Rroxscaffold_5G00336280

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000224
Physical Location & Seq
Forward (+)
4076675 .. 4078909
2235 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00336280.1

Sequence Viewer

Length: 1170 bp
ATGCGCCGTTCCAATGTGTCTAACATCCAAAAGCCTACTACTGGTAATGCACCGAGTAAACGCTCTCGTGTGCAAACTACTGATCAGCCATGCCCAAATGGATCTCATTCTACTTCAAGTAGTGCAATGAGTAAACGCTCTCGTGTGCAAACTACTAATCAGTCATGCGAAAATTATGTAGAAGATGGACTCAATTCTGCTATTGAACAACTACAGAATGAATTACTACTGCATCAAATTGCTAATGATCAGCTATTGATAAATGTTACAACTGAAGAGCAAAATGATAATGTGATGGCAGCCAGTAATCAAGACCCTCCTACAGTTCGAAACCATACCCCACTAAATGTGGAAAAATGGAAGAAGATTCCGAAAATTGAAGTGGATAAATTGGTTAAAAGAATAACGAACAAGTTTGACATTGACATGTCTCTCCCTTGGGTCGAGAGATATGTAATTACAACATGTCGATCTGTATTTTGTAATTTTCGTTACAAGTTGAAGAAACATTTTGAGAAATTTTCAACAATCGAGGAAGCAATTGAAAACAAATACGATGATGTCAAGACTCGGGAAGAATGGGAGTTTCTCTGTGCTCGTTTTTCTAGTGAAAAGTTTCAGATTCCAACTAAGTATTGGATATTTCATAATAATTTTCAGATTCGTTCAGAGAAGAATGCTATAAATAGGTCAAAGTTGTCACATCACCACAAAGCTGGGTCAAAGTCATTTATGTCTCACCAAGAGCAAATTACAGCACAGACTGGAGAGATGCAAGGTGCAATTGATCGCTTTGAAACAGAAAGTACAAAAGCACTAAAAAAGGATGAAATGATTAAGATGCGAACTGAGACAACTCAACCTGATGGAACTCGGACAATGACAGATGATGAAATTTGTGCAAAAGTCCTCGGAGTCAAATCAGGCTACATCAAGGGTTGTGGTTTTGGCCCTAGACCTCCACCATCAAGGGTCTCTCATTTGTCGATAAATGAAATGTCTGAAAAGAACAAAGAGTTGCAAGAACAGCTTCAAGAGACCCAACACCTTGTAGGGACTCAACAACAAAAGATTGATGCACAAAATGAGGTGATCCAAAGATTGGAGGAGCAAGCCAAAAAGTTTGAGGAGTTCATGGCTAACTTTTCCAGGCAACATCCATCAAGTTAG
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

389

Amino Acids

44.89

Weight (kDa)

8.67

Isoelectric Point (pI)

53.1

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
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

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)
AccB7I CCANNNNNTGG 1 cut(s) 1102
AclWI GGATC 2 cut(s) 109, 1087
AcsI RAATTY 2 cut(s) 518, 894
AcuI CTGAAG 1 cut(s) 294
AfaI GTAC 1 cut(s) 808
AfiI CCNNNNNNNGG 2 cut(s) 41, 1102
AflIII ACRYGT 2 cut(s) 426, 464
AgsI TTSAA 8 cut(s) 117, 206, 380, 502, 525, 545, 797, 1034
AjnI CCWGG 1 cut(s) 1148
AluBI AGCT 3 cut(s) 253, 716, 1030
AluI AGCT 3 cut(s) 253, 716, 1030
Alw21I GWGCWC 1 cut(s) 598
Alw26I GTCTC 5 cut(s) 435, 741, 845, 979, 1031
AlwI GGATC 2 cut(s) 109, 1087
Ama87I CYCGRG 1 cut(s) 570
AoxI GGCC 1 cut(s) 949
ApeKI GCWGC 1 cut(s) 299
ApoI RAATTY 2 cut(s) 518, 894
Asp700I GAANNNNTTC 2 cut(s) 615, 1029
AspLEI GCGC 1 cut(s) 6
AspS9I GGNCC 1 cut(s) 950
AsuHPI GGTGA 3 cut(s) 698, 731, 1102
AsuII TTCGAA 1 cut(s) 328
AvaI CYCGRG 1 cut(s) 570
BauI CACGAG 2 cut(s) 66, 141
Bbv12I GWGCWC 1 cut(s) 598
BbvI GCAGC 1 cut(s) 311
BccI CCATC 5 cut(s) 179, 289, 860, 973, 1168
BciT130I CCWGG 1 cut(s) 1150
BclI TGATCA 2 cut(s) 82, 247
BcoDI GTCTC 5 cut(s) 435, 741, 845, 979, 1031
BfaI CTAG 2 cut(s) 606, 954
BfmI CTRYAG 2 cut(s) 212, 321
BisI GCNGC 1 cut(s) 300
BlsI GCNGC 1 cut(s) 301
Bme1390I CCNGG 1 cut(s) 1150
BmeT110I CYCGRG 1 cut(s) 570
BmgT120I GGNCC 1 cut(s) 950
BmrFI CCNGG 1 cut(s) 1150
BmsI GCATC 4 cut(s) 241, 762, 831, 1066
BpmI CTGGAG 1 cut(s) 786
Bpu14I TTCGAA 1 cut(s) 328
BsaI GGTCTC 2 cut(s) 979, 1031
BsaJI CCNNGG 2 cut(s) 437, 910
Bsc4I CCNNNNNNNGG 2 cut(s) 41, 1102
Bse1I ACTGG 3 cut(s) 46, 303, 769
Bse3DI GCAATG 1 cut(s) 132
BseBI CCWGG 1 cut(s) 1150
BseDI CCNNGG 2 cut(s) 437, 910
BseGI GGATG 3 cut(s) 24, 832, 1156
BseLI CCNNNNNNNGG 2 cut(s) 41, 1102
BseMI GCAATG 1 cut(s) 132
BseMII CTCAG 1 cut(s) 840
BseNI ACTGG 3 cut(s) 46, 303, 769
BseRI GAGGAG 2 cut(s) 1121, 1142
BseXI GCAGC 1 cut(s) 311
BseYI CCCAGC 1 cut(s) 716
BshFI GGCC 1 cut(s) 951
BsiHKAI GWGCWC 1 cut(s) 598
BsiHKCI CYCGRG 1 cut(s) 570
BslFI GGGAC 1 cut(s) 1069
BslI CCNNNNNNNGG 2 cut(s) 41, 1102
BsmAI GTCTC 5 cut(s) 435, 741, 845, 979, 1031
BsmFI GGGAC 1 cut(s) 1069
BsmI GAATGC 1 cut(s) 682
BsnI GGCC 1 cut(s) 951
Bso31I GGTCTC 2 cut(s) 979, 1031
BsoBI CYCGRG 1 cut(s) 570
Bsp119I TTCGAA 1 cut(s) 328
Bsp1286I GDGCHC 1 cut(s) 598
Bsp143I GATC 6 cut(s) 82, 101, 247, 470, 787, 1092
BspANI GGCC 1 cut(s) 951
BspCNI CTCAG 1 cut(s) 841
BspPI GGATC 2 cut(s) 109, 1087
BspQI GCTCTTC 1 cut(s) 270
BspT104I TTCGAA 1 cut(s) 328
BspTNI GGTCTC 2 cut(s) 979, 1031
BsrDI GCAATG 1 cut(s) 132
BsrI ACTGG 3 cut(s) 46, 303, 769
BssECI CCNNGG 2 cut(s) 437, 910
BssMI GATC 6 cut(s) 82, 101, 247, 470, 787, 1092
BssSI CACGAG 2 cut(s) 66, 141
BssT1I CCWWGG 1 cut(s) 437
Bst2BI CACGAG 2 cut(s) 66, 141
Bst2UI CCWGG 1 cut(s) 1150
Bst4CI ACNGT 1 cut(s) 325
Bst6I CTCTTC 1 cut(s) 270
BstBI TTCGAA 1 cut(s) 328
BstC8I GCNNGC 1 cut(s) 1113
BstDEI CTNAG 2 cut(s) 630, 849
BstF5I GGATG 3 cut(s) 24, 832, 1156
BstHHI GCGC 1 cut(s) 6
BstKTI GATC 6 cut(s) 85, 104, 250, 473, 790, 1095
BstMAI GTCTC 5 cut(s) 435, 741, 845, 979, 1031
BstMBI GATC 6 cut(s) 82, 101, 247, 470, 787, 1092
BstMWI GCNNNNNNNGC 1 cut(s) 1027
BstNI CCWGG 1 cut(s) 1150
BstNSI RCATGY 2 cut(s) 430, 468
BstSCI CCNGG 1 cut(s) 1148
BstSFI CTRYAG 2 cut(s) 212, 321
BstV1I GCAGC 1 cut(s) 311
BstX2I RGATCY 1 cut(s) 101
BstXI CCANNNNNNTGG 1 cut(s) 716
BstYI RGATCY 1 cut(s) 101
BsuRI GGCC 1 cut(s) 951
BtsCI GGATG 3 cut(s) 24, 832, 1156
Cac8I GCNNGC 1 cut(s) 1113
CfoI GCGC 1 cut(s) 6
Cfr13I GGNCC 1 cut(s) 950
Csp6I GTAC 1 cut(s) 807
CspCI CAANNNNNGTGG 2 cut(s) 922, 957
CviAII CATG 5 cut(s) 90, 165, 427, 465, 1135
CviQI GTAC 1 cut(s) 807
DdeI CTNAG 2 cut(s) 630, 849
DpnI GATC 6 cut(s) 84, 103, 249, 472, 789, 1094
DpnII GATC 6 cut(s) 82, 101, 247, 470, 787, 1092
Eam1104I CTCTTC 1 cut(s) 270
EarI CTCTTC 1 cut(s) 270
Eco130I CCWWGG 1 cut(s) 437
Eco31I GGTCTC 2 cut(s) 979, 1031
Eco57I CTGAAG 1 cut(s) 294
Eco88I CYCGRG 1 cut(s) 570
EcoRII CCWGG 1 cut(s) 1148
EcoT14I CCWWGG 1 cut(s) 437
ErhI CCWWGG 1 cut(s) 437
FaeI CATG 5 cut(s) 93, 168, 430, 468, 1138
FalI AAGNNNNNCTT 2 cut(s) 1014, 1046
FaqI GGGAC 1 cut(s) 1069
FatI CATG 5 cut(s) 89, 164, 426, 464, 1134
FbaI TGATCA 2 cut(s) 82, 247
Fnu4HI GCNGC 1 cut(s) 300
FokI GGATG 3 cut(s) 11, 839, 1143
Fsp4HI GCNGC 1 cut(s) 300
FspBI CTAG 2 cut(s) 606, 954
GlaI GCGC 1 cut(s) 5
GluI GCNGC 1 cut(s) 300
GsaI CCCAGC 1 cut(s) 720
GsuI CTGGAG 1 cut(s) 786
HaeIII GGCC 1 cut(s) 951
HhaI GCGC 1 cut(s) 6
Hin1II CATG 5 cut(s) 93, 168, 430, 468, 1138
Hin6I GCGC 1 cut(s) 4
HinP1I GCGC 1 cut(s) 4
HinfI GANTC 7 cut(s) 189, 367, 568, 622, 661, 915, 1057
HphI GGTGA 3 cut(s) 698, 731, 1102
Hpy166II GTNNAC 2 cut(s) 59, 134
Hpy188I TCNGA 7 cut(s) 372, 621, 660, 670, 876, 914, 1003
Hpy188III TCNNGA 5 cut(s) 311, 445, 565, 572, 1034
Hpy8I GTNNAC 2 cut(s) 59, 134
HpyCH4III ACNGT 1 cut(s) 325
HpyF10VI GCNNNNNNNGC 1 cut(s) 1027
HpyF3I CTNAG 2 cut(s) 630, 849
Hsp92II CATG 5 cut(s) 93, 168, 430, 468, 1138
HspAI GCGC 1 cut(s) 4
Ksp22I TGATCA 2 cut(s) 82, 247
Kzo9I GATC 6 cut(s) 82, 101, 247, 470, 787, 1092
LguI GCTCTTC 1 cut(s) 270
LmnI GCTCC 1 cut(s) 1108
LpnPI CCDG 8 cut(s) 27, 316, 702, 750, 876, 909, 1135, 1162
Lsp1109I GCAGC 1 cut(s) 311
LweI GCATC 4 cut(s) 241, 762, 831, 1066
MaeI CTAG 2 cut(s) 606, 954
MaeIII GTNAC 3 cut(s) 265, 491, 699
MalI GATC 6 cut(s) 84, 103, 249, 472, 789, 1094
MboI GATC 6 cut(s) 82, 101, 247, 470, 787, 1092
MboII GAAGA 7 cut(s) 194, 287, 373, 376, 514, 587, 685
MfeI CAATTG 2 cut(s) 540, 783
MflI RGATCY 1 cut(s) 101
MhlI GDGCHC 1 cut(s) 598
MlyI GAGTC 4 cut(s) 183, 562, 924, 1051
MmeI TCCRAC 1 cut(s) 650
MnlI CCTC 7 cut(s) 327, 526, 920, 969, 1081, 1099, 1120
MroXI GAANNNNTTC 2 cut(s) 615, 1029
MseI TTAA 2 cut(s) 396, 837
MslI CAYNNNNRTG 1 cut(s) 425
MspR9I CCNGG 1 cut(s) 1150
MunI CAATTG 2 cut(s) 540, 783
Mva1269I GAATGC 1 cut(s) 682
MvaI CCWGG 1 cut(s) 1150
MwoI GCNNNNNNNGC 1 cut(s) 1027
NdeII GATC 6 cut(s) 82, 101, 247, 470, 787, 1092
NlaIII CATG 5 cut(s) 93, 168, 430, 468, 1138
NmuCI GTSAC 1 cut(s) 699
NspI RCATGY 2 cut(s) 430, 468
NspV TTCGAA 1 cut(s) 328
PciI ACATGT 2 cut(s) 426, 464
PciSI GCTCTTC 1 cut(s) 270
PctI GAATGC 1 cut(s) 682
PdmI GAANNNNTTC 2 cut(s) 615, 1029
PfeI GAWTC 3 cut(s) 367, 622, 661
PflMI CCANNNNNTGG 1 cut(s) 1102
PkrI GCNGC 1 cut(s) 301
PleI GAGTC 4 cut(s) 183, 562, 923, 1051
PpsI GAGTC 4 cut(s) 183, 562, 923, 1051
PscI ACATGT 2 cut(s) 426, 464
Psp6I CCWGG 1 cut(s) 1148
PspFI CCCAGC 1 cut(s) 716
PspGI CCWGG 1 cut(s) 1148
PspPI GGNCC 1 cut(s) 950
PsuI RGATCY 1 cut(s) 101
RsaI GTAC 1 cut(s) 808
RsaNI GTAC 1 cut(s) 807
RseI CAYNNNNRTG 1 cut(s) 425
SapI GCTCTTC 1 cut(s) 270
SaqAI TTAA 2 cut(s) 396, 837
SatI GCNGC 1 cut(s) 300
Sau3AI GATC 6 cut(s) 82, 101, 247, 470, 787, 1092
Sau96I GGNCC 1 cut(s) 950
SchI GAGTC 4 cut(s) 183, 562, 924, 1051
ScrFI CCNGG 1 cut(s) 1150
SduI GDGCHC 1 cut(s) 598
SetI ASST 9 cut(s) 255, 692, 718, 781, 865, 961, 1032, 1050, 1092
SfaNI GCATC 4 cut(s) 241, 762, 831, 1066
SfcI CTRYAG 2 cut(s) 212, 321
SfuI TTCGAA 1 cut(s) 328
SmiMI CAYNNNNRTG 1 cut(s) 425
SspMI CTAG 2 cut(s) 606, 954
StyD4I CCNGG 1 cut(s) 1148
StyI CCWWGG 1 cut(s) 437
TaaI ACNGT 1 cut(s) 325
TaqI TCGA 5 cut(s) 328, 444, 469, 531, 986
TatI WGTACW 1 cut(s) 806
TfiI GAWTC 3 cut(s) 367, 622, 661
Tru1I TTAA 2 cut(s) 396, 837
Tru9I TTAA 2 cut(s) 396, 837
TseFI GTSAC 1 cut(s) 699
TseI GCWGC 1 cut(s) 299
Tsp45I GTSAC 1 cut(s) 699
TspDTI ATGAA 6 cut(s) 234, 635, 843, 906, 1008, 1123
Van91I CCANNNNNTGG 1 cut(s) 1102
XapI RAATTY 2 cut(s) 518, 894
XceI RCATGY 2 cut(s) 430, 468
XcmI CCANNNNNNNNNTGG 1 cut(s) 633
XmnI GAANNNNTTC 2 cut(s) 615, 1029
XspI CTAG 2 cut(s) 606, 954
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.