AT5G48050

Encoded by

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0027601
Physical Location & Seq
Reverse (-)
19472446 .. 19473838
1393 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G48050.1

Sequence Viewer

Length: 1110 bp
ATGGCTGACACCACTCTATCTTCGTACGAAAAATCATTTGGAATCATGCAGATTCGCGCTTATATTTTTGTCACTCTTGACTTAAATAAGTTGAACTACGATGTGTGGCGTGAGCTTTTTGAGACTCTTTGCCTAAGTTTTGGTGTCCTTGGTCACATCGATGGATCTTCAACACCGACTCCAATGACCGAGAAAAGATGGAAGGAACGTGATGGACTTGTGAAGATGTGGATATATGGCACCATCACTGATTCACTTCTTGACACCATCATCAAAGTAGGGTGCACAGCTCGAGACTTATGGCTCTCCCTAGAAAATCTCTTCCGTGATAATAAGGAGGCTCGTGCACTTCAGTTTGAAAATGAATTGCGTACTACGACGATCGACGATCTCTCGGTACATGAGTACTGTCAAAAATTGAAGTCGCTTTCAGACCTTTTGACAAATGTCGACTCTCCCATCTCAGATCGCGTTCTTGTTATGCATCTACTCAACGGTCTCACGGAGAAATATGATTACATACTCAACGTAATCAAACACAAGTCTCCATTTCCCTCATTCACTGAAGCTCGCTCAATGTTGCTTATGGAAGAGAGTCGCCTCTCCAACAAAAGCAAGTCTTCCTTGAGCCACACAAATCACCCCTCACTATCGAATGTCTTATTTACCGTCCCCCGCCAGCAAGAACGCTATCCGCAAGAGTATCACAACAACAATAGTAATATGGGACGCGGTCGTAGCAAGAAAAAAAATCGCGGAGGTGGTAGTAGTGACGGTCGATATAACAATAATAATAATTGGCGACTCAACCAGCCCCCAACTTGGATTTACGGTCCTCCTCAATCGCCTTATATGTATCCTCACGGTGGACCACAGTTTTTCCATAAGAAAACGTACTTCCCGCAACAACCACCAGTTTACATGTCAGTCACATCACACAAGCCGTCACCAACCAGTATACTTGAGCCATACAATCCGTACTTACATGGTGATGCTCGTGTGAATTATATCTCGACATCCATGGCAGATCAGTCGACGTTCATGCCATCTCATTTTCCTCAAACATACAGTTCCATGTCTCTCTCAGATCCTCCCGAAGAGATGTGGTAA
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
Retrotran_gag_2

Protein Analysis

369

Amino Acids

42.54

Weight (kDa)

7.74

Isoelectric Point (pI)

57.31

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 48 - 205 1.4e-21 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
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Orthologous Genes (Group: OG0027601)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G48050
fragaria_vesca FvH4_2g26161

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 239
AccI GTMKAC 3 cut(s) 450, 958, 1034
AccII CGCG 4 cut(s) 57, 471, 732, 756
AciI CCGC 5 cut(s) 676, 695, 732, 756, 902
AclWI GGATC 2 cut(s) 172, 1082
AcuI CTGAAG 2 cut(s) 335, 585
AfaI GTAC 6 cut(s) 26, 373, 399, 407, 896, 980
AfiI CCNNNNNNNGG 2 cut(s) 822, 866
AflIII ACRYGT 1 cut(s) 921
AgsI TTSAA 4 cut(s) 94, 171, 359, 421
AjuI GAANNNNNNNTTGG 2 cut(s) 21, 53
AluBI AGCT 3 cut(s) 115, 290, 569
AluI AGCT 3 cut(s) 115, 290, 569
Alw21I GWGCWC 2 cut(s) 287, 349
Alw26I GTCTC 5 cut(s) 116, 288, 503, 549, 1083
Alw44I GTGCAC 2 cut(s) 283, 345
AlwI GGATC 2 cut(s) 172, 1082
Ama87I CYCGRG 1 cut(s) 291
ApaLI GTGCAC 2 cut(s) 283, 345
AspLEI GCGC 1 cut(s) 59
AspS9I GGNCC 2 cut(s) 833, 869
AsuHPI GGTGA 3 cut(s) 632, 939, 1001
AvaI CYCGRG 1 cut(s) 291
AvaII GGWCC 2 cut(s) 833, 869
BaeGI GKGCMC 2 cut(s) 287, 349
BaeI ACNNNNGTAYC 2 cut(s) 389, 422
BanI GGYRCC 1 cut(s) 239
BauI CACGAG 2 cut(s) 342, 996
BbsI GAAGAC 1 cut(s) 612
Bbv12I GWGCWC 2 cut(s) 287, 349
BccI CCATC 7 cut(s) 155, 192, 206, 251, 275, 467, 1054
BceAI ACGGC 1 cut(s) 928
BcgI CGANNNNNNTGC 4 cut(s) 1014, 1024, 1048, 1058
BciVI GTATCC 1 cut(s) 867
BcoDI GTCTC 5 cut(s) 116, 288, 503, 549, 1083
BfaI CTAG 1 cut(s) 311
BfuI GTATCC 1 cut(s) 867
BmcAI AGTACT 1 cut(s) 407
Bme18I GGWCC 2 cut(s) 833, 869
BmeT110I CYCGRG 1 cut(s) 291
BmgT120I GGNCC 2 cut(s) 833, 869
BmiI GGNNCC 1 cut(s) 241
BmsI GCATC 2 cut(s) 493, 982
BoxI GACNNNNGTC 1 cut(s) 446
BpiI GAAGAC 1 cut(s) 612
BpuEI CTTGAG 2 cut(s) 646, 983
Bsa29I ATCGAT 1 cut(s) 159
BsaI GGTCTC 1 cut(s) 503
BsaJI CCNNGG 2 cut(s) 148, 1020
BsaXI ACNNNNNCTCC 2 cut(s) 163, 193
Bsc4I CCNNNNNNNGG 2 cut(s) 822, 866
Bse1I ACTGG 2 cut(s) 914, 954
BseCI ATCGAT 1 cut(s) 159
BseDI CCNNGG 2 cut(s) 148, 1020
BseGI GGATG 1 cut(s) 1016
BseLI CCNNNNNNNGG 2 cut(s) 822, 866
BseMII CTCAG 2 cut(s) 477, 1098
BseNI ACTGG 2 cut(s) 914, 954
BseRI GAGGAG 1 cut(s) 828
BseSI GKGCMC 2 cut(s) 287, 349
Bsh1236I CGCG 4 cut(s) 57, 471, 732, 756
Bsh1285I CGRYCG 3 cut(s) 384, 736, 778
BshNI GGYRCC 1 cut(s) 239
BshVI ATCGAT 1 cut(s) 159
BsiEI CGRYCG 3 cut(s) 384, 736, 778
BsiHKAI GWGCWC 2 cut(s) 287, 349
BsiHKCI CYCGRG 1 cut(s) 291
BsiWI CGTACG 1 cut(s) 24
BslFI GGGAC 2 cut(s) 656, 741
BslI CCNNNNNNNGG 2 cut(s) 822, 866
BsmAI GTCTC 5 cut(s) 116, 288, 503, 549, 1083
BsmFI GGGAC 2 cut(s) 656, 741
Bso31I GGTCTC 1 cut(s) 503
BsoBI CYCGRG 1 cut(s) 291
Bsp1286I GDGCHC 2 cut(s) 287, 349
Bsp143I GATC 6 cut(s) 164, 381, 388, 466, 1027, 1087
Bsp19I CCATGG 1 cut(s) 1020
BspACI CCGC 5 cut(s) 676, 695, 732, 756, 902
BspCNI CTCAG 2 cut(s) 476, 1097
BspDI ATCGAT 1 cut(s) 159
BspFNI CGCG 4 cut(s) 57, 471, 732, 756
BspLI GGNNCC 1 cut(s) 241
BspPI GGATC 2 cut(s) 172, 1082
BspT107I GGYRCC 1 cut(s) 239
BspTNI GGTCTC 1 cut(s) 503
BsrI ACTGG 2 cut(s) 914, 954
BssECI CCNNGG 2 cut(s) 148, 1020
BssMI GATC 6 cut(s) 164, 381, 388, 466, 1027, 1087
BssNAI GTATAC 1 cut(s) 959
BssSI CACGAG 2 cut(s) 342, 996
BssT1I CCWWGG 2 cut(s) 148, 1020
Bst1107I GTATAC 1 cut(s) 959
Bst2BI CACGAG 2 cut(s) 342, 996
Bst4CI ACNGT 8 cut(s) 410, 497, 670, 776, 833, 866, 876, 1070
Bst6I CTCTTC 3 cut(s) 326, 585, 1092
BstC8I GCNNGC 2 cut(s) 571, 680
BstDEI CTNAG 3 cut(s) 134, 463, 1084
BstDSI CCRYGG 1 cut(s) 1020
BstF5I GGATG 1 cut(s) 1016
BstFNI CGCG 4 cut(s) 57, 471, 732, 756
BstHHI GCGC 1 cut(s) 59
BstKTI GATC 6 cut(s) 167, 384, 391, 469, 1030, 1090
BstMAI GTCTC 5 cut(s) 116, 288, 503, 549, 1083
BstMBI GATC 6 cut(s) 164, 381, 388, 466, 1027, 1087
BstMCI CGRYCG 3 cut(s) 384, 736, 778
BstMWI GCNNNNNNNGC 1 cut(s) 738
BstNSI RCATGY 1 cut(s) 925
BstPAI GACNNNNGTC 1 cut(s) 446
BstSLI GKGCMC 2 cut(s) 287, 349
BstUI CGCG 4 cut(s) 57, 471, 732, 756
BstV2I GAAGAC 1 cut(s) 612
BstX2I RGATCY 2 cut(s) 164, 1087
BstYI RGATCY 2 cut(s) 164, 1087
BstZ17I GTATAC 1 cut(s) 959
Bsu15I ATCGAT 1 cut(s) 159
BsuI GTATCC 1 cut(s) 867
BsuTUI ATCGAT 1 cut(s) 159
BtgI CCRYGG 1 cut(s) 1020
BtsCI GGATG 1 cut(s) 1016
BtsIMutI CAGTG 2 cut(s) 246, 561
Cac8I GCNNGC 2 cut(s) 571, 680
CfoI GCGC 1 cut(s) 59
Cfr13I GGNCC 2 cut(s) 833, 869
ClaI ATCGAT 1 cut(s) 159
CseI GACGC 1 cut(s) 738
Csp6I GTAC 6 cut(s) 25, 372, 398, 406, 895, 979
CviAII CATG 7 cut(s) 46, 401, 922, 986, 1021, 1042, 1075
CviQI GTAC 6 cut(s) 25, 372, 398, 406, 895, 979
DdeI CTNAG 3 cut(s) 134, 463, 1084
DpnI GATC 6 cut(s) 166, 383, 390, 468, 1029, 1089
DpnII GATC 6 cut(s) 164, 381, 388, 466, 1027, 1087
Eam1104I CTCTTC 3 cut(s) 326, 585, 1092
EarI CTCTTC 3 cut(s) 326, 585, 1092
Eco130I CCWWGG 2 cut(s) 148, 1020
Eco31I GGTCTC 1 cut(s) 503
Eco47I GGWCC 2 cut(s) 833, 869
Eco57I CTGAAG 2 cut(s) 335, 585
Eco88I CYCGRG 1 cut(s) 291
EcoT14I CCWWGG 2 cut(s) 148, 1020
EcoT22I ATGCAT 1 cut(s) 486
ErhI CCWWGG 2 cut(s) 148, 1020
FaeI CATG 7 cut(s) 49, 404, 925, 989, 1024, 1045, 1078
FalI AAGNNNNNCTT 4 cut(s) 604, 636, 608, 640
FaqI GGGAC 2 cut(s) 656, 741
FatI CATG 7 cut(s) 45, 400, 921, 985, 1020, 1041, 1074
FauI CCCGC 2 cut(s) 683, 909
FblI GTMKAC 3 cut(s) 450, 958, 1034
FokI GGATG 1 cut(s) 1003
FspBI CTAG 1 cut(s) 311
GlaI GCGC 1 cut(s) 58
HgaI GACGC 1 cut(s) 738
HhaI GCGC 1 cut(s) 59
Hin1II CATG 7 cut(s) 49, 404, 925, 989, 1024, 1045, 1078
Hin6I GCGC 1 cut(s) 57
HinP1I GCGC 1 cut(s) 57
HincII GTYRAC 2 cut(s) 451, 1035
HindII GTYRAC 2 cut(s) 451, 1035
HinfI GANTC 8 cut(s) 42, 52, 124, 178, 251, 452, 595, 804
HphI GGTGA 3 cut(s) 632, 939, 1001
Hpy166II GTNNAC 7 cut(s) 285, 347, 451, 869, 919, 959, 1035
Hpy188I TCNGA 3 cut(s) 433, 466, 1087
Hpy188III TCNNGA 5 cut(s) 77, 260, 293, 1012, 1094
Hpy8I GTNNAC 7 cut(s) 285, 347, 451, 869, 919, 959, 1035
Hpy99I CGWCG 3 cut(s) 382, 389, 1039
HpyAV CCTTC 1 cut(s) 196
HpyCH4III ACNGT 8 cut(s) 410, 497, 670, 776, 833, 866, 876, 1070
HpyCH4IV ACGT 4 cut(s) 208, 528, 893, 1037
HpyCH4V TGCA 4 cut(s) 49, 285, 347, 484
HpyF10VI GCNNNNNNNGC 1 cut(s) 738
HpyF3I CTNAG 3 cut(s) 134, 463, 1084
HpySE526I ACGT 4 cut(s) 208, 528, 893, 1037
Hsp92II CATG 7 cut(s) 49, 404, 925, 989, 1024, 1045, 1078
HspAI GCGC 1 cut(s) 57
Kzo9I GATC 6 cut(s) 164, 381, 388, 466, 1027, 1087
LpnPI CCDG 4 cut(s) 692, 824, 927, 967
LweI GCATC 2 cut(s) 493, 982
MaeI CTAG 1 cut(s) 311
MaeII ACGT 4 cut(s) 208, 528, 893, 1037
MaeIII GTNAC 5 cut(s) 70, 152, 770, 928, 945
MalI GATC 6 cut(s) 166, 383, 390, 468, 1029, 1089
MboI GATC 6 cut(s) 164, 381, 388, 466, 1027, 1087
MboII GAAGA 7 cut(s) 12, 159, 235, 313, 602, 612, 1109
MflI RGATCY 2 cut(s) 164, 1087
MhlI GDGCHC 2 cut(s) 287, 349
MluCI AATT 4 cut(s) 365, 416, 796, 1003
MlyI GAGTC 5 cut(s) 118, 172, 446, 604, 798
MmeI TCCRAC 1 cut(s) 630
Mph1103I ATGCAT 1 cut(s) 486
MseI TTAA 1 cut(s) 83
MslI CAYNNNNRTG 2 cut(s) 159, 990
MvnI CGCG 4 cut(s) 57, 471, 732, 756
MwoI GCNNNNNNNGC 1 cut(s) 738
NcoI CCATGG 1 cut(s) 1020
NdeII GATC 6 cut(s) 164, 381, 388, 466, 1027, 1087
NlaIII CATG 7 cut(s) 49, 404, 925, 989, 1024, 1045, 1078
NlaIV GGNNCC 1 cut(s) 241
NmuCI GTSAC 5 cut(s) 70, 152, 770, 928, 945
NsiI ATGCAT 1 cut(s) 486
NspI RCATGY 1 cut(s) 925
PaeR7I CTCGAG 1 cut(s) 291
PciI ACATGT 1 cut(s) 921
PfeI GAWTC 3 cut(s) 42, 52, 251
Pfl23II CGTACG 1 cut(s) 24
PflFI GACNNNGTC 1 cut(s) 732
Ple19I CGATCG 1 cut(s) 384
PleI GAGTC 5 cut(s) 118, 172, 446, 603, 798
PpsI GAGTC 5 cut(s) 118, 172, 446, 603, 798
PscI ACATGT 1 cut(s) 921
PshAI GACNNNNGTC 1 cut(s) 446
PspLI CGTACG 1 cut(s) 24
PspN4I GGNNCC 1 cut(s) 241
PspPI GGNCC 2 cut(s) 833, 869
PsuI RGATCY 2 cut(s) 164, 1087
PsyI GACNNNGTC 1 cut(s) 732
PvuI CGATCG 1 cut(s) 384
RsaI GTAC 6 cut(s) 26, 373, 399, 407, 896, 980
RsaNI GTAC 6 cut(s) 25, 372, 398, 406, 895, 979
RseI CAYNNNNRTG 2 cut(s) 159, 990
SalI GTCGAC 2 cut(s) 449, 1033
SaqAI TTAA 1 cut(s) 83
Sau3AI GATC 6 cut(s) 164, 381, 388, 466, 1027, 1087
Sau96I GGNCC 2 cut(s) 833, 869
ScaI AGTACT 1 cut(s) 407
SchI GAGTC 5 cut(s) 118, 172, 446, 604, 798
SduI GDGCHC 2 cut(s) 287, 349
SetI ASST 9 cut(s) 117, 211, 292, 438, 531, 571, 763, 896, 1040
SfaNI GCATC 2 cut(s) 493, 982
Sfr274I CTCGAG 1 cut(s) 291
SinI GGWCC 2 cut(s) 833, 869
SlaI CTCGAG 1 cut(s) 291
SmiMI CAYNNNNRTG 2 cut(s) 159, 990
SmlI CTYRAG 3 cut(s) 291, 625, 962
SmoI CTYRAG 3 cut(s) 291, 625, 962
Sse9I AATT 4 cut(s) 365, 416, 796, 1003
SsiI CCGC 5 cut(s) 676, 695, 732, 756, 902
SspMI CTAG 1 cut(s) 311
StyI CCWWGG 2 cut(s) 148, 1020
TaaI ACNGT 8 cut(s) 410, 497, 670, 776, 833, 866, 876, 1070
TaiI ACGT 4 cut(s) 211, 531, 896, 1040
TaqI TCGA 8 cut(s) 159, 292, 384, 450, 653, 778, 1013, 1034
TaqII GACCGA 1 cut(s) 203
TasI AATT 4 cut(s) 365, 416, 796, 1003
TatI WGTACW 1 cut(s) 405
TfiI GAWTC 3 cut(s) 42, 52, 251
Tru1I TTAA 1 cut(s) 83
Tru9I TTAA 1 cut(s) 83
TscAI CASTG 2 cut(s) 253, 568
TseFI GTSAC 5 cut(s) 70, 152, 770, 928, 945
Tsp45I GTSAC 5 cut(s) 70, 152, 770, 928, 945
TspDTI ATGAA 2 cut(s) 378, 1030
TspGWI ACGGA 3 cut(s) 314, 518, 966
TspRI CASTG 2 cut(s) 253, 568
Tth111I GACNNNGTC 1 cut(s) 732
VneI GTGCAC 2 cut(s) 283, 345
VpaK11BI GGWCC 2 cut(s) 833, 869
XceI RCATGY 1 cut(s) 925
XhoI CTCGAG 1 cut(s) 291
XmiI GTMKAC 3 cut(s) 450, 958, 1034
XspI CTAG 1 cut(s) 311
ZrmI AGTACT 1 cut(s) 407
Zsp2I ATGCAT 1 cut(s) 486
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.