Rorug05G0540100

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000005
OG0000224
Physical Location & Seq
Reverse (-)
72847252 .. 72848247
996 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug05G0540100.1

Sequence Viewer

Length: 996 bp
ATGGCTGGTCTTGACATTAACCACAACGGCCTAGTCTGGAGATCAGTTACGAGGAATCCTCCAAAACACTACAAAATGAGCATAAAGTCGTTCTCAGGGCTGCAATCAGAGGAAAAGTACGAATCGGGTGAGTTTGAGGTCGGAGGATACAAGTGGAAACTAGTACTCTTCCCCAATGGAAACAAAAACCGTGATGTGAAAGATCACATCTCTCTCTACTTGGAAATGGGTGGAGACAAAGCAATAGAACCCGGGAAGATTGTAACAGTTGATTACAAGTTGTTTTTGCTTAATCGGCACAAGGGGAAAGAATCGTACCTGGTTCTTGAAGATTCCAATAAGAGAGAGAAAAAGTACTGTATTTATCGGACAATTGTTGGTGGTTTGGCTGGTTTTGATCGATTCATCCCTCTTCAAGATTTTAGTGATGCATCAAATGGTTATCTCATTGATGACAGATGTGAGTTTGGAGCAGAGGTCTTTGTTTCTGAAACGACAAGAAAAGGCAAAGGAGAGTGTGTATTCATGAGTCTCAACACTGCTATATACAAGCATGTTTGGAAGGTTACTAACTTTTCGAAGTTAGGCGCTCAACCTTATTACTCACTACCATTCACCGCAAACGATCAAAAATATTGCGCATGGAGACTGGTTCTCTATCCCAAGGGACTTCTCACTGGAAAGGATAGTCGACATCTCTCTCTTCTGTTGTATTTGGATGAACCACATAAGCTTCCTCCTGGATCAAAAATACTTGCGGAATTTACTCTACGCATTTTGGATCAAATCCATGGGAACCATCGTTCTCGTAAAGTTAATGCCTGCTGGTTCATTGCCGAACCCACCAAAAGTGCTTGGGGTTTCGACCAATTGATTACACAAGAAAAAAACGCAAGATTTTCAATGGATGATACTTGCATAATTGAGGTCGAAATTACTATCCAAGGACTTTCTATGCCAAGAATTTCTACACGCCCTTGGCCATGGAATTTTTAA
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

331

Amino Acids

38.05

Weight (kDa)

9.0

Isoelectric Point (pI)

39.79

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
MATH_2 PF22486 23 - 160 6.4e-27 MATH domain
MATH_2 PF22486 184 - 312 3.2e-23 MATH domain
MATH PF00917 189 - 314 6.2e-07 MATH domain
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)
Acc16I TGCGCA 1 cut(s) 640
AccI GTMKAC 1 cut(s) 691
AciI CCGC 2 cut(s) 618, 758
AclWI GGATC 2 cut(s) 751, 789
AcoI YGGCCR 1 cut(s) 980
AcsI RAATTY 3 cut(s) 761, 963, 988
AfaI GTAC 4 cut(s) 119, 165, 317, 356
AgsI TTSAA 3 cut(s) 329, 416, 903
AhlI ACTAGT 1 cut(s) 160
AjnI CCWGG 2 cut(s) 318, 739
AloI GAACNNNNNNTCC 2 cut(s) 787, 819
AluBI AGCT 1 cut(s) 733
AluI AGCT 1 cut(s) 733
Alw26I GTCTC 3 cut(s) 228, 536, 640
AlwI GGATC 2 cut(s) 751, 789
Ama87I CYCGRG 1 cut(s) 251
AoxI GGCC 2 cut(s) 28, 980
ApeKI GCWGC 1 cut(s) 100
ApoI RAATTY 3 cut(s) 761, 963, 988
AspLEI GCGC 2 cut(s) 590, 641
AsuC2I CCSGG 2 cut(s) 252, 253
AsuHPI GGTGA 2 cut(s) 140, 607
AsuII TTCGAA 1 cut(s) 578
AvaI CYCGRG 1 cut(s) 251
BalI TGGCCA 1 cut(s) 982
BbvI GCAGC 1 cut(s) 87
BccI CCATC 1 cut(s) 807
BceAI ACGGC 1 cut(s) 43
BciT130I CCWGG 2 cut(s) 320, 741
BciVI GTATCC 1 cut(s) 140
BcnI CCSGG 2 cut(s) 252, 253
BcoDI GTCTC 3 cut(s) 228, 536, 640
BcuI ACTAGT 1 cut(s) 160
BfaI CTAG 2 cut(s) 32, 161
BfoI RGCGCY 1 cut(s) 591
BfuI GTATCC 1 cut(s) 140
BisI GCNGC 1 cut(s) 101
BlsI GCNGC 1 cut(s) 102
BmcAI AGTACT 2 cut(s) 165, 356
Bme1390I CCNGG 4 cut(s) 252, 253, 320, 741
BmeT110I CYCGRG 1 cut(s) 251
BmiI GGNNCC 1 cut(s) 797
BmrFI CCNGG 4 cut(s) 252, 253, 320, 741
BmsI GCATC 2 cut(s) 418, 440
BplI GAGNNNNNCTC 2 cut(s) 43, 75
BpmI CTGGAG 1 cut(s) 58
Bpu14I TTCGAA 1 cut(s) 578
BpuMI CCSGG 2 cut(s) 252, 253
Bsa29I ATCGAT 1 cut(s) 400
BsaJI CCNNGG 6 cut(s) 251, 663, 790, 943, 977, 983
BsaXI ACNNNNNCTCC 4 cut(s) 462, 492, 504, 534
Bse1I ACTGG 2 cut(s) 654, 682
Bse3DI GCAATG 1 cut(s) 831
BseBI CCWGG 2 cut(s) 320, 741
BseCI ATCGAT 1 cut(s) 400
BseDI CCNNGG 6 cut(s) 251, 663, 790, 943, 977, 983
BseGI GGATG 3 cut(s) 405, 724, 913
BseMI GCAATG 1 cut(s) 831
BseMII CTCAG 1 cut(s) 108
BseNI ACTGG 2 cut(s) 654, 682
BseXI GCAGC 1 cut(s) 87
BshFI GGCC 2 cut(s) 30, 982
BshVI ATCGAT 1 cut(s) 400
BsiHKCI CYCGRG 1 cut(s) 251
BsiSI CCGG 1 cut(s) 252
BslFI GGGAC 1 cut(s) 681
BsmAI GTCTC 3 cut(s) 228, 536, 640
BsmFI GGGAC 1 cut(s) 681
BsnI GGCC 2 cut(s) 30, 982
BsoBI CYCGRG 1 cut(s) 251
Bsp119I TTCGAA 1 cut(s) 578
Bsp143I GATC 6 cut(s) 41, 202, 397, 625, 743, 781
Bsp19I CCATGG 2 cut(s) 790, 983
BspACI CCGC 2 cut(s) 618, 758
BspANI GGCC 2 cut(s) 30, 982
BspCNI CTCAG 1 cut(s) 107
BspDI ATCGAT 1 cut(s) 400
BspHI TCATGA 1 cut(s) 525
BspLI GGNNCC 1 cut(s) 797
BspPI GGATC 2 cut(s) 751, 789
BspT104I TTCGAA 1 cut(s) 578
BsrDI GCAATG 1 cut(s) 831
BsrI ACTGG 2 cut(s) 654, 682
BssECI CCNNGG 6 cut(s) 251, 663, 790, 943, 977, 983
BssMI GATC 6 cut(s) 41, 202, 397, 625, 743, 781
BssT1I CCWWGG 5 cut(s) 663, 790, 943, 977, 983
Bst2UI CCWGG 2 cut(s) 320, 741
Bst4CI ACNGT 3 cut(s) 191, 268, 359
Bst6I CTCTTC 3 cut(s) 173, 417, 708
BstBI TTCGAA 1 cut(s) 578
BstC8I GCNNGC 1 cut(s) 823
BstDEI CTNAG 1 cut(s) 94
BstDSI CCRYGG 2 cut(s) 790, 983
BstF5I GGATG 3 cut(s) 405, 724, 913
BstH2I RGCGCY 1 cut(s) 591
BstHHI GCGC 2 cut(s) 590, 641
BstKTI GATC 6 cut(s) 44, 205, 400, 628, 746, 784
BstMAI GTCTC 3 cut(s) 228, 536, 640
BstMBI GATC 6 cut(s) 41, 202, 397, 625, 743, 781
BstMWI GCNNNNNNNGC 1 cut(s) 295
BstNI CCWGG 2 cut(s) 320, 741
BstNSI RCATGY 1 cut(s) 557
BstSCI CCNGG 4 cut(s) 250, 251, 318, 739
BstV1I GCAGC 1 cut(s) 87
Bsu15I ATCGAT 1 cut(s) 400
BsuI GTATCC 1 cut(s) 140
BsuRI GGCC 2 cut(s) 30, 982
BsuTUI ATCGAT 1 cut(s) 400
BtgI CCRYGG 2 cut(s) 790, 983
BtsCI GGATG 3 cut(s) 405, 724, 913
BtsI GCAGTG 1 cut(s) 537
BtsIMutI CAGTG 2 cut(s) 537, 675
Cac8I GCNNGC 1 cut(s) 823
CciI TCATGA 1 cut(s) 525
CfoI GCGC 2 cut(s) 590, 641
Cfr9I CCCGGG 1 cut(s) 251
ClaI ATCGAT 1 cut(s) 400
CsiI ACCWGGT 1 cut(s) 318
Csp6I GTAC 4 cut(s) 118, 164, 316, 355
CviAII CATG 5 cut(s) 526, 554, 642, 791, 984
CviJI RGCY 6 cut(s) 5, 30, 100, 389, 733, 982
CviKI_1 RGCY 6 cut(s) 5, 30, 100, 389, 733, 982
CviQI GTAC 4 cut(s) 118, 164, 316, 355
DdeI CTNAG 1 cut(s) 94
DpnI GATC 6 cut(s) 43, 204, 399, 627, 745, 783
DpnII GATC 6 cut(s) 41, 202, 397, 625, 743, 781
EaeI YGGCCR 1 cut(s) 980
Eam1104I CTCTTC 3 cut(s) 173, 417, 708
EarI CTCTTC 3 cut(s) 173, 417, 708
Eco130I CCWWGG 5 cut(s) 663, 790, 943, 977, 983
Eco88I CYCGRG 1 cut(s) 251
EcoRII CCWGG 2 cut(s) 318, 739
EcoT14I CCWWGG 5 cut(s) 663, 790, 943, 977, 983
EcoT22I ATGCAT 1 cut(s) 433
ErhI CCWWGG 5 cut(s) 663, 790, 943, 977, 983
FaeI CATG 5 cut(s) 529, 557, 645, 794, 987
FaqI GGGAC 1 cut(s) 681
FatI CATG 5 cut(s) 525, 553, 641, 790, 983
FblI GTMKAC 1 cut(s) 691
Fnu4HI GCNGC 1 cut(s) 101
FokI GGATG 3 cut(s) 392, 731, 920
Fsp4HI GCNGC 1 cut(s) 101
FspBI CTAG 2 cut(s) 32, 161
FspI TGCGCA 1 cut(s) 640
GlaI GCGC 2 cut(s) 589, 640
GluI GCNGC 1 cut(s) 101
GsuI CTGGAG 1 cut(s) 58
HaeII RGCGCY 1 cut(s) 591
HaeIII GGCC 2 cut(s) 30, 982
HapII CCGG 1 cut(s) 252
HhaI GCGC 2 cut(s) 590, 641
Hin1II CATG 5 cut(s) 529, 557, 645, 794, 987
Hin6I GCGC 2 cut(s) 588, 639
HinP1I GCGC 2 cut(s) 588, 639
HincII GTYRAC 1 cut(s) 692
HindII GTYRAC 1 cut(s) 692
HindIII AAGCTT 1 cut(s) 731
HinfI GANTC 6 cut(s) 55, 122, 311, 332, 402, 529
HpaII CCGG 1 cut(s) 252
HphI GGTGA 2 cut(s) 140, 607
Hpy166II GTNNAC 1 cut(s) 692
Hpy188I TCNGA 4 cut(s) 109, 143, 369, 490
Hpy188III TCNNGA 5 cut(s) 11, 37, 326, 416, 526
Hpy8I GTNNAC 1 cut(s) 692
HpyAV CCTTC 1 cut(s) 556
HpyCH4III ACNGT 3 cut(s) 191, 268, 359
HpyCH4V TGCA 3 cut(s) 103, 431, 918
HpyF10VI GCNNNNNNNGC 1 cut(s) 295
HpyF3I CTNAG 1 cut(s) 94
Hsp92II CATG 5 cut(s) 529, 557, 645, 794, 987
HspAI GCGC 2 cut(s) 588, 639
Kzo9I GATC 6 cut(s) 41, 202, 397, 625, 743, 781
LmnI GCTCC 1 cut(s) 470
Lsp1109I GCAGC 1 cut(s) 87
LweI GCATC 2 cut(s) 418, 440
MabI ACCWGGT 1 cut(s) 318
MaeI CTAG 2 cut(s) 32, 161
MaeIII GTNAC 3 cut(s) 46, 262, 565
MalI GATC 6 cut(s) 43, 204, 399, 627, 745, 783
MboI GATC 6 cut(s) 41, 202, 397, 625, 743, 781
MboII GAAGA 5 cut(s) 160, 268, 341, 404, 695
MfeI CAATTG 2 cut(s) 372, 869
MlsI TGGCCA 1 cut(s) 982
MluCI AATT 7 cut(s) 372, 761, 869, 921, 933, 963, 988
MluNI TGGCCA 1 cut(s) 982
MlyI GAGTC 1 cut(s) 538
MmeI TCCRAC 1 cut(s) 121
MnlI CCTC 9 cut(s) 45, 69, 103, 130, 137, 420, 469, 747, 919
Mox20I TGGCCA 1 cut(s) 982
Mph1103I ATGCAT 1 cut(s) 433
MscI TGGCCA 1 cut(s) 982
MseI TTAA 4 cut(s) 18, 291, 816, 994
Msp20I TGGCCA 1 cut(s) 982
MspI CCGG 1 cut(s) 252
MspR9I CCNGG 4 cut(s) 252, 253, 320, 741
MunI CAATTG 2 cut(s) 372, 869
MvaI CCWGG 2 cut(s) 320, 741
MwoI GCNNNNNNNGC 1 cut(s) 295
NciI CCSGG 2 cut(s) 252, 253
NcoI CCATGG 2 cut(s) 790, 983
NdeII GATC 6 cut(s) 41, 202, 397, 625, 743, 781
NlaIII CATG 5 cut(s) 529, 557, 645, 794, 987
NlaIV GGNNCC 1 cut(s) 797
NsbI TGCGCA 1 cut(s) 640
NsiI ATGCAT 1 cut(s) 433
NspI RCATGY 1 cut(s) 557
NspV TTCGAA 1 cut(s) 578
PagI TCATGA 1 cut(s) 525
PfeI GAWTC 5 cut(s) 55, 122, 311, 332, 402
PfoI TCCNGGA 1 cut(s) 739
PkrI GCNGC 1 cut(s) 102
PleI GAGTC 1 cut(s) 537
PpsI GAGTC 1 cut(s) 537
Psp6I CCWGG 2 cut(s) 318, 739
PspGI CCWGG 2 cut(s) 318, 739
PspN4I GGNNCC 1 cut(s) 797
RsaI GTAC 4 cut(s) 119, 165, 317, 356
RsaNI GTAC 4 cut(s) 118, 164, 316, 355
SalI GTCGAC 1 cut(s) 690
SaqAI TTAA 4 cut(s) 18, 291, 816, 994
SatI GCNGC 1 cut(s) 101
Sau3AI GATC 6 cut(s) 41, 202, 397, 625, 743, 781
ScaI AGTACT 2 cut(s) 165, 356
SchI GAGTC 1 cut(s) 538
ScrFI CCNGG 4 cut(s) 252, 253, 320, 741
SetI ASST 7 cut(s) 141, 321, 480, 567, 598, 735, 930
SexAI ACCWGGT 1 cut(s) 318
SfaNI GCATC 2 cut(s) 418, 440
SfuI TTCGAA 1 cut(s) 578
SmaI CCCGGG 1 cut(s) 253
SpeI ACTAGT 1 cut(s) 160
Sse9I AATT 7 cut(s) 372, 761, 869, 921, 933, 963, 988
SsiI CCGC 2 cut(s) 618, 758
SspI AATATT 1 cut(s) 635
SspMI CTAG 2 cut(s) 32, 161
StyD4I CCNGG 4 cut(s) 250, 251, 318, 739
StyI CCWWGG 5 cut(s) 663, 790, 943, 977, 983
TaaI ACNGT 3 cut(s) 191, 268, 359
TaqI TCGA 5 cut(s) 400, 578, 691, 864, 930
TasI AATT 7 cut(s) 372, 761, 869, 921, 933, 963, 988
TatI WGTACW 2 cut(s) 163, 354
TfiI GAWTC 5 cut(s) 55, 122, 311, 332, 402
Tru1I TTAA 4 cut(s) 18, 291, 816, 994
Tru9I TTAA 4 cut(s) 18, 291, 816, 994
TscAI CASTG 2 cut(s) 544, 682
TseI GCWGC 1 cut(s) 100
TspDTI ATGAA 4 cut(s) 394, 514, 735, 820
TspMI CCCGGG 1 cut(s) 251
TspRI CASTG 2 cut(s) 544, 682
XapI RAATTY 3 cut(s) 761, 963, 988
XceI RCATGY 1 cut(s) 557
XmaI CCCGGG 1 cut(s) 251
XmiI GTMKAC 1 cut(s) 691
XspI CTAG 2 cut(s) 32, 161
ZrmI AGTACT 2 cut(s) 165, 356
Zsp2I ATGCAT 1 cut(s) 433
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.