AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0932170

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0932170 MtrunA17_Chr6g0449111 97.436 78 2 0 4 81 2 79 1.59e-53 160
Msa0932170 MtrunA17_Chr7g0255841 75.410 61 15 0 14 74 14 74 3.94e-32 107
Msa0932170 MtrunA17_Chr3g0081631 64.865 74 25 1 4 76 2 75 1.49e-31 105
Msa0932170 MtrunA17_Chr1g0155181 57.143 70 30 0 7 76 2 71 8.69e-28 95.9
Msa0932170 MtrunA17_Chr3g0144631 56.410 78 30 1 1 74 1 78 1.06e-26 93.2
Msa0932170 MtrunA17_Chr5g0404101 56.338 71 31 0 4 74 11 81 1.25e-25 90.9
Msa0932170 MtrunA17_Chr8g0373111 57.576 66 27 1 9 74 2 66 2.63e-25 89.4
Msa0932170 MtrunA17_Chr8g0373121 57.576 66 27 1 9 74 2 66 2.63e-25 89.4
Msa0932170 MtrunA17_Chr8g0373131 57.576 66 27 1 9 74 2 66 2.76e-25 89.4
Msa0932170 MtrunA17_Chr3g0141601 54.286 70 32 0 7 76 2 71 6.75e-25 89.0
Msa0932170 MtrunA17_Chr8g0373101 51.471 68 32 1 9 76 2 68 1.67e-21 79.7
Msa0932170 MtrunA17_Chr5g0404301 53.968 63 28 1 10 72 2 63 2.68e-21 79.0
Msa0932170 MtrunA17_Chr5g0436501 51.471 68 33 0 7 74 22 89 3.32e-19 78.6
Msa0932170 MtrunA17_Chr3g0141641 47.619 63 33 0 12 74 3 65 4.07e-18 71.6
Msa0932170 MtrunA17_Chr5g0429521 47.222 72 38 0 9 80 26 97 4.27e-18 75.9
Msa0932170 MtrunA17_Chr8g0365011 56.061 66 29 0 9 74 5 70 4.94e-18 75.5
Msa0932170 MtrunA17_Chr3g0104071 46.154 78 42 0 3 80 34 111 1.39e-17 74.7
Msa0932170 MtrunA17_Chr1g0162081 48.649 74 38 0 1 74 1 74 1.48e-17 74.3
Msa0932170 MtrunA17_Chr7g0241761 46.377 69 37 0 7 75 30 98 1.70e-17 74.3
Msa0932170 MtrunA17_Chr8g0364741 50.000 68 34 0 7 74 5 72 1.00e-16 68.9
Msa0932170 MtrunA17_Chr7g0270711 49.206 63 31 1 8 69 7 69 1.47e-15 65.1
Msa0932170 MtrunA17_Chr4g0062741 45.946 74 37 1 6 76 2 75 2.03e-15 68.6
Msa0932170 MtrunA17_Chr1g0194071 48.333 60 30 1 10 68 9 68 9.03e-15 63.2
Msa0932170 MtrunA17_Chr1g0210471 43.284 67 38 0 10 76 22 88 1.72e-14 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0932170 AT1G75250.2 60.811 74 29 0 1 74 1 74 3.03e-30 102
Msa0932170 AT1G75250.1 60.811 74 29 0 1 74 1 74 9.09e-30 102
Msa0932170 AT2G21650.1 66.667 63 21 0 12 74 14 76 1.21e-29 101
Msa0932170 AT4G39250.1 68.254 63 20 0 12 74 14 76 1.24e-29 101
Msa0932170 AT1G19510.1 62.069 58 22 0 17 74 17 74 6.12e-23 84.3
Msa0932170 AT2G18328.1 59.016 61 25 0 16 76 15 75 1.04e-22 83.2
Msa0932170 AT5G08520.1 47.436 78 41 0 1 78 1 78 6.21e-19 78.6
Msa0932170 AT5G05790.2 50.000 66 33 0 9 74 28 93 1.54e-17 74.3
Msa0932170 AT5G05790.1 50.000 66 33 0 9 74 28 93 1.54e-17 74.3
Msa0932170 AT5G58900.1 46.479 71 38 0 4 74 26 96 5.88e-17 73.2
Msa0932170 AT5G23650.1 51.471 68 33 0 7 74 8 75 6.81e-17 73.2
Msa0932170 AT4G36570.1 59.091 44 18 0 12 55 12 55 8.95e-17 67.8
Msa0932170 AT3G11280.2 46.250 80 43 0 1 80 22 101 1.14e-16 72.0
Msa0932170 AT3G11280.1 46.250 80 43 0 1 80 22 101 1.14e-16 72.0
Msa0932170 AT2G38090.1 48.485 66 34 0 9 74 26 91 1.37e-16 72.0
Msa0932170 AT1G49010.1 43.662 71 37 1 7 74 3 73 3.97e-14 65.5
Msa0932170 AT5G01200.1 46.154 65 34 1 11 74 29 93 6.99e-12 58.9

Find 25 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGAATTAAGTGGGATGTTT+AGG 0.212233 6_3:+165148 None:intergenic
TAATGGCTCTTGACTTGTTC+AGG 0.298811 6_3:+165238 None:intergenic
GACATTCACCTTATTGAATC+AGG 0.315005 6_3:-165199 Msa0932170:CDS
GCAATATTGTACCAACGTTC+AGG 0.389152 6_3:+165283 None:intergenic
TGAATTAAGTGGGATGTTTA+GGG 0.390410 6_3:+165149 None:intergenic
TACAATATTGCTAAGGTTGT+TGG 0.405177 6_3:-165271 Msa0932170:CDS
ATTCCATGTAGTACTGGAAC+TGG 0.418503 6_3:+165360 None:intergenic
GAACTTGGCCTGATTCAATA+AGG 0.435223 6_3:+165191 None:intergenic
CTTGGAGAAGGAGTTGATAA+TGG 0.437914 6_3:+165221 None:intergenic
TGTTTAGGGTTGGTGTAGGA+AGG 0.453885 6_3:+165163 None:intergenic
TGTAGGAAGGAAAGGGAACT+TGG 0.465307 6_3:+165176 None:intergenic
TTCAACATTCCATGTAGTAC+TGG 0.497227 6_3:+165354 None:intergenic
ATTCAATAAGGTGAATGTCT+TGG 0.499836 6_3:+165203 None:intergenic
AGGGTTGGTGTAGGAAGGAA+AGG 0.512474 6_3:+165168 None:intergenic
TGTAGTACTGGAACTGGATG+AGG 0.512918 6_3:+165366 None:intergenic
AATATTGCTAAGGTTGTTGG+TGG 0.514753 6_3:-165268 Msa0932170:CDS
CATCCAGTTCCAGTACTACA+TGG 0.515242 6_3:-165363 Msa0932170:CDS
GGGATGTTTAGGGTTGGTGT+AGG 0.558762 6_3:+165159 None:intergenic
TTAAGTGGGATGTTTAGGGT+TGG 0.568489 6_3:+165153 None:intergenic
TAAGGTGAATGTCTTGGAGA+AGG 0.573238 6_3:+165209 None:intergenic
GGGTTGGTGTAGGAAGGAAA+GGG 0.579312 6_3:+165169 None:intergenic
GGATATGTGAATGAATTAAG+TGG 0.584963 6_3:+165138 None:intergenic
ACGTTGGTACAATATTGCTA+AGG 0.612999 6_3:-165278 Msa0932170:CDS
GATATGTGAATGAATTAAGT+GGG 0.624973 6_3:+165139 None:intergenic
ACAAAGACACACCTGAACGT+TGG 0.679810 6_3:-165294 Msa0932170:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TACAATATTGCTAAGGTTGT+TGG - chr6_3:165258-165277 Msa0932170:CDS 30.0%
ATTCAATAAGGTGAATGTCT+TGG + chr6_3:165329-165348 None:intergenic 30.0%
TTCAACATTCCATGTAGTAC+TGG + chr6_3:165178-165197 None:intergenic 35.0%
ACGTTGGTACAATATTGCTA+AGG - chr6_3:165251-165270 Msa0932170:CDS 35.0%
AATATTGCTAAGGTTGTTGG+TGG - chr6_3:165261-165280 Msa0932170:CDS 35.0%
GACATTCACCTTATTGAATC+AGG - chr6_3:165330-165349 Msa0932170:CDS 35.0%
! ATTCCATGTAGTACTGGAAC+TGG + chr6_3:165172-165191 None:intergenic 40.0%
GCAATATTGTACCAACGTTC+AGG + chr6_3:165249-165268 None:intergenic 40.0%
!! TAATGGCTCTTGACTTGTTC+AGG + chr6_3:165294-165313 None:intergenic 40.0%
!! CTTGGAGAAGGAGTTGATAA+TGG + chr6_3:165311-165330 None:intergenic 40.0%
TAAGGTGAATGTCTTGGAGA+AGG + chr6_3:165323-165342 None:intergenic 40.0%
GAACTTGGCCTGATTCAATA+AGG + chr6_3:165341-165360 None:intergenic 40.0%
! TTAAGTGGGATGTTTAGGGT+TGG + chr6_3:165379-165398 None:intergenic 40.0%
! TGTAGTACTGGAACTGGATG+AGG + chr6_3:165166-165185 None:intergenic 45.0%
CATCCAGTTCCAGTACTACA+TGG - chr6_3:165166-165185 Msa0932170:CDS 45.0%
ACAAAGACACACCTGAACGT+TGG - chr6_3:165235-165254 Msa0932170:CDS 45.0%
TGTAGGAAGGAAAGGGAACT+TGG + chr6_3:165356-165375 None:intergenic 45.0%
!! TGTTTAGGGTTGGTGTAGGA+AGG + chr6_3:165369-165388 None:intergenic 45.0%
!! GGGTTGGTGTAGGAAGGAAA+GGG + chr6_3:165363-165382 None:intergenic 50.0%
!! AGGGTTGGTGTAGGAAGGAA+AGG + chr6_3:165364-165383 None:intergenic 50.0%
!! GGGATGTTTAGGGTTGGTGT+AGG + chr6_3:165373-165392 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
chr6_3 gene 165153 165398 165153 ID=Msa0932170;Name=Msa0932170
chr6_3 mRNA 165153 165398 165153 ID=Msa0932170-mRNA-1;Parent=Msa0932170;Name=Msa0932170-mRNA-1;_AED=0.41;_eAED=0.41;_QI=0|-1|0|1|-1|1|1|0|81
chr6_3 exon 165153 165398 165153 ID=Msa0932170-mRNA-1:exon:113;Parent=Msa0932170-mRNA-1
chr6_3 CDS 165153 165398 165153 ID=Msa0932170-mRNA-1:cds;Parent=Msa0932170-mRNA-1
Gene Sequence

>Msa0932170

ATGTCTTCTTCCTCATCCAGTTCCAGTACTACATGGAATGTTGAAGACAATAAAGCTTTTGAAAGAGCTCTAGCAGTTTATGACAAAGACACACCTGAACGTTGGTACAATATTGCTAAGGTTGTTGGTGGAAAAACTCCTGAACAAGTCAAGAGCCATTATCAACTCCTTCTCCAAGACATTCACCTTATTGAATCAGGCCAAGTTCCCTTTCCTTCCTACACCAACCCTAAACATCCCACTTAA
Protein sequence

>Msa0932170

MSSSSSSSSTTWNVEDNKAFERALAVYDKDTPERWYNIAKVVGGKTPEQVKSHYQLLLQDIHLIESGQVPFPSYTNPKHPT*