AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0080048590.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080048590.01.T01 MTR_0558s0020 91.477 176 15 0 1 176 1 176 1.21e-119 340
MsG0080048590.01.T01 MTR_1g083640 86.387 191 11 1 1 176 1 191 7.04e-119 338
MsG0080048590.01.T01 MTR_3g008240 86.932 176 23 0 1 176 1 176 1.34e-112 318
MsG0080048590.01.T01 MTR_4g040430 86.932 176 18 2 1 176 1 171 1.71e-109 310
MsG0080048590.01.T01 MTR_2g014100 83.152 184 23 1 1 176 1 184 2.23e-109 312
MsG0080048590.01.T01 MTR_5g071590 83.333 180 18 1 1 168 1 180 4.09e-108 306
MsG0080048590.01.T01 MTR_8g446020 70.455 176 12 2 1 176 1 136 1.53e-79 237
MsG0080048590.01.T01 MTR_1281s0010 94.495 109 6 0 20 128 1 109 3.75e-72 213
MsG0080048590.01.T01 MTR_0337s0040 61.932 176 28 1 1 176 1 137 4.12e-69 209
MsG0080048590.01.T01 MTR_6g090505 88.288 111 13 0 66 176 1 111 5.93e-69 213
MsG0080048590.01.T01 MTR_0019s0290 84.043 94 15 0 83 176 9 102 4.43e-55 171
MsG0080048590.01.T01 MTR_1g055240 87.209 86 11 0 91 176 2 87 2.43e-53 167
MsG0080048590.01.T01 MTR_4g008820 88.750 80 9 0 1 80 125 204 2.97e-40 144
MsG0080048590.01.T01 MTR_8g046060 82.955 88 7 2 1 80 91 178 2.62e-38 130
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 24 sgRNAs with CRISPR-Local

Find 31 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTGATGTTGGCCTGTTGTT+AGG 0.302249 contig362end:+19743 MsG0080048590.01.T01:intergenic
CGAGAAGTAAATGAAGTTCA+AGG 0.424788 contig362end:-19539 MsG0080048590.01.T01:CDS
GAAAGGGTTGGTTGTAAAGC+TGG 0.447509 contig362end:-19674 MsG0080048590.01.T01:CDS
CCCCTAGCAATAACGAATCA+TGG 0.476678 contig362end:-19955 MsG0080048590.01.T01:CDS
TCCATGATTCGTTATTGCTA+GGG 0.479627 contig362end:+19954 MsG0080048590.01.T01:intergenic
GTTTGCTTAATCCTAACAAC+AGG 0.484661 contig362end:-19754 MsG0080048590.01.T01:CDS
TTACTTCTCGAAATGCTCTC+AGG 0.486887 contig362end:+19552 MsG0080048590.01.T01:intergenic
GTTAATTATGCATATAACAC+TGG 0.494530 contig362end:-19887 MsG0080048590.01.T01:CDS
CGTTATGTTTGTAACAAACA+AGG 0.494754 contig362end:-19791 MsG0080048590.01.T01:CDS
AGCTGGAATATCTTTGAAGA+TGG 0.495988 contig362end:-19657 MsG0080048590.01.T01:CDS
CTCAGGTAACACAAATGCTC+TGG 0.496027 contig362end:+19569 MsG0080048590.01.T01:intergenic
TTACAACCAACCCTTTCCTC+AGG 0.505082 contig362end:+19680 MsG0080048590.01.T01:intergenic
TTCCATGATTCGTTATTGCT+AGG 0.509536 contig362end:+19953 MsG0080048590.01.T01:intergenic
TAACAAACAAGGTTTCAAGA+AGG 0.511682 contig362end:-19780 MsG0080048590.01.T01:CDS
AAATGCTCTGGTTTATGTAA+TGG 0.514358 contig362end:+19581 MsG0080048590.01.T01:intergenic
ACAAAATAAGAAATCAGATA+AGG 0.530342 contig362end:-19825 MsG0080048590.01.T01:CDS
ATGGGTATAAGATATATAGA+TGG 0.531009 contig362end:-19622 MsG0080048590.01.T01:CDS
AACAAACAAGGTTTCAAGAA+GGG 0.554561 contig362end:-19779 MsG0080048590.01.T01:CDS
CCATGATTCGTTATTGCTAG+GGG 0.572877 contig362end:+19955 MsG0080048590.01.T01:intergenic
ATATCAACTTCATTTGAGAG+TGG 0.601371 contig362end:-20034 MsG0080048590.01.T01:CDS
GCCAACATCAGACAGTCCAC+TGG 0.611268 contig362end:-19732 MsG0080048590.01.T01:CDS
ACCAGTGGACTGTCTGATGT+TGG 0.614292 contig362end:+19731 MsG0080048590.01.T01:intergenic
TTCACAAACTCAATAACCAG+TGG 0.633415 contig362end:+19716 MsG0080048590.01.T01:intergenic
TAAGATATATAGATGGCATG+TGG 0.655342 contig362end:-19615 MsG0080048590.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACAAAATAAGAAATCAGATA+AGG - contig362end:19753-19772 MsG0080048590.01.T01:CDS 20.0%
! ATGGGTATAAGATATATAGA+TGG - contig362end:19956-19975 MsG0080048590.01.T01:CDS 25.0%
! GTTAATTATGCATATAACAC+TGG - contig362end:19691-19710 MsG0080048590.01.T01:CDS 25.0%
!! AAGATGGATGAAATTTTGAA+TGG - contig362end:19937-19956 MsG0080048590.01.T01:CDS 25.0%
!! AGATGGATGAAATTTTGAAT+GGG - contig362end:19938-19957 MsG0080048590.01.T01:CDS 25.0%
!! ATAACACTGGATTTTCTATT+AGG - contig362end:19704-19723 MsG0080048590.01.T01:CDS 25.0%
AACAAACAAGGTTTCAAGAA+GGG - contig362end:19799-19818 MsG0080048590.01.T01:CDS 30.0%
ATATCAACTTCATTTGAGAG+TGG - contig362end:19544-19563 MsG0080048590.01.T01:CDS 30.0%
CGTTATGTTTGTAACAAACA+AGG - contig362end:19787-19806 MsG0080048590.01.T01:CDS 30.0%
TAACAAACAAGGTTTCAAGA+AGG - contig362end:19798-19817 MsG0080048590.01.T01:CDS 30.0%
TAAGATATATAGATGGCATG+TGG - contig362end:19963-19982 MsG0080048590.01.T01:CDS 30.0%
! AAATGCTCTGGTTTATGTAA+TGG + contig362end:20000-20019 MsG0080048590.01.T01:intergenic 30.0%
CGAGAAGTAAATGAAGTTCA+AGG - contig362end:20039-20058 MsG0080048590.01.T01:CDS 35.0%
GAAAGAAAAACCTGAGGAAA+GGG - contig362end:19888-19907 MsG0080048590.01.T01:CDS 35.0%
GAAAGTGAAAGAAAAACCTG+AGG - contig362end:19882-19901 MsG0080048590.01.T01:CDS 35.0%
GTTTGCTTAATCCTAACAAC+AGG - contig362end:19824-19843 MsG0080048590.01.T01:CDS 35.0%
TCCATGATTCGTTATTGCTA+GGG + contig362end:19627-19646 MsG0080048590.01.T01:intergenic 35.0%
TGAAAGAAAAACCTGAGGAA+AGG - contig362end:19887-19906 MsG0080048590.01.T01:CDS 35.0%
TTCACAAACTCAATAACCAG+TGG + contig362end:19865-19884 MsG0080048590.01.T01:intergenic 35.0%
TTCCATGATTCGTTATTGCT+AGG + contig362end:19628-19647 MsG0080048590.01.T01:intergenic 35.0%
! AGCTGGAATATCTTTGAAGA+TGG - contig362end:19921-19940 MsG0080048590.01.T01:CDS 35.0%
CCATGATTCGTTATTGCTAG+GGG + contig362end:19626-19645 MsG0080048590.01.T01:intergenic 40.0%
TTACTTCTCGAAATGCTCTC+AGG + contig362end:20029-20048 MsG0080048590.01.T01:intergenic 40.0%
CCCCTAGCAATAACGAATCA+TGG - contig362end:19623-19642 MsG0080048590.01.T01:CDS 45.0%
CTCAGGTAACACAAATGCTC+TGG + contig362end:20012-20031 MsG0080048590.01.T01:intergenic 45.0%
GAAAAACCTGAGGAAAGGGT+TGG - contig362end:19892-19911 MsG0080048590.01.T01:CDS 45.0%
TTACAACCAACCCTTTCCTC+AGG + contig362end:19901-19920 MsG0080048590.01.T01:intergenic 45.0%
! TCTGATGTTGGCCTGTTGTT+AGG + contig362end:19838-19857 MsG0080048590.01.T01:intergenic 45.0%
!! GAAAGGGTTGGTTGTAAAGC+TGG - contig362end:19904-19923 MsG0080048590.01.T01:CDS 45.0%
!! ACCAGTGGACTGTCTGATGT+TGG + contig362end:19850-19869 MsG0080048590.01.T01:intergenic 50.0%
GCCAACATCAGACAGTCCAC+TGG - contig362end:19846-19865 MsG0080048590.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
contig362end gene 19535 20065 19535 ID=MsG0080048590.01;Name=MsG0080048590.01
contig362end mRNA 19535 20065 19535 ID=MsG0080048590.01.T01;Parent=MsG0080048590.01;Name=MsG0080048590.01.T01;_AED=0.15;_eAED=0.15;_QI=0|-1|0|1|-1|1|1|0|176
contig362end exon 19535 20065 19535 ID=MsG0080048590.01.T01:exon:3558;Parent=MsG0080048590.01.T01
contig362end CDS 19535 20065 19535 ID=MsG0080048590.01.T01:cds;Parent=MsG0080048590.01.T01
Gene Sequence

>MsG0080048590.01.T01

ATGGATTTGATATCAACTTCATTTGAGAGTGGACAACTGAGTGTTGAAACTTCATCACTGATTCATGCTGATAGTTCTCAATGTTACTCCCCTAGCAATAACGAATCATGGAAGTCTTTAGTCTTTCAATCTATTAAAGAGAGTGAAGATTTTTATGTTAATTATGCATATAACACTGGATTTTCTATTAGGACTATGTTGAAGTCGAAGAACAATTCACAAAATAAGAAATCAGATAAGGTACATTATGTGCGTTATGTTTGTAACAAACAAGGTTTCAAGAAGGGAAGTTTGCTTAATCCTAACAACAGGCCAACATCAGACAGTCCACTGGTTATTGAGTTTGTGAAAGTGAAAGAAAAACCTGAGGAAAGGGTTGGTTGTAAAGCTGGAATATCTTTGAAGATGGATGAAATTTTGAATGGGTATAAGATATATAGATGGCATGTGGCTCACTGTCATCCATTACATAAACCAGAGCATTTGTGTTACCTGAGAGCATTTCGAGAAGTAAATGAAGTTCAAGGATAA
Protein sequence

>MsG0080048590.01.T01

MDLISTSFESGQLSVETSSLIHADSSQCYSPSNNESWKSLVFQSIKESEDFYVNYAYNTGFSIRTMLKSKNNSQNKKSDKVHYVRYVCNKQGFKKGSLLNPNNRPTSDSPLVIEFVKVKEKPEERVGCKAGISLKMDEILNGYKIYRWHVAHCHPLHKPEHLCYLRAFREVNEVQG*