AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780037141.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780037141.01.T01 MTR_7g028940 98.551 69 1 0 1 69 1 69 4.78e-44 136
MsG0780037141.01.T01 MTR_8g096840 57.971 69 29 0 1 69 1 69 4.20e-26 90.9
MsG0780037141.01.T01 MTR_3g085020 57.971 69 29 0 1 69 1 69 2.43e-24 86.7
MsG0780037141.01.T01 MTR_8g097020 49.275 69 35 0 1 69 1 69 2.07e-22 81.6
MsG0780037141.01.T01 MTR_8g027820 50.725 69 34 0 1 69 1 69 2.88e-22 82.4
MsG0780037141.01.T01 MTR_7g028975 47.826 69 36 0 1 69 1 69 6.77e-21 77.8
MsG0780037141.01.T01 MTR_3g085030 46.377 69 37 0 1 69 1 69 1.38e-19 74.3
MsG0780037141.01.T01 MTR_7g028870 42.424 66 38 0 2 67 3 68 8.27e-19 72.4
MsG0780037141.01.T01 MTR_8g097030 57.353 68 29 0 2 69 3 70 2.07e-17 68.9
MsG0780037141.01.T01 MTR_7g028815 54.717 53 24 0 1 53 1 53 4.34e-17 69.7
MsG0780037141.01.T01 MTR_7g028945 40.299 67 40 0 1 67 1 67 1.02e-12 57.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780037141.01.T01 AT3G27030 68.116 69 22 0 1 69 74 142 1.97e-31 106
MsG0780037141.01.T01 AT3G27030 50.000 66 33 0 1 66 1 66 2.92e-19 75.9
MsG0780037141.01.T01 AT3G48660 56.522 69 30 0 1 69 1 69 6.43e-26 91.3
MsG0780037141.01.T01 AT5G63500 53.623 69 32 0 1 69 1 69 8.43e-24 85.1
MsG0780037141.01.T01 AT5G08391 50.725 69 34 0 1 69 1 69 1.25e-22 82.4
MsG0780037141.01.T01 AT5G14110 53.731 67 31 0 3 69 4 70 1.91e-20 76.6
MsG0780037141.01.T01 AT3G01950 47.761 67 35 0 3 69 4 70 3.27e-20 76.3
MsG0780037141.01.T01 AT3G27027 42.424 66 38 0 2 67 3 68 4.52e-19 73.2
MsG0780037141.01.T01 AT5G40980 45.283 53 29 0 2 54 3 55 5.12e-15 63.2
MsG0780037141.01.T01 AT3G01940 43.939 66 37 0 2 67 4 69 7.14e-13 57.8
MsG0780037141.01.T01 AT5G40960 40.299 67 40 0 1 67 1 67 7.72e-12 55.1
MsG0780037141.01.T01 AT5G50560 46.032 63 34 0 1 63 1 63 9.32e-11 52.0
MsG0780037141.01.T01 AT5G50660 46.032 63 34 0 1 63 1 63 9.32e-11 52.0

Find 14 sgRNAs with CRISPR-Local

Find 15 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTCGTGTTCATATCTATAC+TGG 0.316396 7:-20604799 MsG0780037141.01.T01:CDS
GATTGGGCACCAGTGGTTAT+TGG 0.332087 7:-20604976 MsG0780037141.01.T01:CDS
TCTCTATGCTGTTATCATCT+TGG 0.333421 7:-20604824 MsG0780037141.01.T01:CDS
TTGTTTGCATTTCCAGGAAA+TGG 0.335454 7:-20604919 MsG0780037141.01.T01:CDS
GGGTTGTTGTTTGCATTTCC+AGG 0.340837 7:-20604925 MsG0780037141.01.T01:CDS
CTGTTTGTGTTTCTTCAACC+AGG 0.411752 7:-20604946 MsG0780037141.01.T01:CDS
AATGGAAAACAGCTGGAGTT+TGG 0.431753 7:-20604901 MsG0780037141.01.T01:CDS
TTTGGTGGTATGAAGACAAA+TGG 0.486914 7:-20604883 MsG0780037141.01.T01:CDS
TCCAGGAAATGGAAAACAGC+TGG 0.512931 7:-20604908 MsG0780037141.01.T01:CDS
TGTTTGTGTTTCTTCAACCA+GGG 0.532155 7:-20604945 MsG0780037141.01.T01:CDS
GGAAAACAGCTGGAGTTTGG+TGG 0.573576 7:-20604898 MsG0780037141.01.T01:CDS
AATGTCTGATTGGGCACCAG+TGG 0.594590 7:-20604983 MsG0780037141.01.T01:CDS
AGCACAACTCCAATAACCAC+TGG 0.602053 7:+20604967 None:intergenic
GGAAATGCAAACAACAACCC+TGG 0.647896 7:+20604928 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTCATACACTTATTTTCTT+TGG - Chr7:20604930-20604949 MsG0780037141.01.T01:CDS 20.0%
CTTCGTGTTCATATCTATAC+TGG - Chr7:20604978-20604997 MsG0780037141.01.T01:CDS 35.0%
TCTCTATGCTGTTATCATCT+TGG - Chr7:20604953-20604972 MsG0780037141.01.T01:CDS 35.0%
TGTTTGTGTTTCTTCAACCA+GGG - Chr7:20604832-20604851 MsG0780037141.01.T01:CDS 35.0%
TTGTTTGCATTTCCAGGAAA+TGG - Chr7:20604858-20604877 MsG0780037141.01.T01:CDS 35.0%
! TTTGGTGGTATGAAGACAAA+TGG - Chr7:20604894-20604913 MsG0780037141.01.T01:CDS 35.0%
AATGGAAAACAGCTGGAGTT+TGG - Chr7:20604876-20604895 MsG0780037141.01.T01:CDS 40.0%
CTGTTTGTGTTTCTTCAACC+AGG - Chr7:20604831-20604850 MsG0780037141.01.T01:CDS 40.0%
AGCACAACTCCAATAACCAC+TGG + Chr7:20604813-20604832 None:intergenic 45.0%
GGAAATGCAAACAACAACCC+TGG + Chr7:20604852-20604871 None:intergenic 45.0%
TCCAGGAAATGGAAAACAGC+TGG - Chr7:20604869-20604888 MsG0780037141.01.T01:CDS 45.0%
!! GGGTTGTTGTTTGCATTTCC+AGG - Chr7:20604852-20604871 MsG0780037141.01.T01:CDS 45.0%
!! TCCAGCTGTTTTCCATTTCC+TGG + Chr7:20604873-20604892 None:intergenic 45.0%
GATTGGGCACCAGTGGTTAT+TGG - Chr7:20604801-20604820 MsG0780037141.01.T01:CDS 50.0%
GGAAAACAGCTGGAGTTTGG+TGG - Chr7:20604879-20604898 MsG0780037141.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr7 gene 20604795 20605004 20604795 ID=MsG0780037141.01;Name=MsG0780037141.01
Chr7 mRNA 20604795 20605004 20604795 ID=MsG0780037141.01.T01;Parent=MsG0780037141.01;Name=MsG0780037141.01.T01;_AED=0.39;_eAED=0.39;_QI=0|-1|0|1|-1|1|1|0|69
Chr7 exon 20604795 20605004 20604795 ID=MsG0780037141.01.T01:exon:4092;Parent=MsG0780037141.01.T01
Chr7 CDS 20604795 20605004 20604795 ID=MsG0780037141.01.T01:cds;Parent=MsG0780037141.01.T01
Gene Sequence

>MsG0780037141.01.T01

ATGTCTGATTGGGCACCAGTGGTTATTGGAGTTGTGCTGTTTGTGTTTCTTCAACCAGGGTTGTTGTTTGCATTTCCAGGAAATGGAAAACAGCTGGAGTTTGGTGGTATGAAGACAAATGGAAAAGCTATTTTCATTCATACACTTATTTTCTTTGGTCTCTATGCTGTTATCATCTTGGCTCTTCGTGTTCATATCTATACTGGTTGA

Protein sequence

>MsG0780037141.01.T01

MSDWAPVVIGVVLFVFLQPGLLFAFPGNGKQLEFGGMKTNGKAIFIHTLIFFGLYAVIILALRVHIYTG*