AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580027431.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580027431.01.T02 MTR_5g057670 97.458 118 3 0 1 118 74 191 5.26e-83 241
MsG0580027431.01.T02 MTR_5g057335 97.458 118 3 0 1 118 74 191 5.26e-83 241
MsG0580027431.01.T02 MTR_4g089100 52.083 96 46 0 1 96 69 164 1.83e-33 115
MsG0580027431.01.T02 MTR_1g109660 40.517 116 66 1 2 117 72 184 1.05e-26 98.2
MsG0580027431.01.T02 MTR_2g079830 44.444 99 55 0 1 99 70 168 1.14e-23 90.1
MsG0580027431.01.T02 MTR_1g109700 33.913 115 76 0 3 117 71 185 5.57e-21 83.6
MsG0580027431.01.T01 MTR_5g057670 92.857 168 7 1 15 177 24 191 1.06e-112 318
MsG0580027431.01.T01 MTR_5g057335 92.857 168 7 1 15 177 24 191 1.06e-112 318
MsG0580027431.01.T01 MTR_4g089100 44.805 154 82 1 7 157 13 166 4.10e-44 144
MsG0580027431.01.T01 MTR_2g079830 45.714 140 76 0 19 158 29 168 4.01e-37 127
MsG0580027431.01.T01 MTR_1g109660 41.497 147 83 1 30 176 41 184 9.21e-37 126
MsG0580027431.01.T01 MTR_1g109700 36.000 150 96 0 27 176 36 185 3.11e-30 109
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580027431.01.T02 AT1G13380 72.414 116 29 1 3 118 76 188 2.37e-59 181
MsG0580027431.01.T02 AT4G27435 45.098 102 56 0 1 102 70 171 4.20e-30 106
MsG0580027431.01.T02 AT1G61065 44.144 111 61 1 1 110 69 179 1.26e-28 102
MsG0580027431.01.T02 AT1G68220 42.609 115 64 2 2 115 72 185 2.38e-27 100
MsG0580027431.01.T02 AT3G15480 44.330 97 53 1 1 96 70 166 4.65e-26 96.3
MsG0580027431.01.T02 AT1G52910 45.361 97 52 1 1 96 70 166 4.91e-25 93.6
MsG0580027431.01.T01 AT1G13380 69.643 168 43 2 15 177 24 188 6.55e-71 213
MsG0580027431.01.T01 AT4G27435 45.033 151 78 1 16 161 21 171 1.17e-43 143
MsG0580027431.01.T01 AT1G61065 46.099 141 75 1 30 169 39 179 2.42e-41 137
MsG0580027431.01.T01 AT3G15480 43.478 138 77 1 19 155 29 166 1.67e-39 132
MsG0580027431.01.T01 AT1G52910 44.615 130 70 2 28 155 37 166 8.07e-35 120
MsG0580027431.01.T01 AT1G68220 40.411 146 85 2 30 174 41 185 1.25e-33 118
MsG0580027431.01.T01 AT5G17210 30.370 135 91 2 20 153 33 165 3.68e-11 59.7

Find 23 sgRNAs with CRISPR-Local

Find 91 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTTTCCTATTTCTTCTTTC+AGG 0.118110 5:+60548128 MsG0580027431.01.T01:CDS
TTCAGGTGAATCACTGCTTA+TGG 0.206084 5:+60548145 MsG0580027431.01.T01:CDS
TCAGATGTTGCAACTGGTTA+TGG 0.298329 5:+60548098 MsG0580027431.01.T01:CDS
TTTGGGAGGCCTTTAACCCC+TGG 0.341537 5:+60548188 MsG0580027431.01.T01:CDS
TCAGGTGAATCACTGCTTAT+GGG 0.342216 5:+60548146 MsG0580027431.01.T01:CDS
ATTCACCTGAAAGAAGAAAT+AGG 0.343625 5:-60548133 None:intergenic
AGAAGAAAGAAAATATATAA+TGG 0.392892 5:-60548228 None:intergenic
TTGGGAGGCCTTTAACCCCT+GGG 0.398501 5:+60548189 MsG0580027431.01.T01:CDS
GTGACAAAGTGCATGTGCTT+TGG 0.415268 5:+60548170 MsG0580027431.01.T01:CDS
CAATATGTTTCATTTGTTCC+AGG 0.417026 5:-60548065 None:intergenic
TACAGTTCAGATGTTGCAAC+TGG 0.428312 5:+60548092 MsG0580027431.01.T01:CDS
TCTCTTCGCTATTGCTTCAC+AGG 0.429061 5:+60548025 MsG0580027431.01.T01:CDS
TGACAAAGTGCATGTGCTTT+GGG 0.430960 5:+60548171 MsG0580027431.01.T01:CDS
TGTTCCAGGAGTTGTGTGAA+TGG 0.489039 5:-60548051 None:intergenic
GGAACCATTCACACAACTCC+TGG 0.515542 5:+60548047 MsG0580027431.01.T01:CDS
CTCTTCGCTATTGCTTCACA+GGG 0.556348 5:+60548026 MsG0580027431.01.T01:CDS
TGGGAGGCCTTTAACCCCTG+GGG 0.589713 5:+60548190 MsG0580027431.01.T01:CDS
GTTGCAACTGGTTATGGAGT+GGG 0.613168 5:+60548104 MsG0580027431.01.T01:CDS
GGGAGGCCTTTAACCCCTGG+GGG 0.642259 5:+60548191 MsG0580027431.01.T01:CDS
TGTGAAGCAATAGCGAAGAG+AGG 0.658541 5:-60548023 None:intergenic
GAAGCAATAGCGAAGAGAGG+AGG 0.663218 5:-60548020 None:intergenic
TGTTGCAACTGGTTATGGAG+TGG 0.682410 5:+60548103 MsG0580027431.01.T01:CDS
CAAAGTGCATGTGCTTTGGG+AGG 0.685983 5:+60548174 MsG0580027431.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGAAGAAAGAAAATATATAA+TGG - Chr5:60548231-60548250 None:intergenic 15.0%
!!! ATTATTGGAAATTTCATTTT+TGG + Chr5:60548378-60548397 MsG0580027431.01.T01:intron 15.0%
!!! CTTCATATTTTACATTAATT+TGG + Chr5:60547997-60548016 MsG0580027431.01.T01:CDS 15.0%
!!! TTATATATTTTCTTTCTTCT+TGG + Chr5:60548231-60548250 MsG0580027431.01.T01:CDS 15.0%
!! ACTAACAAAGAACATATTTA+TGG + Chr5:60548591-60548610 MsG0580027431.01.T01:intron 20.0%
!!! TCATCTTTTCTTGATTTATT+TGG + Chr5:60548403-60548422 MsG0580027431.01.T01:intron 20.0%
!!! TTTCCAATAATTTTTTTCAC+TGG - Chr5:60548369-60548388 None:intergenic 20.0%
! AAAACAAAAAACACATACAG+TGG - Chr5:60548779-60548798 None:intergenic 25.0%
! ATGAAACAATGATTCCTATT+TGG - Chr5:60548755-60548774 None:intergenic 25.0%
! CAAATTTATTGTGATCTATG+AGG + Chr5:60548848-60548867 MsG0580027431.01.T01:intron 25.0%
! TCTTGATTTATTTGGTTGAT+TGG + Chr5:60548411-60548430 MsG0580027431.01.T01:intron 25.0%
! TGTCCAGTGAAAAAAATTAT+TGG + Chr5:60548363-60548382 MsG0580027431.01.T01:intron 25.0%
! TTTGGTTAGAATAACCAAAT+AGG + Chr5:60548738-60548757 MsG0580027431.01.T01:intron 25.0%
!!! TTTTTGTTTTGCTACATTGA+AGG - Chr5:60548465-60548484 None:intergenic 25.0%
!!! TTTTTTTTTCCTTTTTCCCA+GGG + Chr5:60548918-60548937 MsG0580027431.01.T01:intron 25.0%
!!! TTTTTTTTTTCCTTTTTCCC+AGG + Chr5:60548917-60548936 MsG0580027431.01.T01:intron 25.0%
AAATGAGTAAGACACACTTT+GGG - Chr5:60548493-60548512 None:intergenic 30.0%
ATAAATAATTCCCCGGTATT+TGG - Chr5:60549004-60549023 None:intergenic 30.0%
ATGTTCTTTGTTAGTCAACT+TGG - Chr5:60548586-60548605 None:intergenic 30.0%
ATTCACCTGAAAGAAGAAAT+AGG - Chr5:60548136-60548155 None:intergenic 30.0%
ATTTATCCGTTAATTGTGTG+AGG - Chr5:60548662-60548681 None:intergenic 30.0%
CAATATGTTTCATTTGTTCC+AGG - Chr5:60548068-60548087 None:intergenic 30.0%
! AATTTTCATCGTTGTAACGA+TGG + Chr5:60549077-60549096 MsG0580027431.01.T01:CDS 30.0%
! TCTTCACTAGTGAATCATTT+TGG + Chr5:60548881-60548900 MsG0580027431.01.T01:intron 30.0%
!!! ACTCATTTTGGCTATAGATT+TGG + Chr5:60548720-60548739 MsG0580027431.01.T01:intron 30.0%
AAGTGTGTCTTACTCATTTC+AGG + Chr5:60548494-60548513 MsG0580027431.01.T01:intron 35.0%
ACAATGCCTCACACAATTAA+CGG + Chr5:60548653-60548672 MsG0580027431.01.T01:intron 35.0%
AGTGTGTCTTACTCATTTCA+GGG + Chr5:60548495-60548514 MsG0580027431.01.T01:intron 35.0%
CTATAGCCAAAATGAGTGAA+GGG - Chr5:60548717-60548736 None:intergenic 35.0%
GAAATGAGTAAGACACACTT+TGG - Chr5:60548494-60548513 None:intergenic 35.0%
TACAACGATGAAAATTGCTC+CGG - Chr5:60549073-60549092 None:intergenic 35.0%
TACTCATTTCAGGGTTCAAA+CGG + Chr5:60548504-60548523 MsG0580027431.01.T01:intron 35.0%
TCTATAGCCAAAATGAGTGA+AGG - Chr5:60548718-60548737 None:intergenic 35.0%
TCTGAGCATAAATAATTCCC+CGG - Chr5:60549011-60549030 None:intergenic 35.0%
TTTATTCACACGAAGCTTCT+TGG + Chr5:60548797-60548816 MsG0580027431.01.T01:intron 35.0%
! GCTTTCCTATTTCTTCTTTC+AGG + Chr5:60548128-60548147 MsG0580027431.01.T01:CDS 35.0%
!! GGTTGATTGGTTTAAGTATG+TGG + Chr5:60548424-60548443 MsG0580027431.01.T01:intron 35.0%
ACTTCTCCTGTGAAAGTTTG+AGG + Chr5:60549031-60549050 MsG0580027431.01.T01:CDS 40.0%
ACTTTCTCAGAAGACCAATC+GGG + Chr5:60549149-60549168 MsG0580027431.01.T01:CDS 40.0%
AGAGCCAAACTAACGAACAA+AGG + Chr5:60548547-60548566 MsG0580027431.01.T01:intron 40.0%
ATGCCTATCACACCAAATAC+CGG + Chr5:60548989-60549008 MsG0580027431.01.T01:CDS 40.0%
CACTTTCTCAGAAGACCAAT+CGG + Chr5:60549148-60549167 MsG0580027431.01.T01:CDS 40.0%
CTACTACCTGTACTTCACAA+AGG + Chr5:60549113-60549132 MsG0580027431.01.T01:CDS 40.0%
GCAGAATCATGCTTAATAGC+TGG + Chr5:60548955-60548974 MsG0580027431.01.T01:CDS 40.0%
GTGTCCTTTGTTCGTTAGTT+TGG - Chr5:60548554-60548573 None:intergenic 40.0%
TACAGTTCAGATGTTGCAAC+TGG + Chr5:60548092-60548111 MsG0580027431.01.T01:CDS 40.0%
TCAGATGTTGCAACTGGTTA+TGG + Chr5:60548098-60548117 MsG0580027431.01.T01:CDS 40.0%
TCAGGTGAATCACTGCTTAT+GGG + Chr5:60548146-60548165 MsG0580027431.01.T01:CDS 40.0%
TCCTGTGAAAGTTTGAGGAA+AGG + Chr5:60549036-60549055 MsG0580027431.01.T01:CDS 40.0%
TGACAAAGTGCATGTGCTTT+GGG + Chr5:60548171-60548190 MsG0580027431.01.T01:CDS 40.0%
TGATTCTGCAACCAGAAAAG+TGG - Chr5:60548944-60548963 None:intergenic 40.0%
TTCAGGTGAATCACTGCTTA+TGG + Chr5:60548145-60548164 MsG0580027431.01.T01:CDS 40.0%
TTCATCTGAACACGCTGATA+CGG + Chr5:60548289-60548308 MsG0580027431.01.T01:intron 40.0%
! ACACAACCCTTCACTCATTT+TGG + Chr5:60548708-60548727 MsG0580027431.01.T01:intron 40.0%
!! AGGAAAGGCATCTTCATTAC+CGG + Chr5:60549051-60549070 MsG0580027431.01.T01:CDS 40.0%
AATCGTGGAACTAACCCGAT+TGG - Chr5:60549166-60549185 None:intergenic 45.0%
AGTTCCACGATTGGAATGAC+CGG + Chr5:60549174-60549193 MsG0580027431.01.T01:CDS 45.0%
CTCTTCGCTATTGCTTCACA+GGG + Chr5:60548026-60548045 MsG0580027431.01.T01:CDS 45.0%
GCCTTTCCTCAAACTTTCAC+AGG - Chr5:60549040-60549059 None:intergenic 45.0%
GTGACAAAGTGCATGTGCTT+TGG + Chr5:60548170-60548189 MsG0580027431.01.T01:CDS 45.0%
GTTGCAACTGGTTATGGAGT+GGG + Chr5:60548104-60548123 MsG0580027431.01.T01:CDS 45.0%
TCTCTTCGCTATTGCTTCAC+AGG + Chr5:60548025-60548044 MsG0580027431.01.T01:CDS 45.0%
TGCCTATCACACCAAATACC+GGG + Chr5:60548990-60549009 MsG0580027431.01.T01:CDS 45.0%
TGGTTGCCTTTGTGAAGTAC+AGG - Chr5:60549122-60549141 None:intergenic 45.0%
TGTGAAGCAATAGCGAAGAG+AGG - Chr5:60548026-60548045 None:intergenic 45.0%
TGTTCCAGGAGTTGTGTGAA+TGG - Chr5:60548054-60548073 None:intergenic 45.0%
TGTTGCAACTGGTTATGGAG+TGG + Chr5:60548103-60548122 MsG0580027431.01.T01:CDS 45.0%
! CTTCTGAGAAAGTGGAGTAG+TGG - Chr5:60549142-60549161 None:intergenic 45.0%
!! AATCGGGTTAGTTCCACGAT+TGG + Chr5:60549165-60549184 MsG0580027431.01.T01:CDS 45.0%
!! CGATTGGTCTTCTGAGAAAG+TGG - Chr5:60549150-60549169 None:intergenic 45.0%
!! CGTTAGTTTGGCTCTCGAAT+GGG - Chr5:60548542-60548561 None:intergenic 45.0%
!! TCGTTAGTTTGGCTCTCGAA+TGG - Chr5:60548543-60548562 None:intergenic 45.0%
ATGTCCGGTCATTCCAATCG+TGG - Chr5:60549181-60549200 None:intergenic 50.0%
GAAAAGTGGCCCTGGGAAAA+AGG - Chr5:60548930-60548949 None:intergenic 50.0%
GAAGCAATAGCGAAGAGAGG+AGG - Chr5:60548023-60548042 None:intergenic 50.0%
GCCTATCACACCAAATACCG+GGG + Chr5:60548991-60549010 MsG0580027431.01.T01:CDS 50.0%
GGAACCATTCACACAACTCC+TGG + Chr5:60548047-60548066 MsG0580027431.01.T01:CDS 50.0%
! CAAAGTGCATGTGCTTTGGG+AGG + Chr5:60548174-60548193 MsG0580027431.01.T01:CDS 50.0%
!! TCCCCGGTATTTGGTGTGAT+AGG - Chr5:60548995-60549014 None:intergenic 50.0%
!!! TTTTCCCAGGGCCACTTTTC+TGG + Chr5:60548930-60548949 MsG0580027431.01.T01:intron 50.0%
ACCAAGCTCGATTTCCCCCA+GGG - Chr5:60548208-60548227 None:intergenic 55.0%
CGATTTCCCCCAGGGGTTAA+AGG - Chr5:60548200-60548219 None:intergenic 55.0%
GCAACCAGAAAAGTGGCCCT+GGG - Chr5:60548937-60548956 None:intergenic 55.0%
TGCAACCAGAAAAGTGGCCC+TGG - Chr5:60548938-60548957 None:intergenic 55.0%
TTGGGAGGCCTTTAACCCCT+GGG + Chr5:60548189-60548208 MsG0580027431.01.T01:CDS 55.0%
TTTGGGAGGCCTTTAACCCC+TGG + Chr5:60548188-60548207 MsG0580027431.01.T01:CDS 55.0%
CCAAGCTCGATTTCCCCCAG+GGG - Chr5:60548207-60548226 None:intergenic 60.0%
GACCAAGCTCGATTTCCCCC+AGG - Chr5:60548209-60548228 None:intergenic 60.0%
TGGGAGGCCTTTAACCCCTG+GGG + Chr5:60548190-60548209 MsG0580027431.01.T01:CDS 60.0%
CCCCTGGGGGAAATCGAGCT+TGG + Chr5:60548204-60548223 MsG0580027431.01.T01:CDS 65.0%
GGGAGGCCTTTAACCCCTGG+GGG + Chr5:60548191-60548210 MsG0580027431.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr5 gene 60547987 60549206 60547987 ID=MsG0580027431.01;Name=MsG0580027431.01
Chr5 mRNA 60547987 60549206 60547987 ID=MsG0580027431.01.T01;Parent=MsG0580027431.01;Name=MsG0580027431.01.T01;_AED=0.50;_eAED=0.54;_QI=0|0|0|1|0|0|2|0|177
Chr5 exon 60547987 60548252 60547987 ID=MsG0580027431.01.T01:exon:22341;Parent=MsG0580027431.01.T01
Chr5 CDS 60547987 60548252 60547987 ID=MsG0580027431.01.T01:cds;Parent=MsG0580027431.01.T01
Chr5 CDS 60548939 60549206 60548939 ID=MsG0580027431.01.T01:cds;Parent=MsG0580027431.01.T01
Chr5 mRNA 60548164 60549206 60548164 ID=MsG0580027431.01.T02;Parent=MsG0580027431.01;Name=MsG0580027431.01.T02;_AED=0.50;_eAED=0.50;_QI=0|0|0|1|0|0|2|0|118
Chr5 exon 60548164 60548252 60548164 ID=MsG0580027431.01.T02:exon:22343;Parent=MsG0580027431.01.T02
Chr5 CDS 60548164 60548252 60548164 ID=MsG0580027431.01.T02:cds;Parent=MsG0580027431.01.T02
Chr5 CDS 60548939 60549206 60548939 ID=MsG0580027431.01.T02:cds;Parent=MsG0580027431.01.T02
Gene Sequence

>MsG0580027431.01.T02

ATGGGTGTGACAAAGTGCATGTGCTTTGGGAGGCCTTTAACCCCTGGGGGAAATCGAGCTTGGTCCATTATATATTTTCTTTCTTCTTGGGCCACTTTTCTGGTTGCAGAATCATGCTTAATAGCTGGTGCAAAAAAGAATGCCTATCACACCAAATACCGGGGAATTATTTATGCTCAGAACTTCTCCTGTGAAAGTTTGAGGAAAGGCATCTTCATTACCGGAGCAATTTTCATCGTTGTAACGATGGTTCTTAACGTATACTACTACCTGTACTTCACAAAGGCAACCACTACTCCACTTTCTCAGAAGACCAATCGGGTTAGTTCCACGATTGGAATGACCGGACATGCATGA

>MsG0580027431.01.T01

ATGAATGTTTCTTCATATTTTACATTAATTTGGCCTCCTCTCTTCGCTATTGCTTCACAGGGAACCATTCACACAACTCCTGGAACAAATGAAACATATTGCGTTTACAGTTCAGATGTTGCAACTGGTTATGGAGTGGGTGCTTTCCTATTTCTTCTTTCAGGTGAATCACTGCTTATGGGTGTGACAAAGTGCATGTGCTTTGGGAGGCCTTTAACCCCTGGGGGAAATCGAGCTTGGTCCATTATATATTTTCTTTCTTCTTGGGCCACTTTTCTGGTTGCAGAATCATGCTTAATAGCTGGTGCAAAAAAGAATGCCTATCACACCAAATACCGGGGAATTATTTATGCTCAGAACTTCTCCTGTGAAAGTTTGAGGAAAGGCATCTTCATTACCGGAGCAATTTTCATCGTTGTAACGATGGTTCTTAACGTATACTACTACCTGTACTTCACAAAGGCAACCACTACTCCACTTTCTCAGAAGACCAATCGGGTTAGTTCCACGATTGGAATGACCGGACATGCATGA

Protein sequence

>MsG0580027431.01.T02

MGVTKCMCFGRPLTPGGNRAWSIIYFLSSWATFLVAESCLIAGAKKNAYHTKYRGIIYAQNFSCESLRKGIFITGAIFIVVTMVLNVYYYLYFTKATTTPLSQKTNRVSSTIGMTGHA*

>MsG0580027431.01.T01

MNVSSYFTLIWPPLFAIASQGTIHTTPGTNETYCVYSSDVATGYGVGAFLFLLSGESLLMGVTKCMCFGRPLTPGGNRAWSIIYFLSSWATFLVAESCLIAGAKKNAYHTKYRGIIYAQNFSCESLRKGIFITGAIFIVVTMVLNVYYYLYFTKATTTPLSQKTNRVSSTIGMTGHA*