AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene032677

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene032677.t1 MTR_6g004250 97.436 78 2 0 4 81 2 79 2.01e-53 160
MS.gene032677.t1 MTR_7g089210 75.410 61 15 0 14 74 14 74 7.77e-32 106
MS.gene032677.t1 MTR_3g013440 64.865 74 25 1 4 76 2 75 1.88e-31 105
MS.gene032677.t1 MTR_1g022290 57.143 70 30 0 7 76 2 71 1.24e-27 95.9
MS.gene032677.t1 MTR_3g116720 56.410 78 30 1 1 74 1 78 1.34e-26 93.2
MS.gene032677.t1 MTR_5g020170 56.338 71 31 0 4 74 11 81 1.59e-25 90.9
MS.gene032677.t1 MTR_8g077380 57.576 66 27 1 9 74 2 66 3.32e-25 89.4
MS.gene032677.t1 MTR_8g077390 57.576 66 27 1 9 74 2 66 3.32e-25 89.4
MS.gene032677.t1 MTR_8g077360 57.576 66 27 1 9 74 2 66 3.49e-25 89.4
MS.gene032677.t1 MTR_3g111880 54.286 70 32 0 7 76 2 71 8.55e-25 89.0
MS.gene032677.t1 MTR_8g077420 51.471 68 32 1 9 76 2 68 2.11e-21 79.7
MS.gene032677.t1 MTR_5g020540 53.968 63 28 1 10 72 2 63 3.39e-21 79.0
MS.gene032677.t1 MTR_5g081860 51.471 68 33 0 7 74 22 89 4.20e-19 78.6
MS.gene032677.t1 MTR_1g033600 48.649 74 38 0 1 74 1 74 6.39e-19 75.5
MS.gene032677.t1 MTR_3g111920 47.619 63 33 0 12 74 3 65 5.33e-18 71.2
MS.gene032677.t1 MTR_5g069710 47.222 72 38 0 9 80 26 97 5.41e-18 75.9
MS.gene032677.t1 MTR_8g063870 56.061 66 29 0 9 74 5 70 5.88e-18 75.5
MS.gene032677.t1 MTR_3g462790 46.154 78 42 0 3 80 34 111 1.77e-17 74.7
MS.gene032677.t1 MTR_7g067080 46.377 69 37 0 7 75 30 98 2.15e-17 74.3
MS.gene032677.t1 MTR_8g063600 50.000 68 34 0 7 74 5 72 1.00e-15 69.7
MS.gene032677.t1 MTR_7g110580 49.206 63 31 1 8 69 4 66 1.80e-15 65.1
MS.gene032677.t1 MTR_4g111975 45.946 74 37 1 6 76 2 75 2.57e-15 68.6
MS.gene032677.t1 MTR_1g086180 48.333 60 30 1 10 68 9 68 1.15e-14 63.2
MS.gene032677.t1 MTR_1g111830 43.284 67 38 0 10 76 22 88 2.18e-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
MS.gene032677.t1 AT1G75250 60.811 74 29 0 1 74 1 74 2.91e-30 102
MS.gene032677.t1 AT1G75250 60.811 74 29 0 1 74 1 74 8.73e-30 102
MS.gene032677.t1 AT2G21650 66.667 63 21 0 12 74 14 76 1.16e-29 101
MS.gene032677.t1 AT4G39250 68.254 63 20 0 12 74 14 76 1.19e-29 101
MS.gene032677.t1 AT1G19510 62.069 58 22 0 17 74 17 74 5.88e-23 84.3
MS.gene032677.t1 AT2G18328 59.016 61 25 0 16 76 15 75 9.97e-23 83.2
MS.gene032677.t1 AT5G08520 47.436 78 41 0 1 78 1 78 5.97e-19 78.6
MS.gene032677.t1 AT5G05790 50.000 66 33 0 9 74 28 93 1.48e-17 74.3
MS.gene032677.t1 AT5G05790 50.000 66 33 0 9 74 28 93 1.48e-17 74.3
MS.gene032677.t1 AT5G58900 46.479 71 38 0 4 74 26 96 5.66e-17 73.2
MS.gene032677.t1 AT5G23650 51.471 68 33 0 7 74 8 75 6.55e-17 73.2
MS.gene032677.t1 AT4G36570 59.091 44 18 0 12 55 12 55 8.61e-17 67.8
MS.gene032677.t1 AT3G11280 46.250 80 43 0 1 80 22 101 1.09e-16 72.0
MS.gene032677.t1 AT3G11280 46.250 80 43 0 1 80 22 101 1.09e-16 72.0
MS.gene032677.t1 AT2G38090 48.485 66 34 0 9 74 26 91 1.32e-16 72.0
MS.gene032677.t1 AT1G49010 43.662 71 37 1 7 74 3 73 3.81e-14 65.5
MS.gene032677.t1 AT5G01200 46.154 65 34 1 11 74 29 93 6.73e-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:+283844 None:intergenic
TAATGGCTCTTGACTTGTTC+AGG 0.298811 6.3:+283934 None:intergenic
GACATTCACCTTATTGAATC+AGG 0.315005 6.3:-283895 MS.gene032677:CDS
GCAATATTGTACCAACGTTC+AGG 0.389152 6.3:+283979 None:intergenic
TGAATTAAGTGGGATGTTTA+GGG 0.390410 6.3:+283845 None:intergenic
TACAATATTGCTAAGGTTGT+TGG 0.405177 6.3:-283967 MS.gene032677:CDS
ATTCCATGTAGTACTGGAAC+TGG 0.418503 6.3:+284056 None:intergenic
GAACTTGGCCTGATTCAATA+AGG 0.435223 6.3:+283887 None:intergenic
CTTGGAGAAGGAGTTGATAA+TGG 0.437914 6.3:+283917 None:intergenic
TGTTTAGGGTTGGTGTAGGA+AGG 0.453885 6.3:+283859 None:intergenic
TGTAGGAAGGAAAGGGAACT+TGG 0.465307 6.3:+283872 None:intergenic
TTCAACATTCCATGTAGTAC+TGG 0.497227 6.3:+284050 None:intergenic
ATTCAATAAGGTGAATGTCT+TGG 0.499836 6.3:+283899 None:intergenic
AGGGTTGGTGTAGGAAGGAA+AGG 0.512474 6.3:+283864 None:intergenic
TGTAGTACTGGAACTGGATG+AGG 0.512918 6.3:+284062 None:intergenic
AATATTGCTAAGGTTGTTGG+TGG 0.514753 6.3:-283964 MS.gene032677:CDS
CATCCAGTTCCAGTACTACA+TGG 0.515242 6.3:-284059 MS.gene032677:CDS
GGGATGTTTAGGGTTGGTGT+AGG 0.558762 6.3:+283855 None:intergenic
TTAAGTGGGATGTTTAGGGT+TGG 0.568489 6.3:+283849 None:intergenic
TAAGGTGAATGTCTTGGAGA+AGG 0.573238 6.3:+283905 None:intergenic
GGGTTGGTGTAGGAAGGAAA+GGG 0.579312 6.3:+283865 None:intergenic
GGATATGTGAATGAATTAAG+TGG 0.584963 6.3:+283834 None:intergenic
ACGTTGGTACAATATTGCTA+AGG 0.612999 6.3:-283974 MS.gene032677:CDS
GATATGTGAATGAATTAAGT+GGG 0.624973 6.3:+283835 None:intergenic
ACAAAGACACACCTGAACGT+TGG 0.679810 6.3:-283990 MS.gene032677:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATTCAATAAGGTGAATGTCT+TGG + chr6.3:284025-284044 None:intergenic 30.0%
TACAATATTGCTAAGGTTGT+TGG - chr6.3:283954-283973 MS.gene032677:CDS 30.0%
AATATTGCTAAGGTTGTTGG+TGG - chr6.3:283957-283976 MS.gene032677:CDS 35.0%
ACGTTGGTACAATATTGCTA+AGG - chr6.3:283947-283966 MS.gene032677:CDS 35.0%
GACATTCACCTTATTGAATC+AGG - chr6.3:284026-284045 MS.gene032677:CDS 35.0%
TTCAACATTCCATGTAGTAC+TGG + chr6.3:283874-283893 None:intergenic 35.0%
GAACTTGGCCTGATTCAATA+AGG + chr6.3:284037-284056 None:intergenic 40.0%
GCAATATTGTACCAACGTTC+AGG + chr6.3:283945-283964 None:intergenic 40.0%
TAAGGTGAATGTCTTGGAGA+AGG + chr6.3:284019-284038 None:intergenic 40.0%
! ATTCCATGTAGTACTGGAAC+TGG + chr6.3:283868-283887 None:intergenic 40.0%
! TTAAGTGGGATGTTTAGGGT+TGG + chr6.3:284075-284094 None:intergenic 40.0%
!! CTTGGAGAAGGAGTTGATAA+TGG + chr6.3:284007-284026 None:intergenic 40.0%
!! TAATGGCTCTTGACTTGTTC+AGG + chr6.3:283990-284009 None:intergenic 40.0%
ACAAAGACACACCTGAACGT+TGG - chr6.3:283931-283950 MS.gene032677:CDS 45.0%
CATCCAGTTCCAGTACTACA+TGG - chr6.3:283862-283881 MS.gene032677:CDS 45.0%
TGTAGGAAGGAAAGGGAACT+TGG + chr6.3:284052-284071 None:intergenic 45.0%
! TGTAGTACTGGAACTGGATG+AGG + chr6.3:283862-283881 None:intergenic 45.0%
!! TGTTTAGGGTTGGTGTAGGA+AGG + chr6.3:284065-284084 None:intergenic 45.0%
!! AGGGTTGGTGTAGGAAGGAA+AGG + chr6.3:284060-284079 None:intergenic 50.0%
!! GGGATGTTTAGGGTTGGTGT+AGG + chr6.3:284069-284088 None:intergenic 50.0%
!! GGGTTGGTGTAGGAAGGAAA+GGG + chr6.3:284059-284078 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr6.3 gene 283849 284094 283849 ID=MS.gene032677
chr6.3 mRNA 283849 284094 283849 ID=MS.gene032677.t1;Parent=MS.gene032677
chr6.3 exon 283849 284094 283849 ID=MS.gene032677.t1.exon1;Parent=MS.gene032677.t1
chr6.3 CDS 283849 284094 283849 ID=cds.MS.gene032677.t1;Parent=MS.gene032677.t1
Gene Sequence

>MS.gene032677

ATGTCTTCTTCCTCATCCAGTTCCAGTACTACATGGAATGTTGAAGACAATAAAGCTTTTGAAAGAGCTCTAGCAGTTTATGACAAAGACACACCTGAACGTTGGTACAATATTGCTAAGGTTGTTGGTGGAAAAACTCCTGAACAAGTCAAGAGCCATTATCAACTCCTTCTCCAAGACATTCACCTTATTGAATCAGGCCAAGTTCCCTTTCCTTCCTACACCAACCCTAAACATCCCACTTAA
Protein sequence

>MS.gene032677.t1

MSSSSSSSSTTWNVEDNKAFERALAVYDKDTPERWYNIAKVVGGKTPEQVKSHYQLLLQDIHLIESGQVPFPSYTNPKHPT