AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680030302.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680030302.01.T01 MTR_6g004250 97.436 78 2 0 4 81 2 79 2.09e-53 160
MsG0680030302.01.T01 MTR_7g089210 75.410 61 15 0 14 74 14 74 8.09e-32 106
MsG0680030302.01.T01 MTR_3g013440 64.865 74 25 1 4 76 2 75 1.96e-31 105
MsG0680030302.01.T01 MTR_1g022290 57.143 70 30 0 7 76 2 71 1.29e-27 95.9
MsG0680030302.01.T01 MTR_3g116720 56.410 78 30 1 1 74 1 78 1.40e-26 93.2
MsG0680030302.01.T01 MTR_5g020170 56.338 71 31 0 4 74 11 81 1.65e-25 90.9
MsG0680030302.01.T01 MTR_8g077380 57.576 66 27 1 9 74 2 66 3.46e-25 89.4
MsG0680030302.01.T01 MTR_8g077390 57.576 66 27 1 9 74 2 66 3.46e-25 89.4
MsG0680030302.01.T01 MTR_8g077360 57.576 66 27 1 9 74 2 66 3.63e-25 89.4
MsG0680030302.01.T01 MTR_3g111880 54.286 70 32 0 7 76 2 71 8.89e-25 89.0
MsG0680030302.01.T01 MTR_8g077420 51.471 68 32 1 9 76 2 68 2.20e-21 79.7
MsG0680030302.01.T01 MTR_5g020540 53.968 63 28 1 10 72 2 63 3.52e-21 79.0
MsG0680030302.01.T01 MTR_5g081860 51.471 68 33 0 7 74 22 89 4.37e-19 78.6
MsG0680030302.01.T01 MTR_1g033600 48.649 74 38 0 1 74 1 74 6.64e-19 75.5
MsG0680030302.01.T01 MTR_3g111920 47.619 63 33 0 12 74 3 65 5.54e-18 71.2
MsG0680030302.01.T01 MTR_5g069710 47.222 72 38 0 9 80 26 97 5.62e-18 75.9
MsG0680030302.01.T01 MTR_8g063870 56.061 66 29 0 9 74 5 70 6.12e-18 75.5
MsG0680030302.01.T01 MTR_3g462790 46.154 78 42 0 3 80 34 111 1.84e-17 74.7
MsG0680030302.01.T01 MTR_7g067080 46.377 69 37 0 7 75 30 98 2.24e-17 74.3
MsG0680030302.01.T01 MTR_8g063600 50.000 68 34 0 7 74 5 72 1.04e-15 69.7
MsG0680030302.01.T01 MTR_7g110580 49.206 63 31 1 8 69 4 66 1.87e-15 65.1
MsG0680030302.01.T01 MTR_4g111975 45.946 74 37 1 6 76 2 75 2.67e-15 68.6
MsG0680030302.01.T01 MTR_1g086180 48.333 60 30 1 10 68 9 68 1.19e-14 63.2
MsG0680030302.01.T01 MTR_1g111830 43.284 67 38 0 10 76 22 88 2.26e-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
MsG0680030302.01.T01 AT1G75250 60.811 74 29 0 1 74 1 74 3.03e-30 102
MsG0680030302.01.T01 AT1G75250 60.811 74 29 0 1 74 1 74 9.08e-30 102
MsG0680030302.01.T01 AT2G21650 66.667 63 21 0 12 74 14 76 1.21e-29 101
MsG0680030302.01.T01 AT4G39250 68.254 63 20 0 12 74 14 76 1.24e-29 101
MsG0680030302.01.T01 AT1G19510 62.069 58 22 0 17 74 17 74 6.12e-23 84.3
MsG0680030302.01.T01 AT2G18328 59.016 61 25 0 16 76 15 75 1.04e-22 83.2
MsG0680030302.01.T01 AT5G08520 47.436 78 41 0 1 78 1 78 6.21e-19 78.6
MsG0680030302.01.T01 AT5G05790 50.000 66 33 0 9 74 28 93 1.54e-17 74.3
MsG0680030302.01.T01 AT5G05790 50.000 66 33 0 9 74 28 93 1.54e-17 74.3
MsG0680030302.01.T01 AT5G58900 46.479 71 38 0 4 74 26 96 5.88e-17 73.2
MsG0680030302.01.T01 AT5G23650 51.471 68 33 0 7 74 8 75 6.81e-17 73.2
MsG0680030302.01.T01 AT4G36570 59.091 44 18 0 12 55 12 55 8.94e-17 67.8
MsG0680030302.01.T01 AT3G11280 46.250 80 43 0 1 80 22 101 1.14e-16 72.0
MsG0680030302.01.T01 AT3G11280 46.250 80 43 0 1 80 22 101 1.14e-16 72.0
MsG0680030302.01.T01 AT2G38090 48.485 66 34 0 9 74 26 91 1.37e-16 72.0
MsG0680030302.01.T01 AT1G49010 43.662 71 37 1 7 74 3 73 3.96e-14 65.5
MsG0680030302.01.T01 AT5G01200 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:+292951 None:intergenic
TAGTGGCTCTTGACTTGTTC+AGG 0.283922 6:+293041 None:intergenic
GACATTCACCTTATTGAATC+AGG 0.315005 6:-293002 MsG0680030302.01.T01:CDS
GCAATATTGTACCAACGTTC+AGG 0.389152 6:+293086 None:intergenic
TGAATTAAGTGGGATGTTTA+GGG 0.390410 6:+292952 None:intergenic
TACAATATTGCTAAGGTTGT+TGG 0.405177 6:-293074 MsG0680030302.01.T01:CDS
ATTCCATGTAGTACTGGAAC+TGG 0.418503 6:+293163 None:intergenic
GAACTTGGCCTGATTCAATA+AGG 0.435223 6:+292994 None:intergenic
TGTTTAGGGTTGGTGTAGGA+AGG 0.453885 6:+292966 None:intergenic
TGTAGGAAGGAAAGGGAACT+TGG 0.465307 6:+292979 None:intergenic
TTCAACATTCCATGTAGTAC+TGG 0.497227 6:+293157 None:intergenic
ATTCAATAAGGTGAATGTCT+TGG 0.499836 6:+293006 None:intergenic
AGGGTTGGTGTAGGAAGGAA+AGG 0.512474 6:+292971 None:intergenic
TGTAGTACTGGAACTGGATG+AGG 0.512918 6:+293169 None:intergenic
AATATTGCTAAGGTTGTTGG+TGG 0.514753 6:-293071 MsG0680030302.01.T01:CDS
CATCCAGTTCCAGTACTACA+TGG 0.515242 6:-293166 MsG0680030302.01.T01:CDS
CTTGGAGAAGGAGTTGATAG+TGG 0.546212 6:+293024 None:intergenic
GGGATGTTTAGGGTTGGTGT+AGG 0.558762 6:+292962 None:intergenic
TTAAGTGGGATGTTTAGGGT+TGG 0.568489 6:+292956 None:intergenic
TAAGGTGAATGTCTTGGAGA+AGG 0.573238 6:+293012 None:intergenic
GGGTTGGTGTAGGAAGGAAA+GGG 0.579312 6:+292972 None:intergenic
GGATGTGTGAATGAATTAAG+TGG 0.584963 6:+292941 None:intergenic
ACGTTGGTACAATATTGCTA+AGG 0.612999 6:-293081 MsG0680030302.01.T01:CDS
GATGTGTGAATGAATTAAGT+GGG 0.624973 6:+292942 None:intergenic
ACAAAGACACACCTGAACGT+TGG 0.679810 6:-293097 MsG0680030302.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATTCAATAAGGTGAATGTCT+TGG + Chr6:293132-293151 None:intergenic 30.0%
TACAATATTGCTAAGGTTGT+TGG - Chr6:293061-293080 MsG0680030302.01.T01:CDS 30.0%
AATATTGCTAAGGTTGTTGG+TGG - Chr6:293064-293083 MsG0680030302.01.T01:CDS 35.0%
ACGTTGGTACAATATTGCTA+AGG - Chr6:293054-293073 MsG0680030302.01.T01:CDS 35.0%
GACATTCACCTTATTGAATC+AGG - Chr6:293133-293152 MsG0680030302.01.T01:CDS 35.0%
TTCAACATTCCATGTAGTAC+TGG + Chr6:292981-293000 None:intergenic 35.0%
GAACTTGGCCTGATTCAATA+AGG + Chr6:293144-293163 None:intergenic 40.0%
GCAATATTGTACCAACGTTC+AGG + Chr6:293052-293071 None:intergenic 40.0%
TAAGGTGAATGTCTTGGAGA+AGG + Chr6:293126-293145 None:intergenic 40.0%
! ATTCCATGTAGTACTGGAAC+TGG + Chr6:292975-292994 None:intergenic 40.0%
! TTAAGTGGGATGTTTAGGGT+TGG + Chr6:293182-293201 None:intergenic 40.0%
ACAAAGACACACCTGAACGT+TGG - Chr6:293038-293057 MsG0680030302.01.T01:CDS 45.0%
CATCCAGTTCCAGTACTACA+TGG - Chr6:292969-292988 MsG0680030302.01.T01:CDS 45.0%
TGTAGGAAGGAAAGGGAACT+TGG + Chr6:293159-293178 None:intergenic 45.0%
! TGTAGTACTGGAACTGGATG+AGG + Chr6:292969-292988 None:intergenic 45.0%
!! CTTGGAGAAGGAGTTGATAG+TGG + Chr6:293114-293133 None:intergenic 45.0%
!! TAGTGGCTCTTGACTTGTTC+AGG + Chr6:293097-293116 None:intergenic 45.0%
!! TGTTTAGGGTTGGTGTAGGA+AGG + Chr6:293172-293191 None:intergenic 45.0%
!! AGGGTTGGTGTAGGAAGGAA+AGG + Chr6:293167-293186 None:intergenic 50.0%
!! GGGATGTTTAGGGTTGGTGT+AGG + Chr6:293176-293195 None:intergenic 50.0%
!! GGGTTGGTGTAGGAAGGAAA+GGG + Chr6:293166-293185 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
Chr6 gene 292956 293201 292956 ID=MsG0680030302.01;Name=MsG0680030302.01
Chr6 mRNA 292956 293201 292956 ID=MsG0680030302.01.T01;Parent=MsG0680030302.01;Name=MsG0680030302.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|81
Chr6 exon 292956 293201 292956 ID=MsG0680030302.01.T01:exon:2022;Parent=MsG0680030302.01.T01
Chr6 CDS 292956 293201 292956 ID=MsG0680030302.01.T01:cds;Parent=MsG0680030302.01.T01
Gene Sequence

>MsG0680030302.01.T01

ATGTCTTCTTCCTCATCCAGTTCCAGTACTACATGGAATGTTGAAGACAATAAAGCTTTTGAAAGAGCTCTAGCAGTTTATGACAAAGACACACCTGAACGTTGGTACAATATTGCTAAGGTTGTTGGTGGAAAAACTCCTGAACAAGTCAAGAGCCACTATCAACTCCTTCTCCAAGACATTCACCTTATTGAATCAGGCCAAGTTCCCTTTCCTTCCTACACCAACCCTAAACATCCCACTTAA
Protein sequence

>MsG0680030302.01.T01

MSSSSSSSSTTWNVEDNKAFERALAVYDKDTPERWYNIAKVVGGKTPEQVKSHYQLLLQDIHLIESGQVPFPSYTNPKHPT*