AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1189130

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1189130 MtrunA17_Chr8g0357721 62.698 126 20 1 2 100 14 139 1.19e-50 157
Msa1189130 MtrunA17_Chr8g0357741 65.979 97 8 2 53 125 1 96 1.39e-33 112
Msa1189130 MtrunA17_Chr5g0404271 28.723 188 70 2 2 125 108 295 2.01e-25 97.1
Msa1189130 MtrunA17_Chr1g0188441 29.825 171 71 3 2 125 18 186 1.54e-20 82.4
Msa1189130 MtrunA17_Chr6g0479901 31.783 129 75 3 2 117 28 156 3.73e-20 80.9
Msa1189130 MtrunA17_Chr6g0453231 29.032 186 71 3 1 125 99 284 6.72e-20 83.2
Msa1189130 MtrunA17_Chr8g0367691 60.345 58 23 0 68 125 210 267 7.64e-20 82.0
Msa1189130 MtrunA17_Chr8g0367691 71.053 38 11 0 2 39 78 115 1.73e-13 65.1
Msa1189130 MtrunA17_Chr2g0315941 62.069 58 22 0 68 125 210 267 1.11e-19 81.6
Msa1189130 MtrunA17_Chr2g0315941 71.053 38 11 0 2 39 77 114 1.58e-13 65.1
Msa1189130 MtrunA17_Chr5g0412501 62.069 58 22 0 68 125 214 271 6.42e-19 79.7
Msa1189130 MtrunA17_Chr8g0349871 76.087 46 11 0 68 113 18 63 9.36e-17 69.3
Msa1189130 MtrunA17_Chr4g0076821 55.172 58 26 0 68 125 289 346 1.73e-16 73.9
Msa1189130 MtrunA17_Chr8g0349921 51.948 77 29 2 35 104 3 78 4.41e-16 67.8
Msa1189130 MtrunA17_Chr8g0349881 51.948 77 29 2 35 104 3 78 1.07e-15 66.6
Msa1189130 MtrunA17_Chr7g0217231 51.724 58 28 0 68 125 225 282 2.67e-14 67.8
Msa1189130 MtrunA17_Chr5g0427051 51.724 58 28 0 68 125 210 267 4.84e-14 66.2
Msa1189130 MtrunA17_Chr3g0133181 51.852 54 26 0 68 121 216 269 8.18e-14 65.9
Msa1189130 MtrunA17_Chr8g0361671 51.923 52 25 0 68 119 276 327 4.43e-13 64.3
Msa1189130 MtrunA17_Chr3g0092371 60.526 38 15 0 2 39 29 66 1.24e-12 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1189130 AT4G24660.1 34.783 161 67 2 3 125 59 219 7.02e-25 94.7
Msa1189130 AT4G24660.2 34.194 155 64 2 3 119 59 213 3.73e-23 90.5
Msa1189130 AT1G69600.1 32.000 175 64 4 2 121 40 214 1.55e-21 86.3
Msa1189130 AT5G60480.1 31.056 161 65 4 3 120 47 204 4.09e-19 79.7
Msa1189130 AT2G18350.1 30.588 170 72 3 2 125 91 260 2.21e-18 78.2
Msa1189130 AT5G15210.1 27.746 173 72 4 2 121 65 237 8.14e-18 77.0
Msa1189130 AT3G50890.1 28.994 169 69 5 2 119 69 237 1.72e-16 73.2
Msa1189130 AT2G02540.2 48.276 58 30 0 68 125 227 284 1.46e-14 68.6
Msa1189130 AT2G02540.1 48.276 58 30 0 68 125 227 284 1.46e-14 68.6
Msa1189130 AT1G75240.1 46.032 63 34 0 57 119 234 296 2.90e-14 67.8
Msa1189130 AT5G65410.1 47.368 57 30 0 68 124 196 252 3.53e-14 67.4
Msa1189130 AT1G14440.1 53.448 58 27 0 68 125 223 280 6.26e-14 67.0
Msa1189130 AT1G14440.2 53.448 58 27 0 68 125 223 280 6.26e-14 67.0
Msa1189130 AT1G74660.2 60.526 38 15 0 2 39 48 85 2.80e-12 58.9
Msa1189130 AT1G74660.1 60.526 38 15 0 2 39 48 85 4.74e-12 58.5
Msa1189130 AT3G28920.1 46.296 54 29 0 68 121 197 250 5.98e-11 58.5

Find 21 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGAGAGTAGCCTCCAATAT+TGG 0.357209 8_1:-30462759 None:intergenic
ATTGGAGGCTACTCTCTTGA+TGG 0.400758 8_1:+30462764 Msa1189130:CDS
ACATCTTCTTCCTTTGCTCA+TGG 0.404012 8_1:-30462983 None:intergenic
CATCTTCTTCCTTTGCTCAT+GGG 0.463154 8_1:-30462982 None:intergenic
AGGTTTGGATGTATAACAAA+AGG 0.464637 8_1:+30463105 Msa1189130:CDS
GTGGTACCTTCGGCTTCAAC+GGG 0.472693 8_1:-30462803 None:intergenic
GGTGGTACCTTCGGCTTCAA+CGG 0.498874 8_1:-30462804 None:intergenic
TGTGGGGATCCACATTTCAA+TGG 0.533396 8_1:+30462910 Msa1189130:CDS
ATCTTGCTATGACACTAGGT+TGG 0.550317 8_1:+30463009 Msa1189130:CDS
GTTATGACAAGAGTAGTTGA+AGG 0.559225 8_1:-30462881 None:intergenic
TTGGATCTTGCTATGACACT+AGG 0.572859 8_1:+30463005 Msa1189130:CDS
TCTTGTCATAACTTCATCTG+TGG 0.576984 8_1:+30462892 Msa1189130:CDS
TGAGCAAAGGAAGAAGATGT+TGG 0.584392 8_1:+30462986 Msa1189130:CDS
TATAACAAAAGGTATACCCA+TGG 0.603873 8_1:+30463116 Msa1189130:CDS
AATCACATGTCCAATATTGG+AGG 0.604304 8_1:+30462749 None:intergenic
CTTGTCATAACTTCATCTGT+GGG 0.610212 8_1:+30462893 Msa1189130:CDS
CAAGATCCTCCATTGAAATG+TGG 0.611943 8_1:-30462919 None:intergenic
CAAAGTTTACCCATGAGCAA+AGG 0.618728 8_1:+30462973 Msa1189130:CDS
GAATGATGAGAATGTTGTTG+AGG 0.621829 8_1:+30463043 Msa1189130:CDS
GGGGATCCACATTTCAATGG+AGG 0.659887 8_1:+30462913 Msa1189130:CDS
TTGTCATAACTTCATCTGTG+GGG 0.706690 8_1:+30462894 Msa1189130:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AGCACAATTAAAAAAAATGG+TGG - chr8_1:30462825-30462844 None:intergenic 25.0%
! AGCAGCACAATTAAAAAAAA+TGG - chr8_1:30462828-30462847 None:intergenic 25.0%
AAAAAAAATGGTGGTACCTT+CGG - chr8_1:30462816-30462835 None:intergenic 30.0%
AGGTTTGGATGTATAACAAA+AGG + chr8_1:30463105-30463124 Msa1189130:CDS 30.0%
! TATAACAAAAGGTATACCCA+TGG + chr8_1:30463116-30463135 Msa1189130:CDS 30.0%
GTTATGACAAGAGTAGTTGA+AGG - chr8_1:30462884-30462903 None:intergenic 35.0%
TCTTGTCATAACTTCATCTG+TGG + chr8_1:30462892-30462911 Msa1189130:CDS 35.0%
CTTGTCATAACTTCATCTGT+GGG + chr8_1:30462893-30462912 Msa1189130:CDS 35.0%
TTGTCATAACTTCATCTGTG+GGG + chr8_1:30462894-30462913 Msa1189130:CDS 35.0%
GAATGATGAGAATGTTGTTG+AGG + chr8_1:30463043-30463062 Msa1189130:CDS 35.0%
!! GGAGTTTTATAACGAGATAG+CGG + chr8_1:30463064-30463083 Msa1189130:CDS 35.0%
AAGAGAGTAGCCTCCAATAT+TGG - chr8_1:30462762-30462781 None:intergenic 40.0%
CAAGATCCTCCATTGAAATG+TGG - chr8_1:30462922-30462941 None:intergenic 40.0%
CAAAGTTTACCCATGAGCAA+AGG + chr8_1:30462973-30462992 Msa1189130:CDS 40.0%
CATCTTCTTCCTTTGCTCAT+GGG - chr8_1:30462985-30463004 None:intergenic 40.0%
ACATCTTCTTCCTTTGCTCA+TGG - chr8_1:30462986-30463005 None:intergenic 40.0%
TGAGCAAAGGAAGAAGATGT+TGG + chr8_1:30462986-30463005 Msa1189130:CDS 40.0%
! TTGGATCTTGCTATGACACT+AGG + chr8_1:30463005-30463024 Msa1189130:CDS 40.0%
! ATCTTGCTATGACACTAGGT+TGG + chr8_1:30463009-30463028 Msa1189130:CDS 40.0%
!!! AGCGTCGTGTTTTTAAGGTT+TGG + chr8_1:30463090-30463109 Msa1189130:CDS 40.0%
ATTGGAGGCTACTCTCTTGA+TGG + chr8_1:30462764-30462783 Msa1189130:CDS 45.0%
! TTTTTACCCGTTGAAGCCGA+AGG + chr8_1:30462797-30462816 Msa1189130:CDS 45.0%
TGTGGGGATCCACATTTCAA+TGG + chr8_1:30462910-30462929 Msa1189130:CDS 45.0%
!!! GGTGAAGCGTCGTGTTTTTA+AGG + chr8_1:30463085-30463104 Msa1189130:CDS 45.0%
GGGGATCCACATTTCAATGG+AGG + chr8_1:30462913-30462932 Msa1189130:CDS 50.0%
GTGGTACCTTCGGCTTCAAC+GGG - chr8_1:30462806-30462825 None:intergenic 55.0%
GGTGGTACCTTCGGCTTCAA+CGG - chr8_1:30462807-30462826 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
chr8_1 gene 30462755 30463148 30462755 ID=Msa1189130;Name=Msa1189130
chr8_1 mRNA 30462755 30463148 30462755 ID=Msa1189130-mRNA-1;Parent=Msa1189130;Name=Msa1189130-mRNA-1;_AED=0.05;_eAED=0.05;_QI=0|0|0|1|0|0|2|0|125
chr8_1 exon 30462755 30462955 30462755 ID=Msa1189130-mRNA-1:exon:10598;Parent=Msa1189130-mRNA-1
chr8_1 exon 30462972 30463148 30462972 ID=Msa1189130-mRNA-1:exon:10599;Parent=Msa1189130-mRNA-1
chr8_1 CDS 30462755 30462955 30462755 ID=Msa1189130-mRNA-1:cds;Parent=Msa1189130-mRNA-1
chr8_1 CDS 30462972 30463148 30462972 ID=Msa1189130-mRNA-1:cds;Parent=Msa1189130-mRNA-1
Gene Sequence

>Msa1189130

ATGTCCAATATTGGAGGCTACTCTCTTGATGGTTGTCGTGAGTTTTTACCCGTTGAAGCCGAAGGTACCACCATTTTTTTTAATTGTGCTGCTTGTGAATGTCACAGAAACTTGCATTGTATTGTACCTTCAACTACTCTTGTCATAACTTCATCTGTGGGGATCCACATTTCAATGGAGGATCTTGAAGAAAATGTTCATACAAAGTTTACCCATGAGCAAAGGAAGAAGATGTTGGATCTTGCTATGACACTAGGTTGGAAGATTAAAAAGAATGATGAGAATGTTGTTGAGGAGTTTTATAACGAGATAGCGGTGAAGCGTCGTGTTTTTAAGGTTTGGATGTATAACAAAAGGTATACCCATGGAAAAAAGTAG
Protein sequence

>Msa1189130

MSNIGGYSLDGCREFLPVEAEGTTIFFNCAACECHRNLHCIVPSTTLVITSSVGIHISMEDLEENVHTKFTHEQRKKMLDLAMTLGWKIKKNDENVVEEFYNEIAVKRRVFKVWMYNKRYTHGKK*