Rh3AG078400

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3A
OG0008008
Physical Location & Seq
Forward (+)
6221977 .. 6223776
1800 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3AG078400.1

Sequence Viewer

Length: 1227 bp
ATGCATCCCAGACTTCAAATTCTCCACAGAAGCAAACAGATTGTGAGGACTCTCTGCTCTTTAACTTGCATACCCAGAAATCCCACATCGGAAAAATTGAATCTTCCACTGGTTTCAGAGCTATTAGCAAAGCAGAGGTGGTCAGAGCTCAGAGCCCATCTCAAAGACTCGGACTTTACCTCAGTTTTTCATCAGGTTTTGGATTCTGGAGCAGACCCAGTACTGATACTCAGGTACTTACATTGTTGCCAGAAGGATTTCAATGCTGCACACAATCTAGAACTCACTTTTAGACTCTTGGGTTCATTAGCAATAGCCAAAAGGTACTCAAAGATTAGAGCTTTTTTACATGGGTTCGTTAGAAGCAATGAAAAGCTATCAAATTCTGCAATTTTTAACTCGCTTTCGTTGGGTAGTAAACATTTGGCTGCAAATTCCATTATTGTTAACTTGTTGGTGTTGGCATATGCGAAAAATTTGAAGACCCATTTAGGTGTTGAAGCATTTCAGAAAGCTGGTGATTATGGGTTCAAGTTGGTGGTGTTTTCTTGTAACCCTTTGTTAAGGGCTTTGGTGAAGGAAGGTGAAATTGGGAATGTTGAATTTGTTTACAGGGAGATGATTAGGAGGAGAATTAGGCCCAATTTGTACACTTTTAATACGGTGATTAGGGGGTTGTGTAAAGTTGGGAAATTGGAGGAGGCAAAGGATGTTATTATTAATGACATGAAGGCTTGGGGGATATCACCAAATGTGGGAAACATGGAGATGGCCATGAAGCTTTTACATGAAATGGAGGTTGATGGCTTGAGAGCTGATCGCATAACATATAACACGTTAATAGATGGATTGTGCAAAGAAGGGAAGTCAAGAAAGGCAGGAACTCTCTTGGATGAGATGTTCAAGAAGCGTTTGAGTCCAAATCACTTGACATACAATTTTTTGATGGATGGATACTGCAGGGAAGGAAACCTCAGTGCAGCTTTGAATCTGAGGGCACTGATGGAGAAAGGAGGGAAGCGACCAAATACTGCAACATATAATGTGTTGATCAAGGGATATTCTAAGAAGGACAAGCTTGAAGATGCGAATGGGCTTCTTAATGAAATGTTGGAGAAGGGGTTGGTCCCAAACCAAACTACTTACGAAATAGTAAAAGAGGAAATGATGAAGAAAGGTTTTGTTCCTGATATAGATTGGCACCTGTATAATATCTCTAGCTCTTAG

Protein Analysis

408

Amino Acids

46.27

Weight (kDa)

9.44

Isoelectric Point (pI)

27.72

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_3 PF13812 169 - 223 8.7e-06 Pentatricopeptide repeat domain
PPR_2 PF13041 181 - 228 3.3e-11 PPR repeat family
PPR_3 PF13812 203 - 252 1.9e-06 Pentatricopeptide repeat domain
PPR_1 PF12854 212 - 238 1.4e-08 PPR repeat
PPR_2 PF13041 218 - 252 2.8e-08 PPR repeat family
PPR_2 PF13041 252 - 286 3.3e-09 PPR repeat family
PPR_3 PF13812 260 - 319 1.6e-12 Pentatricopeptide repeat domain
PPR_1 PF12854 269 - 300 1.2e-10 PPR repeat
PPR_2 PF13041 273 - 321 5.7e-17 PPR repeat family
PPR PF01535 275 - 304 1.5e-07 PPR repeat
PPR_1 PF12854 304 - 335 4.8e-08 PPR repeat
PPR_2 PF13041 307 - 356 1.8e-14 PPR repeat family
PPR_1 PF12854 341 - 370 1.1e-06 PPR repeat
PPR_2 PF13041 342 - 384 1.1e-13 PPR repeat family
PPR PF01535 346 - 375 4.7e-08 PPR repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 1200
AcoI YGGCCR 1 cut(s) 771
AcsI RAATTY 5 cut(s) 18, 382, 433, 475, 602
AfaI GTAC 4 cut(s) 222, 236, 326, 650
AfiI CCNNNNNNNGG 1 cut(s) 755
AflIII ACRYGT 1 cut(s) 834
AjuI GAANNNNNNNTTGG 2 cut(s) 573, 605
AloI GAACNNNNNNTCC 2 cut(s) 884, 916
Alw21I GWGCWC 1 cut(s) 150
AoxI GGCC 2 cut(s) 638, 771
ApeKI GCWGC 3 cut(s) 266, 428, 980
ApoI RAATTY 5 cut(s) 18, 382, 433, 475, 602
AseI ATTAAT 1 cut(s) 720
Asp700I GAANNNNTTC 2 cut(s) 257, 504
AspS9I GGNCC 2 cut(s) 639, 1126
AsuHPI GGTGA 5 cut(s) 530, 586, 596, 676, 738
AvaII GGWCC 1 cut(s) 1126
BaeGI GKGCMC 1 cut(s) 1000
BaeI ACNNNNGTAYC 2 cut(s) 218, 251
BalI TGGCCA 1 cut(s) 773
BanI GGYRCC 1 cut(s) 1200
BanII GRGCYC 2 cut(s) 150, 157
BbsI GAAGAC 1 cut(s) 488
Bbv12I GWGCWC 1 cut(s) 150
BbvI GCAGC 3 cut(s) 253, 415, 992
BccI CCATC 7 cut(s) 165, 763, 797, 839, 940, 944, 997
BciVI GTATCC 1 cut(s) 947
BclI TGATCA 1 cut(s) 1050
BfaI CTAG 2 cut(s) 278, 1218
BfmI CTRYAG 1 cut(s) 958
BfuI GTATCC 1 cut(s) 947
BisI GCNGC 3 cut(s) 267, 429, 981
BlsI GCNGC 3 cut(s) 268, 430, 982
BmcAI AGTACT 1 cut(s) 222
Bme18I GGWCC 1 cut(s) 1126
BmgT120I GGNCC 2 cut(s) 639, 1126
BmiI GGNNCC 2 cut(s) 1128, 1202
BmrI ACTGGG 1 cut(s) 212
BmsI GCATC 2 cut(s) 13, 1075
BmuI ACTGGG 1 cut(s) 212
BpiI GAAGAC 1 cut(s) 488
BplI GAGNNNNNCTC 2 cut(s) 144, 176
BpmI CTGGAG 1 cut(s) 228
BpuEI CTTGAG 1 cut(s) 829
BsaXI ACNNNNNCTCC 2 cut(s) 1106, 1136
Bsc4I CCNNNNNNNGG 1 cut(s) 755
Bse1I ACTGG 2 cut(s) 114, 218
Bse3DI GCAATG 1 cut(s) 373
BseGI GGATG 4 cut(s) 4, 715, 898, 955
BseLI CCNNNNNNNGG 1 cut(s) 755
BseMI GCAATG 1 cut(s) 373
BseMII CTCAG 5 cut(s) 163, 195, 244, 983, 988
BseNI ACTGG 2 cut(s) 114, 218
BseRI GAGGAG 2 cut(s) 643, 713
BseSI GKGCMC 1 cut(s) 1000
BseXI GCAGC 3 cut(s) 253, 415, 992
BsgI GTGCAG 2 cut(s) 252, 999
BshFI GGCC 2 cut(s) 640, 773
BshNI GGYRCC 1 cut(s) 1200
BsiHKAI GWGCWC 1 cut(s) 150
BslFI GGGAC 1 cut(s) 1112
BslI CCNNNNNNNGG 1 cut(s) 755
BsmFI GGGAC 1 cut(s) 1112
BsnI GGCC 2 cut(s) 640, 773
Bsp1286I GDGCHC 3 cut(s) 150, 157, 1000
Bsp1407I TGTACA 1 cut(s) 648
Bsp143I GATC 2 cut(s) 817, 1050
BspANI GGCC 2 cut(s) 640, 773
BspCNI CTCAG 5 cut(s) 162, 194, 243, 984, 987
BspLI GGNNCC 2 cut(s) 1128, 1202
BspMAI CTGCAG 1 cut(s) 962
BspT107I GGYRCC 1 cut(s) 1200
BsrDI GCAATG 1 cut(s) 373
BsrGI TGTACA 1 cut(s) 648
BsrI ACTGG 2 cut(s) 114, 218
BssMI GATC 2 cut(s) 817, 1050
Bst4CI ACNGT 1 cut(s) 664
BstAUI TGTACA 1 cut(s) 648
BstDEI CTNAG 7 cut(s) 149, 181, 230, 974, 992, 1065, 1224
BstF5I GGATG 4 cut(s) 4, 715, 898, 955
BstKTI GATC 2 cut(s) 820, 1053
BstMBI GATC 2 cut(s) 817, 1050
BstSFI CTRYAG 1 cut(s) 958
BstSLI GKGCMC 1 cut(s) 1000
BstV1I GCAGC 3 cut(s) 253, 415, 992
BstV2I GAAGAC 1 cut(s) 488
BsuI GTATCC 1 cut(s) 947
BsuRI GGCC 2 cut(s) 640, 773
BtsCI GGATG 4 cut(s) 4, 715, 898, 955
BtsIMutI CAGTG 3 cut(s) 107, 982, 998
Cfr13I GGNCC 2 cut(s) 639, 1126
Csp6I GTAC 4 cut(s) 221, 235, 325, 649
CviAII CATG 5 cut(s) 350, 727, 763, 775, 788
CviQI GTAC 4 cut(s) 221, 235, 325, 649
DdeI CTNAG 7 cut(s) 149, 181, 230, 974, 992, 1065, 1224
DpnI GATC 2 cut(s) 819, 1052
DpnII GATC 2 cut(s) 817, 1050
EaeI YGGCCR 1 cut(s) 771
Ecl136II GAGCTC 1 cut(s) 148
Eco24I GRGCYC 2 cut(s) 150, 157
Eco32I GATATC 1 cut(s) 744
Eco47I GGWCC 1 cut(s) 1126
Eco53kI GAGCTC 1 cut(s) 148
EcoICRI GAGCTC 1 cut(s) 148
EcoRV GATATC 1 cut(s) 744
EcoT22I ATGCAT 1 cut(s) 6
EcoT38I GRGCYC 2 cut(s) 150, 157
FaeI CATG 5 cut(s) 353, 730, 766, 778, 791
FaqI GGGAC 1 cut(s) 1112
FatI CATG 5 cut(s) 349, 726, 762, 774, 787
FauNDI CATATG 1 cut(s) 466
FbaI TGATCA 1 cut(s) 1050
Fnu4HI GCNGC 3 cut(s) 267, 429, 981
FokI GGATG 3 cut(s) 722, 905, 962
FriOI GRGCYC 2 cut(s) 150, 157
Fsp4HI GCNGC 3 cut(s) 267, 429, 981
FspBI CTAG 2 cut(s) 278, 1218
GluI GCNGC 3 cut(s) 267, 429, 981
GsuI CTGGAG 1 cut(s) 228
HaeIII GGCC 2 cut(s) 640, 773
Hin1II CATG 5 cut(s) 353, 730, 766, 778, 791
HincII GTYRAC 1 cut(s) 448
HindII GTYRAC 1 cut(s) 448
HindIII AAGCTT 2 cut(s) 779, 1076
HinfI GANTC 7 cut(s) 49, 100, 167, 203, 294, 916, 988
HpaI GTTAAC 1 cut(s) 448
HphI GGTGA 5 cut(s) 530, 586, 596, 676, 738
Hpy166II GTNNAC 4 cut(s) 419, 448, 610, 651
Hpy188I TCNGA 7 cut(s) 91, 118, 145, 152, 172, 510, 993
Hpy188III TCNNGA 5 cut(s) 207, 278, 870, 904, 1187
Hpy8I GTNNAC 4 cut(s) 419, 448, 610, 651
HpyAV CCTTC 8 cut(s) 247, 571, 575, 724, 854, 959, 1063, 1111
HpyCH4III ACNGT 1 cut(s) 664
HpyCH4IV ACGT 1 cut(s) 836
HpyCH4V TGCA 9 cut(s) 4, 69, 269, 389, 431, 855, 960, 980, 1034
HpyF3I CTNAG 7 cut(s) 149, 181, 230, 974, 992, 1065, 1224
HpySE526I ACGT 1 cut(s) 836
Hsp92II CATG 5 cut(s) 353, 730, 766, 778, 791
Ksp22I TGATCA 1 cut(s) 1050
KspAI GTTAAC 1 cut(s) 448
Kzo9I GATC 2 cut(s) 817, 1050
LmnI GCTCC 1 cut(s) 209
Lsp1109I GCAGC 3 cut(s) 253, 415, 992
LweI GCATC 2 cut(s) 13, 1075
MaeI CTAG 2 cut(s) 278, 1218
MaeII ACGT 1 cut(s) 836
MaeIII GTNAC 1 cut(s) 551
MalI GATC 2 cut(s) 819, 1052
MboI GATC 2 cut(s) 817, 1050
MboII GAAGA 4 cut(s) 95, 493, 1094, 1183
MhlI GDGCHC 3 cut(s) 150, 157, 1000
MlsI TGGCCA 1 cut(s) 773
MluNI TGGCCA 1 cut(s) 773
MlyI GAGTC 4 cut(s) 43, 161, 288, 925
MmeI TCCRAC 1 cut(s) 1092
Mox20I TGGCCA 1 cut(s) 773
Mph1103I ATGCAT 1 cut(s) 6
MroXI GAANNNNTTC 2 cut(s) 257, 504
MscI TGGCCA 1 cut(s) 773
MseI TTAA 8 cut(s) 62, 396, 447, 563, 657, 720, 839, 1101
MslI CAYNNNNRTG 2 cut(s) 492, 767
Msp20I TGGCCA 1 cut(s) 773
NdeI CATATG 1 cut(s) 466
NdeII GATC 2 cut(s) 817, 1050
NlaIII CATG 5 cut(s) 353, 730, 766, 778, 791
NlaIV GGNNCC 2 cut(s) 1128, 1202
NsiI ATGCAT 1 cut(s) 6
PdmI GAANNNNTTC 2 cut(s) 257, 504
PfeI GAWTC 3 cut(s) 100, 203, 988
PkrI GCNGC 3 cut(s) 268, 430, 982
PleI GAGTC 4 cut(s) 43, 161, 288, 924
PpsI GAGTC 4 cut(s) 43, 161, 288, 924
PshBI ATTAAT 1 cut(s) 720
Psp124BI GAGCTC 1 cut(s) 150
PspN4I GGNNCC 2 cut(s) 1128, 1202
PspPI GGNCC 2 cut(s) 639, 1126
PstI CTGCAG 1 cut(s) 962
RsaI GTAC 4 cut(s) 222, 236, 326, 650
RsaNI GTAC 4 cut(s) 221, 235, 325, 649
RseI CAYNNNNRTG 2 cut(s) 492, 767
SacI GAGCTC 1 cut(s) 150
SaqAI TTAA 8 cut(s) 62, 396, 447, 563, 657, 720, 839, 1101
SatI GCNGC 3 cut(s) 267, 429, 981
Sau3AI GATC 2 cut(s) 817, 1050
Sau96I GGNCC 2 cut(s) 639, 1126
ScaI AGTACT 1 cut(s) 222
SchI GAGTC 4 cut(s) 43, 161, 288, 925
SduI GDGCHC 3 cut(s) 150, 157, 1000
SfaNI GCATC 2 cut(s) 13, 1075
SfcI CTRYAG 1 cut(s) 958
SinI GGWCC 1 cut(s) 1126
SmiMI CAYNNNNRTG 2 cut(s) 492, 767
SmlI CTYRAG 1 cut(s) 808
SmoI CTYRAG 1 cut(s) 808
SspMI CTAG 2 cut(s) 278, 1218
SstI GAGCTC 1 cut(s) 150
TaaI ACNGT 1 cut(s) 664
TaiI ACGT 1 cut(s) 839
TatI WGTACW 2 cut(s) 220, 648
TfiI GAWTC 3 cut(s) 100, 203, 988
Tru1I TTAA 8 cut(s) 62, 396, 447, 563, 657, 720, 839, 1101
Tru9I TTAA 8 cut(s) 62, 396, 447, 563, 657, 720, 839, 1101
TscAI CASTG 3 cut(s) 114, 982, 1005
TseI GCWGC 3 cut(s) 266, 428, 980
TspDTI ATGAA 8 cut(s) 179, 294, 384, 743, 791, 804, 1119, 1184
TspRI CASTG 3 cut(s) 114, 982, 1005
VpaK11BI GGWCC 1 cut(s) 1126
VspI ATTAAT 1 cut(s) 720
XapI RAATTY 5 cut(s) 18, 382, 433, 475, 602
XbaI TCTAGA 1 cut(s) 277
XmnI GAANNNNTTC 2 cut(s) 257, 504
XspI CTAG 2 cut(s) 278, 1218
ZrmI AGTACT 1 cut(s) 222
Zsp2I ATGCAT 1 cut(s) 6
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.