAATGGATCTCATTCTACTTCAAGTAGTGCAATGAGTAAACGCTCTCATGTGCAAACTACTAATCAGTCAAGCGAAAATTATGTAGAAGATGGACTCAATTCTGCTATTGGTACAACTACAGAACGAACTACTACTGGGGTAAGAATTAGTTCACGTCTTCAGCATCAAATTGCTAATGATCAGCTATTGATAAATGTTACAACTGAAGAGCAAAATGATAATGTGATGGCAGCCAGTAATCAAGACCCTCCTACAGGTCCAACAAAAAAGGTGCGGGGAAAGACAAGAGGAGTGAATGCAGATAAGGTGCTTTCTCAATTGAATGCTAAAATACCTGTCACTCTGACCGAACAAAATGGTAGGCCTACAGGCCCATATTCTGAAATGTTGGCCAATGAAATTGGTTTCACAGTTCGAAACCATGCCCCACTAAATGTGGAAAAATGGAAGAAGATTCCGAAAATTGAAGTGGATAAATTGGTTAAAAGAATAACGATTCGTTCAGAGAAGAATTCTATAAATAGGTCAAAGTTGACACATCACCACAAAGCTGGGTCAAAGTCATTTATGTCTCACCAAGAGCAAATTGCAGCACAGACTGGAGAGATGCAAGGTGCAATTGATCGCTTTGAAACAGAGTACAAAAGCACTAAAAAAGGTTGGGACTTGGGAGCAAAAGCAAAGTGGGATGAAATGATTAAGATGCGAACTGAGACAACTCAACCCGATGGAACTCGGACAATGACAGATGATGAAATTTGTGCAAAAGTCCTCGGAGTCAAATCAGGCTACATCAAGGGTTGTGGTTTTGGCCCTAGACCTCCACCATCAAGGGTCTCTCATTCGTCTATAAATGAAATGTCTGAAAAGAACAAAGAGTTGCAAGAACAGCTTCAAGAGACCCAACACCTTGTAGGGACTCAACAACAAAAGATTGATGCACAAAATGAGGTGATCCAAAGATTGGAGGAGCAAGCCAAAAAGTTTGAGGAGTTCATGGCTAACTTTTCCAGGCAACATCCATCAAGTTAG
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

375

Amino Acids

41.85

Weight (kDa)

9.5

Isoelectric Point (pI)

47.85

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)
AccB7I CCANNNNNTGG 1 cut(s) 1060
AciI CCGC 1 cut(s) 370
AclWI GGATC 2 cut(s) 109, 1045
AcoI YGGCCR 1 cut(s) 486
AcsI RAATTY 2 cut(s) 607, 852
AcuI CTGAAG 2 cut(s) 239, 321
AfaI GTAC 2 cut(s) 208, 737
AfiI CCNNNNNNNGG 3 cut(s) 41, 350, 1060
AgsI TTSAA 5 cut(s) 117, 418, 563, 728, 992
AjiI CACGTC 1 cut(s) 251
AjnI CCWGG 1 cut(s) 1106
AluBI AGCT 3 cut(s) 280, 647, 988
AluI AGCT 3 cut(s) 280, 647, 988
Alw26I GTCTC 4 cut(s) 672, 803, 937, 989
AlwI GGATC 2 cut(s) 109, 1045
AoxI GGCC 4 cut(s) 458, 466, 486, 907
ApeKI GCWGC 2 cut(s) 326, 686
ApoI RAATTY 2 cut(s) 607, 852
Asp700I GAANNNNTTC 2 cut(s) 244, 987
AspLEI GCGC 1 cut(s) 6
AspS9I GGNCC 3 cut(s) 353, 467, 908
AsuHPI GGTGA 3 cut(s) 629, 662, 1060
AsuII TTCGAA 1 cut(s) 511
AvaII GGWCC 1 cut(s) 353
BalI TGGCCA 1 cut(s) 488
BauI CACGAG 1 cut(s) 66
BbsI GAAGAC 1 cut(s) 245
BbvI GCAGC 2 cut(s) 338, 698
BccI CCATC 5 cut(s) 179, 316, 818, 931, 1126
BciT130I CCWGG 1 cut(s) 1108
BclI TGATCA 2 cut(s) 82, 274
BcoDI GTCTC 4 cut(s) 672, 803, 937, 989
BfaI CTAG 1 cut(s) 912
BfmI CTRYAG 3 cut(s) 213, 348, 462
BisI GCNGC 2 cut(s) 327, 687
BlsI GCNGC 2 cut(s) 328, 688
Bme1390I CCNGG 1 cut(s) 1108
Bme18I GGWCC 1 cut(s) 353
BmgBI CACGTC 1 cut(s) 251
BmgT120I GGNCC 3 cut(s) 353, 467, 908
BmrFI CCNGG 1 cut(s) 1108
BmrI ACTGGG 1 cut(s) 240
BmsI GCATC 4 cut(s) 268, 693, 789, 1024
BmuI ACTGGG 1 cut(s) 240
BpiI GAAGAC 1 cut(s) 245
BpmI CTGGAG 1 cut(s) 717
Bpu14I TTCGAA 1 cut(s) 511
BsaI GGTCTC 2 cut(s) 937, 989
BsaJI CCNNGG 1 cut(s) 868
Bsc4I CCNNNNNNNGG 3 cut(s) 41, 350, 1060
Bse1I ACTGG 4 cut(s) 46, 235, 330, 700
Bse3DI GCAATG 1 cut(s) 132
BseBI CCWGG 1 cut(s) 1108
BseDI CCNNGG 1 cut(s) 868
BseGI GGATG 3 cut(s) 24, 790, 1114
BseLI CCNNNNNNNGG 3 cut(s) 41, 350, 1060
BseMI GCAATG 1 cut(s) 132
BseMII CTCAG 1 cut(s) 798
BseNI ACTGG 4 cut(s) 46, 235, 330, 700
BseRI GAGGAG 3 cut(s) 399, 1079, 1100
BseXI GCAGC 2 cut(s) 338, 698
BseYI CCCAGC 1 cut(s) 647
BshFI GGCC 4 cut(s) 460, 468, 488, 909
BslFI GGGAC 2 cut(s) 773, 1027
BslI CCNNNNNNNGG 3 cut(s) 41, 350, 1060
BsmAI GTCTC 4 cut(s) 672, 803, 937, 989
BsmFI GGGAC 2 cut(s) 773, 1027
BsmI GAATGC 2 cut(s) 397, 424
BsnI GGCC 4 cut(s) 460, 468, 488, 909
Bso31I GGTCTC 2 cut(s) 937, 989
Bsp119I TTCGAA 1 cut(s) 511
Bsp143I GATC 5 cut(s) 82, 101, 274, 718, 1050
BspACI CCGC 1 cut(s) 370
BspANI GGCC 4 cut(s) 460, 468, 488, 909
BspCNI CTCAG 1 cut(s) 799
BspPI GGATC 2 cut(s) 109, 1045
BspQI GCTCTTC 1 cut(s) 297
BspT104I TTCGAA 1 cut(s) 511
BspTNI GGTCTC 2 cut(s) 937, 989
BsrDI GCAATG 1 cut(s) 132
BsrI ACTGG 4 cut(s) 46, 235, 330, 700
BssECI CCNNGG 1 cut(s) 868
BssMI GATC 5 cut(s) 82, 101, 274, 718, 1050
BssSI CACGAG 1 cut(s) 66
Bst2BI CACGAG 1 cut(s) 66
Bst2UI CCWGG 1 cut(s) 1108
Bst4CI ACNGT 1 cut(s) 508
Bst6I CTCTTC 1 cut(s) 297
BstBI TTCGAA 1 cut(s) 511
BstC8I GCNNGC 1 cut(s) 1071
BstDEI CTNAG 1 cut(s) 807
BstENI CCTNNNNNAGG 1 cut(s) 348
BstF5I GGATG 3 cut(s) 24, 790, 1114
BstHHI GCGC 1 cut(s) 6
BstKTI GATC 5 cut(s) 85, 104, 277, 721, 1053
BstMAI GTCTC 4 cut(s) 672, 803, 937, 989
BstMBI GATC 5 cut(s) 82, 101, 274, 718, 1050
BstMWI GCNNNNNNNGC 1 cut(s) 985
BstNI CCWGG 1 cut(s) 1108
BstSCI CCNGG 1 cut(s) 1106
BstSFI CTRYAG 3 cut(s) 213, 348, 462
BstV1I GCAGC 2 cut(s) 338, 698
BstV2I GAAGAC 1 cut(s) 245
BstX2I RGATCY 1 cut(s) 101
BstXI CCANNNNNNTGG 1 cut(s) 647
BstYI RGATCY 1 cut(s) 101
BsuRI GGCC 4 cut(s) 460, 468, 488, 909
BtrI CACGTC 1 cut(s) 251
BtsCI GGATG 3 cut(s) 24, 790, 1114
Cac8I GCNNGC 1 cut(s) 1071
CfoI GCGC 1 cut(s) 6
Cfr13I GGNCC 3 cut(s) 353, 467, 908
Csp6I GTAC 2 cut(s) 207, 736
CspCI CAANNNNNGTGG 2 cut(s) 880, 915
CviAII CATG 4 cut(s) 90, 143, 518, 1093
CviQI GTAC 2 cut(s) 207, 736
DdeI CTNAG 1 cut(s) 807
DpnI GATC 5 cut(s) 84, 103, 276, 720, 1052
DpnII GATC 5 cut(s) 82, 101, 274, 718, 1050
EaeI YGGCCR 1 cut(s) 486
Eam1104I CTCTTC 1 cut(s) 297
EarI CTCTTC 1 cut(s) 297
Eco147I AGGCCT 1 cut(s) 460
Eco31I GGTCTC 2 cut(s) 937, 989
Eco47I GGWCC 1 cut(s) 353
Eco57I CTGAAG 2 cut(s) 239, 321
EcoNI CCTNNNNNAGG 1 cut(s) 348
EcoRI GAATTC 1 cut(s) 607
EcoRII CCWGG 1 cut(s) 1106
FaeI CATG 4 cut(s) 93, 146, 521, 1096
FaiI YATR 9 cut(s) 91, 144, 177, 472, 519, 614, 665, 947, 1094
FalI AAGNNNNNCTT 2 cut(s) 972, 1004
FaqI GGGAC 2 cut(s) 773, 1027
FatI CATG 4 cut(s) 89, 142, 517, 1092
FauI CCCGC 1 cut(s) 363
FbaI TGATCA 2 cut(s) 82, 274
Fnu4HI GCNGC 2 cut(s) 327, 687
FokI GGATG 3 cut(s) 11, 797, 1101
Fsp4HI GCNGC 2 cut(s) 327, 687
FspBI CTAG 1 cut(s) 912
GlaI GCGC 1 cut(s) 5
GluI GCNGC 2 cut(s) 327, 687
GsaI CCCAGC 1 cut(s) 651
GsuI CTGGAG 1 cut(s) 717
HaeIII GGCC 4 cut(s) 460, 468, 488, 909
HhaI GCGC 1 cut(s) 6
Hin1II CATG 4 cut(s) 93, 146, 521, 1096
Hin6I GCGC 1 cut(s) 4
HinP1I GCGC 1 cut(s) 4
HincII GTYRAC 1 cut(s) 630
HindII GTYRAC 1 cut(s) 630
HinfI GANTC 5 cut(s) 189, 550, 592, 873, 1015
HphI GGTGA 3 cut(s) 629, 662, 1060
Hpy166II GTNNAC 4 cut(s) 59, 134, 248, 630
Hpy188I TCNGA 7 cut(s) 441, 478, 555, 601, 834, 872, 961
Hpy188III TCNNGA 2 cut(s) 338, 992
Hpy8I GTNNAC 4 cut(s) 59, 134, 248, 630
HpyCH4III ACNGT 1 cut(s) 508
HpyCH4IV ACGT 1 cut(s) 250
HpyF10VI GCNNNNNNNGC 1 cut(s) 985
HpyF3I CTNAG 1 cut(s) 807
HpySE526I ACGT 1 cut(s) 250
Hsp92II CATG 4 cut(s) 93, 146, 521, 1096
HspAI GCGC 1 cut(s) 4
Ksp22I TGATCA 2 cut(s) 82, 274
Kzo9I GATC 5 cut(s) 82, 101, 274, 718, 1050
LguI GCTCTTC 1 cut(s) 297
LmnI GCTCC 2 cut(s) 767, 1066
Lsp1109I GCAGC 2 cut(s) 338, 698
LweI GCATC 4 cut(s) 268, 693, 789, 1024
MaeI CTAG 1 cut(s) 912
MaeII ACGT 1 cut(s) 250
MaeIII GTNAC 2 cut(s) 292, 433
MalI GATC 5 cut(s) 84, 103, 276, 720, 1052
MboI GATC 5 cut(s) 82, 101, 274, 718, 1050
MboII GAAGA 6 cut(s) 194, 245, 314, 556, 559, 616
MfeI CAATTG 2 cut(s) 413, 714
MflI RGATCY 1 cut(s) 101
MlsI TGGCCA 1 cut(s) 488
MluNI TGGCCA 1 cut(s) 488
MlyI GAGTC 3 cut(s) 183, 882, 1009
MmeI TCCRAC 1 cut(s) 380
MnlI CCTC 7 cut(s) 354, 377, 878, 927, 1039, 1057, 1078
Mox20I TGGCCA 1 cut(s) 488
MroXI GAANNNNTTC 2 cut(s) 244, 987
MscI TGGCCA 1 cut(s) 488
MseI TTAA 2 cut(s) 579, 795
Msp20I TGGCCA 1 cut(s) 488
MspR9I CCNGG 1 cut(s) 1108
MunI CAATTG 2 cut(s) 413, 714
Mva1269I GAATGC 2 cut(s) 397, 424
MvaI CCWGG 1 cut(s) 1108
MwoI GCNNNNNNNGC 1 cut(s) 985
NdeII GATC 5 cut(s) 82, 101, 274, 718, 1050
NlaIII CATG 4 cut(s) 93, 146, 521, 1096
NmuCI GTSAC 1 cut(s) 433
NspV TTCGAA 1 cut(s) 511
PceI AGGCCT 1 cut(s) 460
PciSI GCTCTTC 1 cut(s) 297
PctI GAATGC 2 cut(s) 397, 424
PdmI GAANNNNTTC 2 cut(s) 244, 987
PfeI GAWTC 2 cut(s) 550, 592
PflMI CCANNNNNTGG 1 cut(s) 1060
PkrI GCNGC 2 cut(s) 328, 688
PleI GAGTC 3 cut(s) 183, 881, 1009
PpsI GAGTC 3 cut(s) 183, 881, 1009
Psp6I CCWGG 1 cut(s) 1106
PspFI CCCAGC 1 cut(s) 647
PspGI CCWGG 1 cut(s) 1106
PspPI GGNCC 3 cut(s) 353, 467, 908
PsuI RGATCY 1 cut(s) 101
RsaI GTAC 2 cut(s) 208, 737
RsaNI GTAC 2 cut(s) 207, 736
SapI GCTCTTC 1 cut(s) 297
SaqAI TTAA 2 cut(s) 579, 795
SatI GCNGC 2 cut(s) 327, 687
Sau3AI GATC 5 cut(s) 82, 101, 274, 718, 1050
Sau96I GGNCC 3 cut(s) 353, 467, 908
SchI GAGTC 3 cut(s) 183, 882, 1009
ScrFI CCNGG 1 cut(s) 1108
SfaNI GCATC 4 cut(s) 268, 693, 789, 1024
SfcI CTRYAG 3 cut(s) 213, 348, 462
SfuI TTCGAA 1 cut(s) 511
SinI GGWCC 1 cut(s) 353
SseBI AGGCCT 1 cut(s) 460
SsiI CCGC 1 cut(s) 370
SspMI CTAG 1 cut(s) 912
StuI AGGCCT 1 cut(s) 460
StyD4I CCNGG 1 cut(s) 1106
TaaI ACNGT 1 cut(s) 508
TaiI ACGT 1 cut(s) 253
TaqI TCGA 1 cut(s) 511
TaqII GACCGA 1 cut(s) 458
TatI WGTACW 1 cut(s) 735
TfiI GAWTC 2 cut(s) 550, 592
Tru1I TTAA 2 cut(s) 579, 795
Tru9I TTAA 2 cut(s) 579, 795
TseFI GTSAC 1 cut(s) 433
TseI GCWGC 2 cut(s) 326, 686
Tsp45I GTSAC 1 cut(s) 433
TspDTI ATGAA 5 cut(s) 507, 801, 864, 966, 1081
Van91I CCANNNNNTGG 1 cut(s) 1060
VpaK11BI GGWCC 1 cut(s) 353
XagI CCTNNNNNAGG 1 cut(s) 348
XapI RAATTY 2 cut(s) 607, 852
XmnI GAANNNNTTC 2 cut(s) 244, 987
XspI CTAG 1 cut(s) 912
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.