AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene82781

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene82781.t1 MTR_6g004250 96.154 78 3 0 4 81 2 79 1.88e-52 158
MS.gene82781.t1 MTR_7g089210 75.410 61 15 0 14 74 14 74 4.74e-32 107
MS.gene82781.t1 MTR_3g013440 64.865 74 25 1 4 76 2 75 1.16e-31 106
MS.gene82781.t1 MTR_1g022290 57.143 70 30 0 7 76 2 71 1.18e-27 96.3
MS.gene82781.t1 MTR_3g116720 56.410 78 30 1 1 74 1 78 1.11e-26 93.2
MS.gene82781.t1 MTR_5g020170 56.338 71 31 0 4 74 11 81 1.39e-25 90.9
MS.gene82781.t1 MTR_8g077360 57.576 66 27 1 9 74 2 66 2.43e-25 89.7
MS.gene82781.t1 MTR_8g077380 57.576 66 27 1 9 74 2 66 2.45e-25 89.7
MS.gene82781.t1 MTR_8g077390 57.576 66 27 1 9 74 2 66 2.45e-25 89.7
MS.gene82781.t1 MTR_3g111880 54.286 70 32 0 7 76 2 71 8.36e-25 89.0
MS.gene82781.t1 MTR_8g077420 51.471 68 32 1 9 76 2 68 2.02e-21 79.7
MS.gene82781.t1 MTR_5g020540 53.968 63 28 1 10 72 2 63 3.04e-21 79.0
MS.gene82781.t1 MTR_5g081860 51.471 68 33 0 7 74 22 89 4.97e-19 78.2
MS.gene82781.t1 MTR_1g033600 44.444 81 45 0 1 81 1 81 6.53e-19 75.1
MS.gene82781.t1 MTR_5g069710 47.222 72 38 0 9 80 26 97 3.27e-18 76.6
MS.gene82781.t1 MTR_3g111920 47.619 63 33 0 12 74 3 65 4.57e-18 71.6
MS.gene82781.t1 MTR_8g063870 56.061 66 29 0 9 74 5 70 4.88e-18 75.9
MS.gene82781.t1 MTR_3g462790 46.154 78 42 0 3 80 34 111 1.22e-17 75.1
MS.gene82781.t1 MTR_7g067080 46.377 69 37 0 7 75 30 98 2.43e-17 74.3
MS.gene82781.t1 MTR_8g063600 50.000 68 34 0 7 74 5 72 8.51e-16 69.7
MS.gene82781.t1 MTR_7g110580 49.206 63 31 1 8 69 4 66 1.23e-15 65.5
MS.gene82781.t1 MTR_4g111975 45.946 74 37 1 6 76 2 75 2.94e-15 68.6
MS.gene82781.t1 MTR_1g086180 48.333 60 30 1 10 68 9 68 9.84e-15 63.5
MS.gene82781.t1 MTR_1g111830 43.284 67 38 0 10 76 22 88 1.79e-14 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene82781.t1 AT1G75250 60.811 74 29 0 1 74 1 74 2.19e-30 103
MS.gene82781.t1 AT1G75250 60.811 74 29 0 1 74 1 74 7.74e-30 102
MS.gene82781.t1 AT2G21650 66.667 63 21 0 12 74 14 76 1.03e-29 101
MS.gene82781.t1 AT4G39250 68.254 63 20 0 12 74 14 76 1.14e-29 101
MS.gene82781.t1 AT1G19510 62.069 58 22 0 17 74 17 74 5.76e-23 84.3
MS.gene82781.t1 AT2G18328 59.016 61 25 0 16 76 15 75 1.04e-22 83.2
MS.gene82781.t1 AT5G08520 47.436 78 41 0 1 78 1 78 6.29e-19 78.6
MS.gene82781.t1 AT5G05790 50.000 66 33 0 9 74 28 93 1.73e-17 74.3
MS.gene82781.t1 AT5G05790 50.000 66 33 0 9 74 28 93 1.73e-17 74.3
MS.gene82781.t1 AT5G58900 46.479 71 38 0 4 74 26 96 6.33e-17 72.8
MS.gene82781.t1 AT5G23650 51.471 68 33 0 7 74 8 75 6.82e-17 73.2
MS.gene82781.t1 AT4G36570 59.091 44 18 0 12 55 12 55 7.39e-17 67.8
MS.gene82781.t1 AT3G11280 46.250 80 43 0 1 80 22 101 8.98e-17 72.4
MS.gene82781.t1 AT3G11280 46.250 80 43 0 1 80 22 101 8.98e-17 72.4
MS.gene82781.t1 AT2G38090 48.485 66 34 0 9 74 26 91 1.51e-16 72.0
MS.gene82781.t1 AT1G49010 42.667 75 40 1 7 78 3 77 3.85e-14 65.5
MS.gene82781.t1 AT5G01200 46.154 65 34 1 11 74 29 93 7.37e-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
ATGAATTAAGTGGGTTGTTT+AGG 0.221417 6.1:+247793 None:intergenic
TAATGGCTCTTGACTTGTTC+AGG 0.298811 6.1:+247883 None:intergenic
TGAATTAAGTGGGTTGTTTA+GGG 0.374249 6.1:+247794 None:intergenic
GCAATATTGTACCAACGTTC+AGG 0.389152 6.1:+247928 None:intergenic
TACAATATTGCTAAGGTTGT+TGG 0.405177 6.1:-247916 MS.gene82781:CDS
GACATTCACCTCATTGAATC+AGG 0.413822 6.1:-247844 MS.gene82781:CDS
ATTCCATGTAGTACTGGAAC+TGG 0.418503 6.1:+248005 None:intergenic
CTTGGAGAAGGAGTTGATAA+TGG 0.437914 6.1:+247866 None:intergenic
TGTTTAGGGTTGGTGTAGGA+AGG 0.444513 6.1:+247808 None:intergenic
TGTAGGAAGGAAAGGGAACT+TGG 0.465307 6.1:+247821 None:intergenic
TTCAACATTCCATGTAGTAC+TGG 0.497227 6.1:+247999 None:intergenic
AGGGTTGGTGTAGGAAGGAA+AGG 0.512474 6.1:+247813 None:intergenic
TGTAGTACTGGAACTGGATG+AGG 0.512918 6.1:+248011 None:intergenic
AATATTGCTAAGGTTGTTGG+TGG 0.514753 6.1:-247913 MS.gene82781:CDS
CATCCAGTTCCAGTACTACA+TGG 0.515242 6.1:-248008 MS.gene82781:CDS
TTAAGTGGGTTGTTTAGGGT+TGG 0.518885 6.1:+247798 None:intergenic
GGGTTGTTTAGGGTTGGTGT+AGG 0.549344 6.1:+247804 None:intergenic
ATTCAATGAGGTGAATGTCT+TGG 0.553073 6.1:+247848 None:intergenic
GATATTTGAATGAATTAAGT+GGG 0.559629 6.1:+247784 None:intergenic
GGATATTTGAATGAATTAAG+TGG 0.567687 6.1:+247783 None:intergenic
GGGTTGGTGTAGGAAGGAAA+GGG 0.579312 6.1:+247814 None:intergenic
TGAGGTGAATGTCTTGGAGA+AGG 0.588190 6.1:+247854 None:intergenic
ACGTTGGTACAATATTGCTA+AGG 0.612999 6.1:-247923 MS.gene82781:CDS
ACAAAGACACACCTGAACGT+TGG 0.679810 6.1:-247939 MS.gene82781:CDS
GAACTTGGCCTGATTCAATG+AGG 0.697485 6.1:+247836 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TACAATATTGCTAAGGTTGT+TGG - chr6.1:247903-247922 MS.gene82781:CDS 30.0%
AATATTGCTAAGGTTGTTGG+TGG - chr6.1:247906-247925 MS.gene82781:CDS 35.0%
ACGTTGGTACAATATTGCTA+AGG - chr6.1:247896-247915 MS.gene82781:CDS 35.0%
ATTCAATGAGGTGAATGTCT+TGG + chr6.1:247974-247993 None:intergenic 35.0%
TTCAACATTCCATGTAGTAC+TGG + chr6.1:247823-247842 None:intergenic 35.0%
GACATTCACCTCATTGAATC+AGG - chr6.1:247975-247994 MS.gene82781:CDS 40.0%
GCAATATTGTACCAACGTTC+AGG + chr6.1:247894-247913 None:intergenic 40.0%
! ATTCCATGTAGTACTGGAAC+TGG + chr6.1:247817-247836 None:intergenic 40.0%
!! CTTGGAGAAGGAGTTGATAA+TGG + chr6.1:247956-247975 None:intergenic 40.0%
!! TAATGGCTCTTGACTTGTTC+AGG + chr6.1:247939-247958 None:intergenic 40.0%
!! TTAAGTGGGTTGTTTAGGGT+TGG + chr6.1:248024-248043 None:intergenic 40.0%
ACAAAGACACACCTGAACGT+TGG - chr6.1:247880-247899 MS.gene82781:CDS 45.0%
CATCCAGTTCCAGTACTACA+TGG - chr6.1:247811-247830 MS.gene82781:CDS 45.0%
GAACTTGGCCTGATTCAATG+AGG + chr6.1:247986-248005 None:intergenic 45.0%
TGAGGTGAATGTCTTGGAGA+AGG + chr6.1:247968-247987 None:intergenic 45.0%
TGTAGGAAGGAAAGGGAACT+TGG + chr6.1:248001-248020 None:intergenic 45.0%
! TGTAGTACTGGAACTGGATG+AGG + chr6.1:247811-247830 None:intergenic 45.0%
!! TGTTTAGGGTTGGTGTAGGA+AGG + chr6.1:248014-248033 None:intergenic 45.0%
!! AGGGTTGGTGTAGGAAGGAA+AGG + chr6.1:248009-248028 None:intergenic 50.0%
!! GGGTTGGTGTAGGAAGGAAA+GGG + chr6.1:248008-248027 None:intergenic 50.0%
!! GGGTTGTTTAGGGTTGGTGT+AGG + chr6.1:248018-248037 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr6.1 gene 247798 248043 247798 ID=MS.gene82781
chr6.1 mRNA 247798 248043 247798 ID=MS.gene82781.t1;Parent=MS.gene82781
chr6.1 exon 247798 248043 247798 ID=MS.gene82781.t1.exon1;Parent=MS.gene82781.t1
chr6.1 CDS 247798 248043 247798 ID=cds.MS.gene82781.t1;Parent=MS.gene82781.t1
Gene Sequence

>MS.gene82781

ATGTCTTCTTCCTCATCCAGTTCCAGTACTACATGGAATGTTGAAGACAATAAAGCTTTTGAAAGAGCTCTAGCAGTTTATGACAAAGACACACCTGAACGTTGGTACAATATTGCTAAGGTTGTTGGTGGAAAAACTCCTGAACAAGTCAAGAGCCATTATCAACTCCTTCTCCAAGACATTCACCTCATTGAATCAGGCCAAGTTCCCTTTCCTTCCTACACCAACCCTAAACAACCCACTTAA
Protein sequence

>MS.gene82781.t1

MSSSSSSSSTTWNVEDNKAFERALAVYDKDTPERWYNIAKVVGGKTPEQVKSHYQLLLQDIHLIESGQVPFPSYTNPKQPT