AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene51429

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene51429.t1 MTR_2g035320 96.815 157 5 0 1 157 1 157 9.74e-108 304
MS.gene51429.t1 MTR_2g035190 94.268 157 9 0 1 157 1 157 8.40e-105 296
MS.gene51429.t1 MTR_2g035210 89.809 157 16 0 1 157 1 157 1.27e-100 286
MS.gene51429.t1 MTR_2g035220 86.624 157 21 0 1 157 1 157 1.93e-96 275
MS.gene51429.t1 MTR_6g033450 64.968 157 55 0 1 157 1 157 4.02e-70 209
MS.gene51429.t1 MTR_4g120970 64.968 157 55 0 1 157 1 157 4.02e-70 209
MS.gene51429.t1 MTR_2g035100 63.694 157 57 0 1 157 1 157 8.32e-68 203
MS.gene51429.t1 MTR_2g035105 63.057 157 58 0 1 157 1 157 8.48e-67 200
MS.gene51429.t1 MTR_2g035130 61.783 157 60 0 1 157 1 157 7.74e-66 198
MS.gene51429.t1 MTR_2g035150 61.783 157 60 0 1 157 1 157 2.67e-65 196
MS.gene51429.t1 MTR_2g035320 93.000 100 7 0 58 157 23 122 1.29e-62 188
MS.gene51429.t1 MTR_2g035120 56.051 157 69 0 1 157 1 157 1.60e-59 182
MS.gene51429.t1 MTR_2g035170 45.860 157 85 0 1 157 1 157 6.98e-47 150
MS.gene51429.t1 MTR_4g120950 42.236 161 86 5 1 157 1 158 5.51e-32 112
MS.gene51429.t1 MTR_2g435310 32.051 156 105 1 1 155 1 156 6.73e-30 107
MS.gene51429.t1 MTR_4g120760 33.121 157 104 1 1 156 1 157 5.21e-29 104
MS.gene51429.t1 MTR_4g120760 33.121 157 104 1 1 156 1 157 5.21e-29 104
MS.gene51429.t1 MTR_4g120940 61.644 73 28 0 85 157 47 119 5.62e-24 90.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 42 sgRNAs with CRISPR-Local

Find 61 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACAATGGATAACTTCTTAA+TGG 0.186795 2.2:+53650050 None:intergenic
CTTCAACAATTTCAACAGTT+TGG 0.243960 2.2:+53650091 None:intergenic
GGATAACTTCTTAATGGTTC+CGG 0.295277 2.2:+53650056 None:intergenic
TTCAACAATTTCAACAGTTT+GGG 0.345097 2.2:+53650092 None:intergenic
TACAGCTTAGTAGGAGGAAC+AGG 0.356588 2.2:-53649501 MS.gene51429:CDS
GTTGAAATTGTTGAAGGAAA+TGG 0.360922 2.2:-53650084 MS.gene51429:CDS
GAAACTAAGGCCAGAGGAAC+TGG 0.366866 2.2:-53649345 MS.gene51429:CDS
TGGGCAGCAGAAATCACCTT+TGG 0.390043 2.2:+53650111 None:intergenic
GATAACTTCTTAATGGTTCC+GGG 0.390267 2.2:+53650057 None:intergenic
AGAGCTTTGTAGAGTTTAGC+TGG 0.394931 2.2:+53650159 None:intergenic
TGCAGTAGATGAGGCAAACT+TGG 0.396721 2.2:-53649532 MS.gene51429:CDS
CTTGATAAGTCCAGTTCCTC+TGG 0.419380 2.2:+53649335 None:intergenic
GGATACAACTACAGCTTAGT+AGG 0.431725 2.2:-53649510 MS.gene51429:CDS
AGATAGAGCTGCATCACCTT+TGG 0.442558 2.2:+53649383 None:intergenic
CTCTTAATTACCTTCAACAA+TGG 0.448029 2.2:+53650035 None:intergenic
GGGCAGCAGAAATCACCTTT+GGG 0.452332 2.2:+53650112 None:intergenic
AAGAAGTTATCCATTGTTGA+AGG 0.479062 2.2:-53650045 MS.gene51429:intron
AAAATTGTGGCTGGCTCTGA+TGG 0.498760 2.2:-53649441 MS.gene51429:CDS
CAAACTGTTGAAATTGTTGA+AGG 0.498891 2.2:-53650090 MS.gene51429:CDS
TAATTTGTGTAGCACAAAGT+TGG 0.501990 2.2:+53649557 None:intergenic
CAGAGGAACTGGACTTATCA+AGG 0.507213 2.2:-53649334 MS.gene51429:CDS
GGACTTATCAAGGCCATTGA+GGG 0.514208 2.2:-53649324 MS.gene51429:CDS
TTTCACTGTAATCTTAGCAA+TGG 0.523574 2.2:+53649413 None:intergenic
CTCTGGCCTTAGTTTCATCA+CGG 0.532674 2.2:+53649352 None:intergenic
TGCAGTCCGTGATGAAACTA+AGG 0.533307 2.2:-53649358 MS.gene51429:CDS
TGCCACGACGTAGCCCTCAA+TGG 0.549026 2.2:+53649311 None:intergenic
TGGACTTATCAAGGCCATTG+AGG 0.572485 2.2:-53649325 MS.gene51429:CDS
CAAATTAGATGCAGTAGATG+AGG 0.587202 2.2:-53649541 MS.gene51429:CDS
ATTGTGGCTGGCTCTGATGG+TGG 0.588345 2.2:-53649438 MS.gene51429:CDS
GCAGTAGATGAGGCAAACTT+GGG 0.598362 2.2:-53649531 MS.gene51429:CDS
GTTGAAGGAAATGGAGGACC+CGG 0.599694 2.2:-53650075 MS.gene51429:CDS
GTAGAGTTTAGCTGGAGCCA+CGG 0.602676 2.2:+53650167 None:intergenic
TGCTGATGAAATCGTCCCAA+AGG 0.606260 2.2:-53650127 MS.gene51429:CDS
CTTAGTAGGAGGAACAGGGT+TGG 0.609437 2.2:-53649496 MS.gene51429:CDS
GAAATTGTTGAAGGAAATGG+AGG 0.626795 2.2:-53650081 MS.gene51429:CDS
TACAACTACAGCTTAGTAGG+AGG 0.637578 2.2:-53649507 MS.gene51429:CDS
GGCCATTGAGGGCTACGTCG+TGG 0.646344 2.2:-53649313 MS.gene51429:CDS
GAGCTGCATCACCTTTGGTG+TGG 0.654393 2.2:+53649388 None:intergenic
ACAGTGAAATACCACACCAA+AGG 0.661287 2.2:-53649399 MS.gene51429:CDS
CGTGATGAAACTAAGGCCAG+AGG 0.688505 2.2:-53649351 MS.gene51429:CDS
TGATGAACATGTCTCAACCG+TGG 0.717160 2.2:-53650184 MS.gene51429:CDS
ACAGCTTAGTAGGAGGAACA+GGG 0.723853 2.2:-53649500 MS.gene51429:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTATATAAATAATTATAA+TGG - chr2.2:53649900-53649919 MS.gene51429:intron 0.0%
!! AAATAAGTTAAATTCATTAT+GGG - chr2.2:53649693-53649712 MS.gene51429:intron 10.0%
!!! TTTGTCAATTTTTAAATAAA+AGG + chr2.2:53649614-53649633 None:intergenic 10.0%
!! AATAAGTTAAATTCATTATG+GGG - chr2.2:53649694-53649713 MS.gene51429:intron 15.0%
!! CAAATAAGTTAAATTCATTA+TGG - chr2.2:53649692-53649711 MS.gene51429:intron 15.0%
!!! GACTTTAAAAAAAATGATTC+AGG - chr2.2:53649796-53649815 MS.gene51429:intron 20.0%
! AACAATGGATAACTTCTTAA+TGG + chr2.2:53649453-53649472 None:intergenic 25.0%
! ATTACATCATTCATTTCTCA+TGG + chr2.2:53649739-53649758 None:intergenic 25.0%
! TGAATTCGAAACAAAAATTG+TGG - chr2.2:53650046-53650065 MS.gene51429:CDS 25.0%
! TTCAACAATTTCAACAGTTT+GGG + chr2.2:53649411-53649430 None:intergenic 25.0%
AAGAAGTTATCCATTGTTGA+AGG - chr2.2:53649455-53649474 MS.gene51429:CDS 30.0%
ATAATTATTAGACATACCCC+TGG + chr2.2:53649713-53649732 None:intergenic 30.0%
CAAACTGTTGAAATTGTTGA+AGG - chr2.2:53649410-53649429 MS.gene51429:CDS 30.0%
CTCTTAATTACCTTCAACAA+TGG + chr2.2:53649468-53649487 None:intergenic 30.0%
CTTCAACAATTTCAACAGTT+TGG + chr2.2:53649412-53649431 None:intergenic 30.0%
GTTGAAATTGTTGAAGGAAA+TGG - chr2.2:53649416-53649435 MS.gene51429:CDS 30.0%
TATAATGGTTGTATTGCAGA+TGG - chr2.2:53649915-53649934 MS.gene51429:intron 30.0%
TGGGGTATGTCTAATAATTA+TGG - chr2.2:53649712-53649731 MS.gene51429:intron 30.0%
TTCAGGTGATTAATGATACT+CGG - chr2.2:53649813-53649832 MS.gene51429:intron 30.0%
TTTCACTGTAATCTTAGCAA+TGG + chr2.2:53650090-53650109 None:intergenic 30.0%
! AGGGGTATGTCTAATAATTA+TGG - chr2.2:53649774-53649793 MS.gene51429:intron 30.0%
! TAATTTGTGTAGCACAAAGT+TGG + chr2.2:53649946-53649965 None:intergenic 30.0%
CAAATTAGATGCAGTAGATG+AGG - chr2.2:53649959-53649978 MS.gene51429:intron 35.0%
GAAATTGTTGAAGGAAATGG+AGG - chr2.2:53649419-53649438 MS.gene51429:CDS 35.0%
GATAACTTCTTAATGGTTCC+GGG + chr2.2:53649446-53649465 None:intergenic 35.0%
GGATAACTTCTTAATGGTTC+CGG + chr2.2:53649447-53649466 None:intergenic 35.0%
TAATACATAAGCTCGTTCCA+GGG - chr2.2:53649755-53649774 MS.gene51429:intron 35.0%
TTCGAAACAAAAATTGTGGC+TGG - chr2.2:53650050-53650069 MS.gene51429:CDS 35.0%
! TACACAATTCTTTGTTGTGC+TGG + chr2.2:53649587-53649606 None:intergenic 35.0%
AATACATAAGCTCGTTCCAG+GGG - chr2.2:53649756-53649775 MS.gene51429:intron 40.0%
ACAGTGAAATACCACACCAA+AGG - chr2.2:53650101-53650120 MS.gene51429:CDS 40.0%
GGATACAACTACAGCTTAGT+AGG - chr2.2:53649990-53650009 MS.gene51429:intron 40.0%
GTAATACATAAGCTCGTTCC+AGG - chr2.2:53649754-53649773 MS.gene51429:intron 40.0%
TACAACTACAGCTTAGTAGG+AGG - chr2.2:53649993-53650012 MS.gene51429:intron 40.0%
! AGAGCTTTGTAGAGTTTAGC+TGG + chr2.2:53649344-53649363 None:intergenic 40.0%
ACAGCTTAGTAGGAGGAACA+GGG - chr2.2:53650000-53650019 MS.gene51429:intron 45.0%
AGATAGAGCTGCATCACCTT+TGG + chr2.2:53650120-53650139 None:intergenic 45.0%
CAGAGGAACTGGACTTATCA+AGG - chr2.2:53650166-53650185 MS.gene51429:CDS 45.0%
CTTGATAAGTCCAGTTCCTC+TGG + chr2.2:53650168-53650187 None:intergenic 45.0%
GCAGTAGATGAGGCAAACTT+GGG - chr2.2:53649969-53649988 MS.gene51429:intron 45.0%
GGACTTATCAAGGCCATTGA+GGG - chr2.2:53650176-53650195 MS.gene51429:CDS 45.0%
GGCGAACTTTGATCAGTTGT+CGG + chr2.2:53649566-53649585 None:intergenic 45.0%
TACAGCTTAGTAGGAGGAAC+AGG - chr2.2:53649999-53650018 MS.gene51429:intron 45.0%
TGATGAACATGTCTCAACCG+TGG - chr2.2:53649316-53649335 MS.gene51429:CDS 45.0%
TGCAGTAGATGAGGCAAACT+TGG - chr2.2:53649968-53649987 MS.gene51429:intron 45.0%
TGCAGTCCGTGATGAAACTA+AGG - chr2.2:53650142-53650161 MS.gene51429:CDS 45.0%
TGCTGATGAAATCGTCCCAA+AGG - chr2.2:53649373-53649392 MS.gene51429:CDS 45.0%
TGGACTTATCAAGGCCATTG+AGG - chr2.2:53650175-53650194 MS.gene51429:CDS 45.0%
!! AAAATTGTGGCTGGCTCTGA+TGG - chr2.2:53650059-53650078 MS.gene51429:CDS 45.0%
!! CTCTGGCCTTAGTTTCATCA+CGG + chr2.2:53650151-53650170 None:intergenic 45.0%
CGTGATGAAACTAAGGCCAG+AGG - chr2.2:53650149-53650168 MS.gene51429:CDS 50.0%
CTTAGTAGGAGGAACAGGGT+TGG - chr2.2:53650004-53650023 MS.gene51429:intron 50.0%
GAAACTAAGGCCAGAGGAAC+TGG - chr2.2:53650155-53650174 MS.gene51429:CDS 50.0%
GGGCAGCAGAAATCACCTTT+GGG + chr2.2:53649391-53649410 None:intergenic 50.0%
GTAGAGTTTAGCTGGAGCCA+CGG + chr2.2:53649336-53649355 None:intergenic 50.0%
GTTGAAGGAAATGGAGGACC+CGG - chr2.2:53649425-53649444 MS.gene51429:CDS 50.0%
TGGGCAGCAGAAATCACCTT+TGG + chr2.2:53649392-53649411 None:intergenic 50.0%
GAGCTGCATCACCTTTGGTG+TGG + chr2.2:53650115-53650134 None:intergenic 55.0%
!! ATTGTGGCTGGCTCTGATGG+TGG - chr2.2:53650062-53650081 MS.gene51429:CDS 55.0%
TGCCACGACGTAGCCCTCAA+TGG + chr2.2:53650192-53650211 None:intergenic 60.0%
GGCCATTGAGGGCTACGTCG+TGG - chr2.2:53650187-53650206 MS.gene51429:CDS 65.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 53649296 53650226 53649296 ID=MS.gene51429
chr2.2 mRNA 53649296 53650226 53649296 ID=MS.gene51429.t1;Parent=MS.gene51429
chr2.2 exon 53650046 53650226 53650046 ID=MS.gene51429.t1.exon1;Parent=MS.gene51429.t1
chr2.2 CDS 53650046 53650226 53650046 ID=cds.MS.gene51429.t1;Parent=MS.gene51429.t1
chr2.2 exon 53649296 53649588 53649296 ID=MS.gene51429.t1.exon2;Parent=MS.gene51429.t1
chr2.2 CDS 53649296 53649588 53649296 ID=cds.MS.gene51429.t1;Parent=MS.gene51429.t1
Gene Sequence

>MS.gene51429

ATGGGTGTTTTTACTTTCAATGATGAACATGTCTCAACCGTGGCTCCAGCTAAACTCTACAAAGCTCTTGCAAAAGATGCTGATGAAATCGTCCCAAAGGTGATTTCTGCTGCCCAAACTGTTGAAATTGTTGAAGGAAATGGAGGACCCGGAACCATTAAGAAGTTATCCATTGTTGAAGGTAATTAAGAGCATATACTATGTACAAATATATAATACTTGAGATCAAATGATACATATATAGTGTTCGTGTAAAATTGTTTTACACCGACAACTGATCAAAGTTCGCCAGCACAACAAAGAATTGTGTAACTACCTTTTATTTAAAAATTGACAAACATGATGTGACAAATTAAAGAGTTGTGATTGATTAAATAATTTTGATTAAATGATTCACAAATAAGTTAAATTCATTATGGGGTATGTCTAATAATTATGGACCATGAGAAATGAATGATGTAATACATAAGCTCGTTCCAGGGGTATGTCTAATAATTATGGACTTTAAAAAAAATGATTCAGGTGATTAATGATACTCGGTAAAGTTCAAATCGATCTTTAAACGAAAGAGTTTTTAGTCAAACTTTACTCATATTGAAAAAATAATTATATAAATAATTATAATGGTTGTATTGCAGATGGCAAAACCAACTTTGTGCTACACAAATTAGATGCAGTAGATGAGGCAAACTTGGGATACAACTACAGCTTAGTAGGAGGAACAGGGTTGGATGAAAGTTTAGAGAAAGTTGAATTCGAAACAAAAATTGTGGCTGGCTCTGATGGTGGATCCATTGCTAAGATTACAGTGAAATACCACACCAAAGGTGATGCAGCTCTATCTGATGCAGTCCGTGATGAAACTAAGGCCAGAGGAACTGGACTTATCAAGGCCATTGAGGGCTACGTCGTGGCAAACCCTAATTACTAA
Protein sequence

>MS.gene51429.t1

MGVFTFNDEHVSTVAPAKLYKALAKDADEIVPKVISAAQTVEIVEGNGGPGTIKKLSIVEDGKTNFVLHKLDAVDEANLGYNYSLVGGTGLDESLEKVEFETKIVAGSDGGSIAKITVKYHTKGDAALSDAVRDETKARGTGLIKAIEGYVVANPNY