Rh1DG282500

Transcriptional Coactivator p15 (PC4)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1D
OG0000258
Physical Location & Seq
Forward (+)
50440683 .. 50443619
2937 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1DG282500.1

Sequence Viewer

Length: 1170 bp
ATGGAATCGAAGTTAAGATCTGAAATTGATAGTAAACGAACTGAAGACGGTCAAGAAACTAAAGATGGCAAACAAACTGAAGGTAGCAAACAAACTGAAGATGGTAAACAAGTTGAAGATGGCAAACGAACTGAAGGTAGCAAACGAACTGAAGATGGTAAACAAGCTGAAGATGGCAAACAATCTGAAGCTAGCAAACGAATTGAAGATGGAGAACAAAATGGAGATGGTAAACAAACTGAAGATGCTAGACAAAGTGAAGACATGTCTGCTTCACTGAATGGTGTTGCTCCTCGCGAATTTTTCTCTATTGAAACTTGCCGTTTTAATGGGAAGAACTACCCTATCTGGGCACAACAGATGGAGTTTATGCTAAAGCAATTGAAAATTGCATATGTGCTTTTTGTTTCATGCCCAGTCATTACATTAGGCCCGGAACCAAGTACTGAAGAAATTGCTCAAGCAAAGGCTGCTGAACAGCAATGGAGGAATGATGACTCTGTGTGCCGTCGCAGCATCTTGAATGCTCTATCTGATGATCTGTTAAATCTTTACTCAAGGAGAACTACGACTGCAAAAGAACTGTGGGAAGATCTAAAACAATTGCATCTCTATGAGAAATTTGGAACGAAGAGATCTCTGGTTAAAAAGTATATGGAATTTCAGATGCTTGAAGGAAGACCAGTTTTGGAGCAAATTCAAGAATTTAATAACATTGCCGATTCCATTGTTGCTTCTGGAATGGTGGTCGAGGAGAAATTTCATGTCAGTGCCGTTATCTCCAAGCTTCCCCCATCTTGGAAGGATGTGAGTATCAAGTTGATGTCTGAGGAGCATTTACCTTTTGCAAATATGATGGATCGTTTGAGGTTTGAAGAAGACTTGCGGACCAGGGAGCAGCAGGGGTTACCCATTAATCATGCTGGCAATCCACCAGTGAAACCCATACCAAGGATTAGAGATATGAAGCAGCGAAATATGCAATGGAAGAGGTCAGACCTGGAGATTGATGGTAGAGTTATTTGCCAATTTTGTGGCAAGAAGGGGCACATCTCTCAGAACTGTCGTTATAATAATAAGAGGAAGTTTACCAAGGATGTTAACGATGAGAGTCACGACGGATCTATGCCTATGGAGGTTAACATGCTGGAGGAGACTGTGGATGGCTAA
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
DEK_C PC4 Retrotran_gag_2 zf-CCHC

Protein Analysis

389

Amino Acids

44.65

Weight (kDa)

5.57

Isoelectric Point (pI)

67.94

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 148 - 298 8.5e-22 gag-polypeptide of LTR copia-type
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: OG0000258)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G00980
fragaria_vesca FvH4_1g25682 FvH4_2g13961 FvH4_2g20162 FvH4_2g24753 FvH4_3g12191 FvH4_3g12632 FvH4_3g16171 FvH4_4g05871 FvH4_4g05873 FvH4_4g10121 FvH4_4g15488 FvH4_4g23911 FvH4_4g27782 FvH4_5g08912 FvH4_5g23001 FvH4_5g24552 FvH4_5g32801 FvH4_5g32802 FvH4_6g05093 FvH4_6g19722 FvH4_6g20391 FvH4_6g33792 FvH4_7g01381 FvH4_7g16761 FvH4_7g16761 FvH4_7g16761
malus_domestica MD01G1082500.v1.1 MD15G1436400.v1.1
prunus_persica Prupe.2G021400_v2.0.a1 Prupe.2G052400_v2.0.a1 Prupe.2G065000_v2.0.a1 Prupe.2G187700_v2.0.a1 Prupe.2G187800_v2.0.a1 Prupe.2G189900_v2.0.a1 Prupe.2G191300_v2.0.a1 Prupe.2G191700_v2.0.a1 Prupe.4G265600_v2.0.a1 Prupe.7G014200_v2.0.a1 Prupe.7G039000_v2.0.a1
pyrus_communis pycom01g05590 pycom01g05910 pycom02g12230 pycom02g25840 pycom03g15580 pycom04g04480 pycom05g09230 pycom05g23350 pycom05g23360 pycom07g08380 pycom09g01980 pycom09g01990 pycom11g18190 pycom11g18200 pycom11g21580 pycom13g04160 pycom15g25800 pycom16g16210 pycom16g17230 pycom16g24560 pycom16g25700 pycom17g11020
rosa_chinensis RchiOBHm_Chr1g0359981 RchiOBHm_Chr2g0151961 RchiOBHm_Chr2g0171331 RchiOBHm_Chr5g0081471 RchiOBHm_Chr6g0283031 RchiOBHm_Chr7g0197111 RchiOBHm_Chr7g0222601
rosa_laevigata RLG00000027843 RLG00000027845 RLG00000030065
rosa_multiflora Rmu_sc0000381.1_g000031 Rmu_sc0001179.1_g000035 Rmu_sc0001616.1_g000046 Rmu_sc0001851.1_g000032 Rmu_sc0002152.1_g000013 Rmu_sc0004031.1_g000015 Rmu_sc0004645.1_g000003 Rmu_sc0007393.1_g000001 Rmu_sc0008949.1_g000003 Rmu_sc0009799.1_g000011 Rmu_sc0011614.1_g000001 Rmu_sc0011699.1_g000009 Rmu_sc0019280.1_g000001 Rmu_sc0023984.1_g000001 Rmu_ssc0000050.1_g000036
rosa_roxburghii Rroxscaffold_1G00022650 Rroxscaffold_1G00033480 Rroxscaffold_3G00270250 Rroxscaffold_4G00296600 Rroxscaffold_4G00296760 Rroxscaffold_6G00409840
rosa_rugosa Rorug01G0273800 Rorug01G0273900 Rorug01G0274000
rosa_samantha Rh1AG287300 Rh1AG288100 Rh1BG253000 Rh1BG253500 Rh1BG399800 Rh1CG270400 Rh1CG271000 Rh1DG282000 Rh1DG282500 Rh4DG126500 Rh5DG194600 Rh5DG461100
rosa_wichuraiana Rw0G009130 Rw1G002590 Rw1G008490 Rw1G012210 Rw1G014290 Rw1G014490 Rw1G025510 Rw2G025840 Rw2G026170 Rw2G036510 Rw3G003050 Rw4G009270 Rw5G002350 Rw5G013930 Rw5G019500 Rw5G025890 Rw5G029960 Rw5G032360 Rw6G009890 Rw6G015670 Rw6G015860 Rw7G010030 Rw7G032600 Rw7G032770

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 1071
AccII CGCG 1 cut(s) 297
AciI CCGC 1 cut(s) 886
AclWI GGATC 2 cut(s) 867, 1129
AcsI RAATTY 6 cut(s) 299, 620, 659, 696, 704, 758
AcuI CTGAAG 9 cut(s) 63, 99, 117, 153, 171, 189, 207, 261, 468
AfaI GTAC 1 cut(s) 445
AfiI CCNNNNNNNGG 3 cut(s) 349, 798, 951
AflIII ACRYGT 1 cut(s) 264
AgsI TTSAA 8 cut(s) 116, 206, 314, 385, 523, 674, 701, 875
AjnI CCWGG 2 cut(s) 890, 999
AluBI AGCT 3 cut(s) 167, 191, 787
AluI AGCT 3 cut(s) 167, 191, 787
Alw26I GTCTC 1 cut(s) 1148
AlwI GGATC 2 cut(s) 867, 1129
AoxI GGCC 1 cut(s) 430
ApeKI GCWGC 4 cut(s) 470, 513, 898, 970
ApoI RAATTY 6 cut(s) 299, 620, 659, 696, 704, 758
AseI ATTAAT 1 cut(s) 915
AspS9I GGNCC 2 cut(s) 431, 888
AsuC2I CCSGG 1 cut(s) 434
AsuNHI GCTAGC 1 cut(s) 191
AvaII GGWCC 1 cut(s) 888
BaeGI GKGCMC 2 cut(s) 355, 1050
BbsI GAAGAC 4 cut(s) 51, 267, 685, 885
BbvI GCAGC 4 cut(s) 457, 525, 910, 982
BceAI ACGGC 3 cut(s) 306, 492, 758
BciT130I CCWGG 2 cut(s) 892, 1001
BcnI CCSGG 1 cut(s) 434
BcoDI GTCTC 1 cut(s) 1148
BfaI CTAG 2 cut(s) 192, 249
BglII AGATCT 3 cut(s) 17, 592, 635
BisI GCNGC 4 cut(s) 471, 514, 899, 971
BlsI GCNGC 4 cut(s) 472, 515, 900, 972
BmcAI AGTACT 1 cut(s) 445
Bme1390I CCNGG 3 cut(s) 434, 892, 1001
Bme18I GGWCC 1 cut(s) 888
BmgT120I GGNCC 2 cut(s) 431, 888
BmiI GGNNCC 1 cut(s) 438
BmrFI CCNGG 3 cut(s) 434, 892, 1001
BmrI ACTGGG 1 cut(s) 410
BmsI GCATC 4 cut(s) 235, 525, 616, 657
BmtI GCTAGC 1 cut(s) 195
BmuI ACTGGG 1 cut(s) 410
BpiI GAAGAC 4 cut(s) 51, 267, 685, 885
BpmI CTGGAG 2 cut(s) 1022, 1169
BpuEI CTTGAG 2 cut(s) 444, 541
BpuMI CCSGG 1 cut(s) 434
BsaJI CCNNGG 3 cut(s) 891, 950, 1092
Bsc4I CCNNNNNNNGG 3 cut(s) 349, 798, 951
Bse1I ACTGG 3 cut(s) 416, 683, 935
Bse3DI GCAATG 3 cut(s) 488, 714, 989
BseBI CCWGG 2 cut(s) 892, 1001
BseDI CCNNGG 3 cut(s) 891, 950, 1092
BseGI GGATG 3 cut(s) 811, 1102, 1168
BseLI CCNNNNNNNGG 3 cut(s) 349, 798, 951
BseMI GCAATG 3 cut(s) 488, 714, 989
BseMII CTCAG 2 cut(s) 819, 1070
BseNI ACTGG 3 cut(s) 416, 683, 935
BseRI GAGGAG 4 cut(s) 282, 767, 845, 1166
BseSI GKGCMC 2 cut(s) 355, 1050
BseXI GCAGC 4 cut(s) 457, 525, 910, 982
Bsh1236I CGCG 1 cut(s) 297
BshFI GGCC 1 cut(s) 432
BsiSI CCGG 1 cut(s) 434
BslI CCNNNNNNNGG 3 cut(s) 349, 798, 951
BsmAI GTCTC 1 cut(s) 1148
BsmI GAATGC 1 cut(s) 529
BsnI GGCC 1 cut(s) 432
Bsp1286I GDGCHC 2 cut(s) 355, 1050
Bsp143I GATC 6 cut(s) 17, 538, 592, 635, 859, 1121
Bsp68I TCGCGA 1 cut(s) 297
BspACI CCGC 1 cut(s) 886
BspANI GGCC 1 cut(s) 432
BspCNI CTCAG 2 cut(s) 820, 1069
BspFNI CGCG 1 cut(s) 297
BspLI GGNNCC 1 cut(s) 438
BspOI GCTAGC 1 cut(s) 195
BspPI GGATC 2 cut(s) 867, 1129
BsrDI GCAATG 3 cut(s) 488, 714, 989
BsrI ACTGG 3 cut(s) 416, 683, 935
BssECI CCNNGG 3 cut(s) 891, 950, 1092
BssMI GATC 6 cut(s) 17, 538, 592, 635, 859, 1121
BssT1I CCWWGG 2 cut(s) 950, 1092
Bst2UI CCWGG 2 cut(s) 892, 1001
Bst4CI ACNGT 4 cut(s) 50, 585, 1064, 1159
Bst6I CTCTTC 2 cut(s) 626, 983
BstAPI GCANNNNNTGC 1 cut(s) 470
BstC8I GCNNGC 2 cut(s) 193, 925
BstDEI CTNAG 2 cut(s) 828, 1056
BstEII GGTNACC 1 cut(s) 906
BstF5I GGATG 3 cut(s) 811, 1102, 1168
BstFNI CGCG 1 cut(s) 297
BstKTI GATC 6 cut(s) 20, 541, 595, 638, 862, 1124
BstMAI GTCTC 1 cut(s) 1148
BstMBI GATC 6 cut(s) 17, 538, 592, 635, 859, 1121
BstMWI GCNNNNNNNGC 3 cut(s) 470, 513, 979
BstNI CCWGG 2 cut(s) 892, 1001
BstNSI RCATGY 2 cut(s) 268, 1147
BstPI GGTNACC 1 cut(s) 906
BstSCI CCNGG 3 cut(s) 432, 890, 999
BstSLI GKGCMC 2 cut(s) 355, 1050
BstUI CGCG 1 cut(s) 297
BstV1I GCAGC 4 cut(s) 457, 525, 910, 982
BstV2I GAAGAC 4 cut(s) 51, 267, 685, 885
BstX2I RGATCY 4 cut(s) 17, 592, 635, 1121
BstXI CCANNNNNNTGG 1 cut(s) 1034
BstYI RGATCY 4 cut(s) 17, 592, 635, 1121
BsuRI GGCC 1 cut(s) 432
BtsCI GGATG 3 cut(s) 811, 1102, 1168
BtsIMutI CAGTG 3 cut(s) 275, 775, 942
BtuMI TCGCGA 1 cut(s) 297
Cac8I GCNNGC 2 cut(s) 193, 925
Cfr13I GGNCC 2 cut(s) 431, 888
Csp6I GTAC 1 cut(s) 444
CviAII CATG 5 cut(s) 265, 411, 764, 920, 1144
CviJI RGCY 6 cut(s) 167, 191, 432, 470, 787, 1167
CviKI_1 RGCY 6 cut(s) 167, 191, 432, 470, 787, 1167
CviQI GTAC 1 cut(s) 444
DdeI CTNAG 2 cut(s) 828, 1056
DpnI GATC 6 cut(s) 19, 540, 594, 637, 861, 1123
DpnII GATC 6 cut(s) 17, 538, 592, 635, 859, 1121
Eam1104I CTCTTC 2 cut(s) 626, 983
EarI CTCTTC 2 cut(s) 626, 983
Eco130I CCWWGG 2 cut(s) 950, 1092
Eco47I GGWCC 1 cut(s) 888
Eco57I CTGAAG 9 cut(s) 63, 99, 117, 153, 171, 189, 207, 261, 468
Eco91I GGTNACC 1 cut(s) 906
EcoO65I GGTNACC 1 cut(s) 906
EcoRII CCWGG 2 cut(s) 890, 999
EcoT14I CCWWGG 2 cut(s) 950, 1092
ErhI CCWWGG 2 cut(s) 950, 1092
FaeI CATG 5 cut(s) 268, 414, 767, 923, 1147
FatI CATG 5 cut(s) 264, 410, 763, 919, 1143
FauNDI CATATG 1 cut(s) 394
Fnu4HI GCNGC 4 cut(s) 471, 514, 899, 971
FokI GGATG 2 cut(s) 818, 1109
Fsp4HI GCNGC 4 cut(s) 471, 514, 899, 971
FspBI CTAG 2 cut(s) 192, 249
GluI GCNGC 4 cut(s) 471, 514, 899, 971
GsuI CTGGAG 2 cut(s) 1022, 1169
HaeIII GGCC 1 cut(s) 432
HapII CCGG 1 cut(s) 434
Hin1II CATG 5 cut(s) 268, 414, 767, 923, 1147
HincII GTYRAC 2 cut(s) 1102, 1141
HindII GTYRAC 2 cut(s) 1102, 1141
HindIII AAGCTT 1 cut(s) 785
HinfI GANTC 4 cut(s) 5, 497, 722, 1111
HpaI GTTAAC 2 cut(s) 1102, 1141
HpaII CCGG 1 cut(s) 434
Hpy166II GTNNAC 7 cut(s) 35, 107, 161, 233, 1089, 1102, 1141
Hpy188I TCNGA 7 cut(s) 22, 187, 535, 666, 829, 997, 1059
Hpy188III TCNNGA 6 cut(s) 53, 296, 520, 701, 738, 1115
Hpy8I GTNNAC 7 cut(s) 35, 107, 161, 233, 1089, 1102, 1141
Hpy99I CGWCG 2 cut(s) 513, 1121
HpyAV CCTTC 5 cut(s) 74, 128, 668, 796, 1036
HpyCH4III ACNGT 4 cut(s) 50, 585, 1064, 1159
HpyCH4V TGCA 5 cut(s) 392, 575, 607, 848, 982
HpyF10VI GCNNNNNNNGC 3 cut(s) 470, 513, 979
HpyF3I CTNAG 2 cut(s) 828, 1056
Hsp92II CATG 5 cut(s) 268, 414, 767, 923, 1147
KspAI GTTAAC 2 cut(s) 1102, 1141
Kzo9I GATC 6 cut(s) 17, 538, 592, 635, 859, 1121
LmnI GCTCC 4 cut(s) 295, 691, 832, 895
Lsp1109I GCAGC 4 cut(s) 457, 525, 910, 982
LweI GCATC 4 cut(s) 235, 525, 616, 657
MaeI CTAG 2 cut(s) 192, 249
MaeIII GTNAC 2 cut(s) 906, 1112
MalI GATC 6 cut(s) 19, 540, 594, 637, 861, 1123
MboI GATC 6 cut(s) 17, 538, 592, 635, 859, 1121
MfeI CAATTG 2 cut(s) 380, 602
MflI RGATCY 4 cut(s) 17, 592, 635, 1121
MhlI GDGCHC 2 cut(s) 355, 1050
MlyI GAGTC 2 cut(s) 491, 1120
MnlI CCTC 9 cut(s) 303, 480, 745, 823, 861, 984, 1074, 1129, 1144
MseI TTAA 8 cut(s) 14, 327, 545, 645, 708, 915, 1101, 1140
MslI CAYNNNNRTG 2 cut(s) 612, 768
MspI CCGG 1 cut(s) 434
MspR9I CCNGG 3 cut(s) 434, 892, 1001
MunI CAATTG 2 cut(s) 380, 602
Mva1269I GAATGC 1 cut(s) 529
MvaI CCWGG 2 cut(s) 892, 1001
MvnI CGCG 1 cut(s) 297
MwoI GCNNNNNNNGC 3 cut(s) 470, 513, 979
NciI CCSGG 1 cut(s) 434
NdeI CATATG 1 cut(s) 394
NdeII GATC 6 cut(s) 17, 538, 592, 635, 859, 1121
NheI GCTAGC 1 cut(s) 191
NlaIII CATG 5 cut(s) 268, 414, 767, 923, 1147
NlaIV GGNNCC 1 cut(s) 438
NmuCI GTSAC 1 cut(s) 1112
NruI TCGCGA 1 cut(s) 297
NspI RCATGY 2 cut(s) 268, 1147
PciI ACATGT 1 cut(s) 264
PctI GAATGC 1 cut(s) 529
PfeI GAWTC 2 cut(s) 5, 722
PkrI GCNGC 4 cut(s) 472, 515, 900, 972
PleI GAGTC 2 cut(s) 491, 1119
PpsI GAGTC 2 cut(s) 491, 1119
PscI ACATGT 1 cut(s) 264
PshBI ATTAAT 1 cut(s) 915
PsiI TTATAA 1 cut(s) 1071
Psp6I CCWGG 2 cut(s) 890, 999
PspEI GGTNACC 1 cut(s) 906
PspGI CCWGG 2 cut(s) 890, 999
PspN4I GGNNCC 1 cut(s) 438
PspPI GGNCC 2 cut(s) 431, 888
PsuI RGATCY 4 cut(s) 17, 592, 635, 1121
RruI TCGCGA 1 cut(s) 297
RsaI GTAC 1 cut(s) 445
RsaNI GTAC 1 cut(s) 444
RseI CAYNNNNRTG 2 cut(s) 612, 768
SaqAI TTAA 8 cut(s) 14, 327, 545, 645, 708, 915, 1101, 1140
SatI GCNGC 4 cut(s) 471, 514, 899, 971
Sau3AI GATC 6 cut(s) 17, 538, 592, 635, 859, 1121
Sau96I GGNCC 2 cut(s) 431, 888
ScaI AGTACT 1 cut(s) 445
SchI GAGTC 2 cut(s) 491, 1120
ScrFI CCNGG 3 cut(s) 434, 892, 1001
SduI GDGCHC 2 cut(s) 355, 1050
SfaNI GCATC 4 cut(s) 235, 525, 616, 657
SinI GGWCC 1 cut(s) 888
SmiMI CAYNNNNRTG 2 cut(s) 612, 768
SmlI CTYRAG 2 cut(s) 459, 556
SmoI CTYRAG 2 cut(s) 459, 556
SsiI CCGC 1 cut(s) 886
SspMI CTAG 2 cut(s) 192, 249
StyD4I CCNGG 3 cut(s) 432, 890, 999
StyI CCWWGG 2 cut(s) 950, 1092
TaaI ACNGT 4 cut(s) 50, 585, 1064, 1159
TaqI TCGA 2 cut(s) 8, 750
TatI WGTACW 1 cut(s) 443
TfiI GAWTC 2 cut(s) 5, 722
Tru1I TTAA 8 cut(s) 14, 327, 545, 645, 708, 915, 1101, 1140
Tru9I TTAA 8 cut(s) 14, 327, 545, 645, 708, 915, 1101, 1140
TscAI CASTG 3 cut(s) 282, 775, 942
TseFI GTSAC 1 cut(s) 1112
TseI GCWGC 4 cut(s) 470, 513, 898, 970
Tsp45I GTSAC 1 cut(s) 1112
TspDTI ATGAA 3 cut(s) 399, 752, 980
TspGWI ACGGA 1 cut(s) 1134
TspRI CASTG 3 cut(s) 282, 775, 942
VpaK11BI GGWCC 1 cut(s) 888
VspI ATTAAT 1 cut(s) 915
XapI RAATTY 6 cut(s) 299, 620, 659, 696, 704, 758
XceI RCATGY 2 cut(s) 268, 1147
XspI CTAG 2 cut(s) 192, 249
ZrmI AGTACT 1 cut(s) 445
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.