Rmu_sc0002868.1_g000038

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0002868.1
OG0000178
Physical Location & Seq
Forward (+)
117290 .. 118625
1336 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0002868.1_g000038.1.cds

Sequence Viewer

Length: 1011 bp
atgcataattttaagggctatgttagaaacaaagctcgtccagagggttcaatagcaggtccagagggttcaatagcagaagggtattgcgatagtgaatgccttacattctgctctatgtattttcatggtattgaaacaaagtttaaccaggcataccgtaattttgatggaagaactgaaagaatggagtcaggcttatctgttttcaagcaaaatgttaggctgtttatgggaggaattgatgatgtgcttagtccgacagattttgaaatgattaagtggtccaacggatgcaccaagaagtcaattgctagacatagtggttgtattattaatggaataaggtttcacactcgagatcgcgatgcaaagaaaaaaacccaaaataatggggtggttgttaaaggagagcatcgtggtaagagtatcgatttttatggcattttgatagacattattgagctatcatatcttggaagaaatcaagttgttcttttcaagtgcgattggtacgatctcactcaaaagaggggtatccaagttgatgaacatcaattcactagtatcaatatcagtaaaacatggtacacaaactatccattttctttggcatctcagacccaacaagtgtactatttacgagatactaggcttggtaataattggcgtgtcgtagagaggtcacaacctcgagggaattatgatgttgtagaaaaagaagcagaagaaaatgagctatgtgattcagcagtgctagcagaggatccttatcaacaagagtcgcatgattttgtcaatcctattgaggttaatgatggctacgtgtcattaagtagggaagacatggaaatgattgttgtggatttgaatgacaaaagacaacgaagagaaaatgatagcttcattaatgattatagtgacgctaaagatggtggctctagtgatgaaaatgttgagggggaatatgtctcatctgaggatgatattcatgatgcttatgttgtatag
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

336

Amino Acids

38.64

Weight (kDa)

5.01

Isoelectric Point (pI)

36.61

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: OG0000178)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G40087 AT3G30200
fragaria_vesca FvH4_1g23271 FvH4_3g22812 FvH4_3g22813 FvH4_3g31042 FvH4_3g31043 FvH4_7g03653
malus_domestica MD05G1321200.v1.1 MD09G1027200.v1.1 MD15G1434900.v1.1 MD15G1435000.v1.1 MD15G1435100.v1.1
prunus_persica Prupe.1G578800_v2.0.a1 Prupe.1G578800_v2.0.a1 Prupe.1G578800_v2.0.a1 Prupe.2G062700_v2.0.a1 Prupe.5G033400_v2.0.a1 Prupe.7G022900_v2.0.a1 Prupe.7G105300_v2.0.a1 Prupe.7G105300_v2.0.a1 Prupe.7G105300_v2.0.a1 Prupe.7G105300_v2.0.a1 Prupe.7G105300_v2.0.a1 Prupe.7G105300_v2.0.a1 Prupe.7G105300_v2.0.a1
pyrus_communis pycom03g07600 pycom03g11360 pycom05g02870 pycom111g02130 pycom15g38370 pycom15g38380
rosa_chinensis RchiOBHm_Chr1g0346371 RchiOBHm_Chr4g0402051 RchiOBHm_Chr4g0414991 RchiOBHm_Chr5g0051011 RchiOBHm_Chr5g0051181 RchiOBHm_Chr6g0273071 RchiOBHm_Chr7g0218301 RchiOBHm_Chr7g0241081
rosa_laevigata RLG00000007709 RLG00000008953 RLG00000012400 RLG00000012401 RLG00000013805 RLG00000014199 RLG00000014726 RLG00000017792 RLG00000017793 RLG00000018860 RLG00000020749 RLG00000030708 RLG00000033507
rosa_multiflora Rmu_co8373761.1_g000001 Rmu_sc0000028.1_g000023 Rmu_sc0000235.1_g000040 Rmu_sc0000293.1_g000017 Rmu_sc0000293.1_g000019 Rmu_sc0000651.1_g000012 Rmu_sc0000870.1_g000051 Rmu_sc0001167.1_g000031 Rmu_sc0001373.1_g000039 Rmu_sc0001861.1_g000055 Rmu_sc0001891.1_g000038 Rmu_sc0001909.1_g000015 Rmu_sc0002500.1_g000002 Rmu_sc0002868.1_g000036 Rmu_sc0002868.1_g000038 Rmu_sc0002868.1_g000039 Rmu_sc0003379.1_g000001 Rmu_sc0003778.1_g000005 Rmu_sc0003778.1_g000006 Rmu_sc0010475.1_g000011 Rmu_sc0015271.1_g000002 Rmu_sc0015271.1_g000003 Rmu_sc0017962.1_g000001 Rmu_sc0017962.1_g000003 Rmu_sc0022129.1_g000004 Rmu_sc0025694.1_g000003 Rmu_sc0025694.1_g000004
rosa_roxburghii Rroxscaffold_1G00031640 Rroxscaffold_1G00047620 Rroxscaffold_1G00047630 Rroxscaffold_1G00050560 Rroxscaffold_1G00050570 Rroxscaffold_1G00054800 Rroxscaffold_1G00055890 Rroxscaffold_2G00108230 Rroxscaffold_3G00240860 Rroxscaffold_4G00299670 Rroxscaffold_4G00299680 Rroxscaffold_4G00299690 Rroxscaffold_4G00306320 Rroxscaffold_4G00306340 Rroxscaffold_5G00341060 Rroxscaffold_5G00342000 Rroxscaffold_5G00355660 Rroxscaffold_5G00357170 Rroxscaffold_6G00399490 Rroxscaffold_6G00408400 Rroxscaffold_7G00189260 Rroxscaffold_7G00199620 Rroxscaffold_7G00215470
rosa_rugosa Rorug02G0117600 Rorug02G0117700 Rorug04G0116400 Rorug06G0103200
rosa_samantha Rh1AG062800 Rh1AG073700 Rh1CG091700 Rh1DG077600 Rh1DG077700 Rh1DG077800 Rh1DG117400 Rh1DG146300 Rh2BG193300 Rh2BG193400 Rh2BG265300 Rh2BG413400 Rh3CG365500 Rh4AG315400 Rh4BG323100 Rh4BG323200 Rh4CG071400 Rh4CG142500 Rh4CG203300 Rh4CG338300 Rh4DG079300 Rh4DG079400 Rh4DG217000 Rh4DG217100 Rh4DG217200 Rh4DG217300 Rh5AG128300 Rh5AG239900 Rh5AG465900 Rh5BG348600 Rh5BG387900 Rh5BG388000 Rh5CG181800 Rh5CG181900 Rh5CG271000 Rh5CG271100 Rh5DG127100 Rh5DG138400 Rh5DG168200 Rh5DG168300 Rh5DG361500 Rh5DG460400 Rh6AG045400 Rh6AG058600 Rh6BG275000 Rh6CG089700 Rh6DG182300 Rh6DG182400 Rh6DG207300 Rh6DG207400 Rh7BG374000 Rh7BG390600 Rh7BG390700 Rh7BG390800
rosa_wichuraiana Rw0G018690 Rw1G007320 Rw4G008510 Rw5G011510 Rw5G021830 Rw6G024150

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AbsI CCTCGAGG 1 cut(s) 693
Acc36I ACCTGC 1 cut(s) 47
AccII CGCG 1 cut(s) 366
AclWI GGATC 2 cut(s) 761, 774
AfaI GTAC 3 cut(s) 515, 590, 635
AflIII ACRYGT 1 cut(s) 825
AgsI TTSAA 7 cut(s) 51, 72, 137, 211, 272, 502, 871
AhlI ACTAGT 1 cut(s) 563
AjnI CCWGG 1 cut(s) 150
AluBI AGCT 4 cut(s) 35, 466, 739, 903
AluI AGCT 4 cut(s) 35, 466, 739, 903
Alw26I GTCTC 1 cut(s) 976
AlwI GGATC 2 cut(s) 761, 774
Ama87I CYCGRG 2 cut(s) 357, 693
AseI ATTAAT 2 cut(s) 336, 909
AspS9I GGNCC 2 cut(s) 59, 285
AsuNHI GCTAGC 1 cut(s) 757
AvaI CYCGRG 2 cut(s) 357, 693
AvaII GGWCC 2 cut(s) 59, 285
BamHI GGATCC 1 cut(s) 766
BbsI GAAGAC 1 cut(s) 849
BccI CCATC 3 cut(s) 164, 812, 926
BciT130I CCWGG 1 cut(s) 152
BciVI GTATCC 1 cut(s) 548
BcoDI GTCTC 1 cut(s) 976
BcuI ACTAGT 1 cut(s) 563
BfaI CTAG 5 cut(s) 315, 564, 651, 758, 942
BfuAI ACCTGC 1 cut(s) 47
BfuI GTATCC 1 cut(s) 548
Bme1390I CCNGG 1 cut(s) 152
Bme18I GGWCC 2 cut(s) 59, 285
BmeT110I CYCGRG 2 cut(s) 357, 693
BmgT120I GGNCC 2 cut(s) 59, 285
BmiI GGNNCC 1 cut(s) 768
BmrFI CCNGG 1 cut(s) 152
BmsI GCATC 5 cut(s) 284, 358, 424, 623, 985
BmtI GCTAGC 1 cut(s) 761
BpiI GAAGAC 1 cut(s) 849
Bsa29I ATCGAT 1 cut(s) 432
BsaAI YACGTR 1 cut(s) 826
BsaBI GATNNNNATC 2 cut(s) 552, 771
Bse8I GATNNNNATC 2 cut(s) 552, 771
BseBI CCWGG 1 cut(s) 152
BseCI ATCGAT 1 cut(s) 432
BseGI GGATG 2 cut(s) 299, 988
BseJI GATNNNNATC 2 cut(s) 552, 771
BseMII CTCAG 2 cut(s) 632, 969
Bsh1236I CGCG 1 cut(s) 366
BshVI ATCGAT 1 cut(s) 432
BsiHKCI CYCGRG 2 cut(s) 357, 693
BsmAI GTCTC 1 cut(s) 976
BsmI GAATGC 1 cut(s) 104
BsoBI CYCGRG 2 cut(s) 357, 693
Bsp143I GATC 3 cut(s) 361, 517, 766
Bsp68I TCGCGA 1 cut(s) 366
BspCNI CTCAG 2 cut(s) 631, 970
BspDI ATCGAT 1 cut(s) 432
BspFNI CGCG 1 cut(s) 366
BspHI TCATGA 1 cut(s) 991
BspLI GGNNCC 1 cut(s) 768
BspMI ACCTGC 1 cut(s) 47
BspOI GCTAGC 1 cut(s) 761
BspPI GGATC 2 cut(s) 761, 774
BssMI GATC 3 cut(s) 361, 517, 766
Bst2UI CCWGG 1 cut(s) 152
Bst4CI ACNGT 1 cut(s) 161
Bst6I CTCTTC 1 cut(s) 883
BstBAI YACGTR 1 cut(s) 826
BstC8I GCNNGC 1 cut(s) 759
BstDEI CTNAG 3 cut(s) 254, 618, 978
BstF5I GGATG 2 cut(s) 299, 988
BstFNI CGCG 1 cut(s) 366
BstKTI GATC 3 cut(s) 364, 520, 769
BstMAI GTCTC 1 cut(s) 976
BstMBI GATC 3 cut(s) 361, 517, 766
BstMWI GCNNNNNNNGC 1 cut(s) 758
BstNI CCWGG 1 cut(s) 152
BstSCI CCNGG 1 cut(s) 150
BstUI CGCG 1 cut(s) 366
BstV2I GAAGAC 1 cut(s) 849
BstX2I RGATCY 1 cut(s) 766
BstXI CCANNNNNNTGG 1 cut(s) 392
BstYI RGATCY 1 cut(s) 766
Bsu15I ATCGAT 1 cut(s) 432
BsuI GTATCC 1 cut(s) 548
BsuTUI ATCGAT 1 cut(s) 432
BtgZI GCGATG 1 cut(s) 381
BtsCI GGATG 2 cut(s) 299, 988
BtsI GCAGTG 1 cut(s) 759
BtsIMutI CAGTG 1 cut(s) 759
BtuMI TCGCGA 1 cut(s) 366
BveI ACCTGC 1 cut(s) 47
Cac8I GCNNGC 1 cut(s) 759
CciI TCATGA 1 cut(s) 991
Cfr13I GGNCC 2 cut(s) 59, 285
ClaI ATCGAT 1 cut(s) 432
CseI GACGC 1 cut(s) 932
Csp6I GTAC 3 cut(s) 514, 589, 634
CviAII CATG 5 cut(s) 128, 585, 788, 847, 992
CviQI GTAC 3 cut(s) 514, 589, 634
DdeI CTNAG 3 cut(s) 254, 618, 978
DpnI GATC 3 cut(s) 363, 519, 768
DpnII GATC 3 cut(s) 361, 517, 766
Eam1104I CTCTTC 1 cut(s) 883
EarI CTCTTC 1 cut(s) 883
Eco47I GGWCC 2 cut(s) 59, 285
Eco88I CYCGRG 2 cut(s) 357, 693
EcoRII CCWGG 1 cut(s) 150
EcoT22I ATGCAT 1 cut(s) 6
FaeI CATG 5 cut(s) 131, 588, 791, 850, 995
FalI AAGNNNNNCTT 2 cut(s) 480, 512
FatI CATG 5 cut(s) 127, 584, 787, 846, 991
FokI GGATG 2 cut(s) 306, 995
FspBI CTAG 5 cut(s) 315, 564, 651, 758, 942
HgaI GACGC 1 cut(s) 932
Hin1II CATG 5 cut(s) 131, 588, 791, 850, 995
HinfI GANTC 3 cut(s) 191, 746, 782
Hpy166II GTNNAC 2 cut(s) 591, 634
Hpy188I TCNGA 3 cut(s) 261, 621, 979
Hpy188III TCNNGA 5 cut(s) 41, 62, 359, 365, 992
Hpy8I GTNNAC 2 cut(s) 591, 634
HpyAV CCTTC 1 cut(s) 74
HpyCH4III ACNGT 1 cut(s) 161
HpyCH4IV ACGT 1 cut(s) 825
HpyCH4V TGCA 3 cut(s) 4, 297, 371
HpyF10VI GCNNNNNNNGC 1 cut(s) 758
HpyF3I CTNAG 3 cut(s) 254, 618, 978
HpySE526I ACGT 1 cut(s) 825
Hsp92II CATG 5 cut(s) 131, 588, 791, 850, 995
Kzo9I GATC 3 cut(s) 361, 517, 766
LpnPI CCDG 6 cut(s) 42, 54, 75, 137, 164, 180
LweI GCATC 5 cut(s) 284, 358, 424, 623, 985
MaeI CTAG 5 cut(s) 315, 564, 651, 758, 942
MaeII ACGT 1 cut(s) 825
MaeIII GTNAC 2 cut(s) 684, 920
MalI GATC 3 cut(s) 363, 519, 768
MboI GATC 3 cut(s) 361, 517, 766
MboII GAAGA 5 cut(s) 186, 492, 740, 854, 900
MfeI CAATTG 1 cut(s) 309
MflI RGATCY 1 cut(s) 766
MluCI AATT 7 cut(s) 7, 163, 240, 309, 557, 664, 700
MlyI GAGTC 2 cut(s) 200, 791
MmeI TCCRAC 2 cut(s) 284, 312
Mph1103I ATGCAT 1 cut(s) 6
MseI TTAA 8 cut(s) 12, 147, 279, 336, 405, 813, 833, 909
MslI CAYNNNNRTG 1 cut(s) 851
MspR9I CCNGG 1 cut(s) 152
MunI CAATTG 1 cut(s) 309
Mva1269I GAATGC 1 cut(s) 104
MvaI CCWGG 1 cut(s) 152
MvnI CGCG 1 cut(s) 366
MwoI GCNNNNNNNGC 1 cut(s) 758
NdeII GATC 3 cut(s) 361, 517, 766
NheI GCTAGC 1 cut(s) 757
NlaIII CATG 5 cut(s) 131, 588, 791, 850, 995
NlaIV GGNNCC 1 cut(s) 768
NmuCI GTSAC 2 cut(s) 684, 920
NruI TCGCGA 1 cut(s) 366
NsiI ATGCAT 1 cut(s) 6
PaeR7I CTCGAG 2 cut(s) 357, 693
PagI TCATGA 1 cut(s) 991
PctI GAATGC 1 cut(s) 104
PfeI GAWTC 1 cut(s) 746
PleI GAGTC 2 cut(s) 199, 790
PpsI GAGTC 2 cut(s) 199, 790
Ppu21I YACGTR 1 cut(s) 826
PshBI ATTAAT 2 cut(s) 336, 909
Psp6I CCWGG 1 cut(s) 150
PspGI CCWGG 1 cut(s) 150
PspN4I GGNNCC 1 cut(s) 768
PspPI GGNCC 2 cut(s) 59, 285
PspXI VCTCGAGB 1 cut(s) 693
PsuI RGATCY 1 cut(s) 766
RruI TCGCGA 1 cut(s) 366
RsaI GTAC 3 cut(s) 515, 590, 635
RsaNI GTAC 3 cut(s) 514, 589, 634
RseI CAYNNNNRTG 1 cut(s) 851
SaqAI TTAA 8 cut(s) 12, 147, 279, 336, 405, 813, 833, 909
Sau3AI GATC 3 cut(s) 361, 517, 766
Sau96I GGNCC 2 cut(s) 59, 285
SchI GAGTC 2 cut(s) 200, 791
ScrFI CCNGG 1 cut(s) 152
SfaNI GCATC 5 cut(s) 284, 358, 424, 623, 985
Sfr274I CTCGAG 2 cut(s) 357, 693
SinI GGWCC 2 cut(s) 59, 285
SlaI CTCGAG 2 cut(s) 357, 693
SmiMI CAYNNNNRTG 1 cut(s) 851
SmlI CTYRAG 2 cut(s) 357, 693
SmoI CTYRAG 2 cut(s) 357, 693
SpeI ACTAGT 1 cut(s) 563
Sse9I AATT 7 cut(s) 7, 163, 240, 309, 557, 664, 700
SspMI CTAG 5 cut(s) 315, 564, 651, 758, 942
StyD4I CCNGG 1 cut(s) 150
TaaI ACNGT 1 cut(s) 161
TaiI ACGT 1 cut(s) 828
TaqI TCGA 3 cut(s) 358, 432, 694
TasI AATT 7 cut(s) 7, 163, 240, 309, 557, 664, 700
TatI WGTACW 1 cut(s) 633
TfiI GAWTC 1 cut(s) 746
Tru1I TTAA 8 cut(s) 12, 147, 279, 336, 405, 813, 833, 909
Tru9I TTAA 8 cut(s) 12, 147, 279, 336, 405, 813, 833, 909
TscAI CASTG 1 cut(s) 759
TseFI GTSAC 2 cut(s) 684, 920
Tsp45I GTSAC 2 cut(s) 684, 920
TspDTI ATGAA 5 cut(s) 116, 564, 895, 963, 980
TspGWI ACGGA 1 cut(s) 306
TspRI CASTG 1 cut(s) 759
VpaK11BI GGWCC 2 cut(s) 59, 285
VspI ATTAAT 2 cut(s) 336, 909
XhoI CTCGAG 2 cut(s) 357, 693
XspI CTAG 5 cut(s) 315, 564, 651, 758, 942
Zsp2I ATGCAT 1 cut(s) 6
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.