AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene071837

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene071837.t1 MTR_2g035100 98.089 157 3 0 1 157 1 157 6.77e-109 306
MS.gene071837.t1 MTR_2g035105 96.815 157 5 0 1 157 1 157 1.99e-107 303
MS.gene071837.t1 MTR_2g035130 85.987 157 22 0 1 157 1 157 3.38e-95 272
MS.gene071837.t1 MTR_2g035150 84.076 157 25 0 1 157 1 157 2.61e-93 267
MS.gene071837.t1 MTR_2g035120 83.439 157 26 0 1 157 1 157 4.09e-93 267
MS.gene071837.t1 MTR_6g033450 70.701 157 46 0 1 157 1 157 5.03e-79 231
MS.gene071837.t1 MTR_4g120970 70.701 157 46 0 1 157 1 157 5.03e-79 231
MS.gene071837.t1 MTR_2g035320 64.968 157 55 0 1 157 1 157 3.15e-69 206
MS.gene071837.t1 MTR_2g035190 61.146 157 61 0 1 157 1 157 6.22e-66 198
MS.gene071837.t1 MTR_2g035210 60.510 157 62 0 1 157 1 157 9.39e-65 195
MS.gene071837.t1 MTR_2g035220 61.146 157 61 0 1 157 1 157 1.28e-63 192
MS.gene071837.t1 MTR_2g035170 59.873 157 63 0 1 157 1 157 1.65e-62 189
MS.gene071837.t1 MTR_2g435310 41.667 156 90 1 1 155 1 156 3.46e-40 133
MS.gene071837.t1 MTR_4g120760 41.026 156 91 1 1 155 1 156 6.65e-38 127
MS.gene071837.t1 MTR_4g120760 41.026 156 91 1 1 155 1 156 7.02e-38 127
MS.gene071837.t1 MTR_2g035320 63.542 96 35 0 62 157 27 122 5.63e-37 123
MS.gene071837.t1 MTR_4g120950 44.099 161 83 5 1 157 1 158 1.12e-32 114
MS.gene071837.t1 MTR_4g120940 62.500 88 30 1 70 157 35 119 2.32e-30 107
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 85 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACGAAAGTAAGTTTCTTGA+TGG 0.287513 2.2:+53809364 None:intergenic
AGCTATATGCTTTAGTAATC+AGG 0.289844 2.2:+53808301 None:intergenic
CCCTTGATTTCCTCTTCACT+TGG 0.329042 2.2:+53808382 None:intergenic
CATCAATAACCTTTGGGATA+AGG 0.337859 2.2:+53809432 None:intergenic
CTTCAACAATTTCAATACTT+TGG 0.342783 2.2:+53809405 None:intergenic
GGATGGCATCAATAACCTTT+GGG 0.355456 2.2:+53809426 None:intergenic
ACTTGGTGCAGCATCACCTT+TGG 0.357443 2.2:+53808399 None:intergenic
GAGATCTTCTCCACTGTGTC+TGG 0.364866 2.2:+53808490 None:intergenic
TGGATGGCATCAATAACCTT+TGG 0.369451 2.2:+53809425 None:intergenic
AAGAAACTTACTTTCGTTGA+AGG 0.370871 2.2:-53809359 MS.gene071837:intron
GGCTCTTGAAGGTTACGTTT+TGG 0.372797 2.2:-53808329 MS.gene071837:CDS
AGTAAGTTTCTTGATGGTTC+CGG 0.383147 2.2:+53809370 None:intergenic
AGAGCTTTGTAAAGTCTAGA+AGG 0.410833 2.2:+53809473 None:intergenic
CAAAGTATTGAAATTGTTGA+AGG 0.421501 2.2:-53809404 MS.gene071837:CDS
GCTTACAACTACAGCATAGT+TGG 0.432371 2.2:-53808526 MS.gene071837:CDS
AACAATTTCAATACTTTGGA+TGG 0.439896 2.2:+53809409 None:intergenic
ATTGAAATTGTTGAAGGAAA+CGG 0.445615 2.2:-53809398 MS.gene071837:CDS
AAATCAAGGGTGGCAAAGCT+AGG 0.448601 2.2:-53808369 MS.gene071837:CDS
TTTGAGTCTAAATTGTCTGC+AGG 0.453113 2.2:-53808466 MS.gene071837:CDS
TTTGCAATGGATCCTCCATC+TGG 0.453770 2.2:+53808442 None:intergenic
TACAGCATAGTTGGTGGTGG+TGG 0.475041 2.2:-53808517 MS.gene071837:CDS
GGTGGCAAAGCTAGGGGTGA+TGG 0.489081 2.2:-53808361 MS.gene071837:CDS
AATCAAGGGTGGCAAAGCTA+GGG 0.491277 2.2:-53808368 MS.gene071837:CDS
ACCAAGTGAAGAGGAAATCA+AGG 0.498836 2.2:-53808383 MS.gene071837:CDS
AAAGTATGATTTGCACAAAG+TGG 0.527363 2.2:-53808572 MS.gene071837:CDS
TTTCACAGTAAGCTTTGCAA+TGG 0.527944 2.2:+53808429 None:intergenic
GTTGAAGGAAACGGTGGCGC+CGG 0.542615 2.2:-53809389 MS.gene071837:CDS
TGCAGACAATTTAGACTCAA+AGG 0.553148 2.2:+53808468 None:intergenic
AAATTGTCTGCAGGGCCAGA+TGG 0.558648 2.2:-53808457 MS.gene071837:CDS
TTCTGATAACCTTATCCCAA+AGG 0.572660 2.2:-53809441 MS.gene071837:CDS
TTGAGTCTAAATTGTCTGCA+GGG 0.579973 2.2:-53808465 MS.gene071837:CDS
TGATGCTGCACCAAGTGAAG+AGG 0.603594 2.2:-53808392 MS.gene071837:CDS
TTGTCTGCAGGGCCAGATGG+AGG 0.618761 2.2:-53808454 MS.gene071837:CDS
TACAACTACAGCATAGTTGG+TGG 0.619903 2.2:-53808523 MS.gene071837:CDS
AACTACAGCATAGTTGGTGG+TGG 0.623337 2.2:-53808520 MS.gene071837:CDS
ATCAAGGGTGGCAAAGCTAG+GGG 0.634094 2.2:-53808367 MS.gene071837:CDS
AGAAGGAGCTACAACAGATG+TGG 0.648525 2.2:+53809490 None:intergenic
ACTGTGAAATACTTCACCAA+AGG 0.653868 2.2:-53808415 MS.gene071837:CDS
CCAAGTGAAGAGGAAATCAA+GGG 0.664848 2.2:-53808382 MS.gene071837:CDS
GAAATTGTTGAAGGAAACGG+TGG 0.666040 2.2:-53809395 MS.gene071837:CDS
AGTGAAGAGGAAATCAAGGG+TGG 0.695634 2.2:-53808379 MS.gene071837:CDS
TGGTGGACTTCCAGACACAG+TGG 0.739823 2.2:-53808500 MS.gene071837:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GTTATGTTTTTTATTTTTTT+TGG + chr2.2:53808997-53809016 None:intergenic 10.0%
!!! TAAACATTTTATTTTACTTA+GGG + chr2.2:53808541-53808560 None:intergenic 10.0%
!!! CTAAACATTTTATTTTACTT+AGG + chr2.2:53808542-53808561 None:intergenic 15.0%
!!! TTTGTAGTTTTTTTTTCTTA+GGG + chr2.2:53808929-53808948 None:intergenic 15.0%
!!! TTTTGTAGTTTTTTTTTCTT+AGG + chr2.2:53808930-53808949 None:intergenic 15.0%
!! AAAATAAAAAACATAACACG+TGG - chr2.2:53809000-53809019 MS.gene071837:intron 20.0%
!! ATATATGTGAAAAATTGAAG+TGG - chr2.2:53808499-53808518 MS.gene071837:CDS 20.0%
!! GAATATTCGATTTAATCTAA+TGG - chr2.2:53808575-53808594 MS.gene071837:CDS 20.0%
!!! AAAGTAAAGAAATGAGTTTT+GGG - chr2.2:53808681-53808700 MS.gene071837:intron 20.0%
!!! CTTGATTTGAGAAAATATTT+TGG - chr2.2:53808853-53808872 MS.gene071837:intron 20.0%
!!! TAAAGTAAAGAAATGAGTTT+TGG - chr2.2:53808680-53808699 MS.gene071837:intron 20.0%
!!! TTTTATTTTTTTTGGCCTTA+GGG + chr2.2:53808989-53809008 None:intergenic 20.0%
!!! TTTTTATTTTTTTTGGCCTT+AGG + chr2.2:53808990-53809009 None:intergenic 20.0%
! AACAATTTCAATACTTTGGA+TGG + chr2.2:53808424-53808443 None:intergenic 25.0%
! ATTGAAATTGTTGAAGGAAA+CGG - chr2.2:53808432-53808451 MS.gene071837:CDS 25.0%
! CTTCAACAATTTCAATACTT+TGG + chr2.2:53808428-53808447 None:intergenic 25.0%
! GCAGTGAAATTTCATAATTA+GGG + chr2.2:53808707-53808726 None:intergenic 25.0%
! TCAAAACTAGAAACTTACTT+TGG - chr2.2:53809059-53809078 MS.gene071837:intron 25.0%
! TTTCACAATTACTAACATGA+TGG + chr2.2:53809208-53809227 None:intergenic 25.0%
!! AATGTTTAAGACACTACTTA+TGG - chr2.2:53808816-53808835 MS.gene071837:intron 25.0%
!!! CAAAGTATTGAAATTGTTGA+AGG - chr2.2:53808426-53808445 MS.gene071837:CDS 25.0%
AACGAAAGTAAGTTTCTTGA+TGG + chr2.2:53808469-53808488 None:intergenic 30.0%
AACGAATCAATTAAATGTGC+AGG - chr2.2:53809226-53809245 MS.gene071837:intron 30.0%
AAGAAACTTACTTTCGTTGA+AGG - chr2.2:53808471-53808490 MS.gene071837:CDS 30.0%
AATGGTCATAGATGATAGAT+GGG - chr2.2:53808593-53808612 MS.gene071837:intron 30.0%
ACTAGAAACTTACTTTGGAT+TGG - chr2.2:53809064-53809083 MS.gene071837:intron 30.0%
CGCAGTGAAATTTCATAATT+AGG + chr2.2:53808708-53808727 None:intergenic 30.0%
GACATTCACTTTGTTCAATT+AGG + chr2.2:53809186-53809205 None:intergenic 30.0%
TAATGGTCATAGATGATAGA+TGG - chr2.2:53808592-53808611 MS.gene071837:intron 30.0%
! AAAGTATGATTTGCACAAAG+TGG - chr2.2:53809258-53809277 MS.gene071837:intron 30.0%
! TCTAAAGTTGCAAAACTTAG+GGG + chr2.2:53808957-53808976 None:intergenic 30.0%
!! ACTCTAAAGTTGCAAAACTT+AGG + chr2.2:53808959-53808978 None:intergenic 30.0%
!! CTCTAAAGTTGCAAAACTTA+GGG + chr2.2:53808958-53808977 None:intergenic 30.0%
!!! GTTTTGCAACTTTAGAGTAT+TGG - chr2.2:53808961-53808980 MS.gene071837:intron 30.0%
ACTGTGAAATACTTCACCAA+AGG - chr2.2:53809415-53809434 MS.gene071837:CDS 35.0%
CTAAAGTTGCAAAACTTAGG+GGG + chr2.2:53808956-53808975 None:intergenic 35.0%
GAATCAATTAAATGTGCAGG+TGG - chr2.2:53809229-53809248 MS.gene071837:intron 35.0%
TGCAGACAATTTAGACTCAA+AGG + chr2.2:53809365-53809384 None:intergenic 35.0%
TTCTGATAACCTTATCCCAA+AGG - chr2.2:53808389-53808408 MS.gene071837:CDS 35.0%
TTGAGTCTAAATTGTCTGCA+GGG - chr2.2:53809365-53809384 MS.gene071837:CDS 35.0%
TTTCACAGTAAGCTTTGCAA+TGG + chr2.2:53809404-53809423 None:intergenic 35.0%
TTTGAGTCTAAATTGTCTGC+AGG - chr2.2:53809364-53809383 MS.gene071837:CDS 35.0%
! AGAGCTTTGTAAAGTCTAGA+AGG + chr2.2:53808360-53808379 None:intergenic 35.0%
! AGTAAGTTTCTTGATGGTTC+CGG + chr2.2:53808463-53808482 None:intergenic 35.0%
!! CATCAATAACCTTTGGGATA+AGG + chr2.2:53808401-53808420 None:intergenic 35.0%
ACCAAGTGAAGAGGAAATCA+AGG - chr2.2:53809447-53809466 MS.gene071837:CDS 40.0%
ATCGCAACTTCGTGAAAGTT+AGG + chr2.2:53808899-53808918 None:intergenic 40.0%
CCAAGTGAAGAGGAAATCAA+GGG - chr2.2:53809448-53809467 MS.gene071837:CDS 40.0%
GAAATTGTTGAAGGAAACGG+TGG - chr2.2:53808435-53808454 MS.gene071837:CDS 40.0%
GCTTACAACTACAGCATAGT+TGG - chr2.2:53809304-53809323 MS.gene071837:intron 40.0%
GGATGGCATCAATAACCTTT+GGG + chr2.2:53808407-53808426 None:intergenic 40.0%
TACAACTACAGCATAGTTGG+TGG - chr2.2:53809307-53809326 MS.gene071837:intron 40.0%
TCGCAACTTCGTGAAAGTTA+GGG + chr2.2:53808898-53808917 None:intergenic 40.0%
TGGATGGCATCAATAACCTT+TGG + chr2.2:53808408-53808427 None:intergenic 40.0%
! CTTTCACGAAGTTGCGATTT+TGG - chr2.2:53808901-53808920 MS.gene071837:intron 40.0%
!! TTTAGAGTATTGGCACCCTA+AGG - chr2.2:53808971-53808990 MS.gene071837:intron 40.0%
AAATCAAGGGTGGCAAAGCT+AGG - chr2.2:53809461-53809480 MS.gene071837:CDS 45.0%
AAGTTGCAAAACTTAGGGGG+CGG + chr2.2:53808953-53808972 None:intergenic 45.0%
AATCAAGGGTGGCAAAGCTA+GGG - chr2.2:53809462-53809481 MS.gene071837:CDS 45.0%
AGAAGGAGCTACAACAGATG+TGG + chr2.2:53808343-53808362 None:intergenic 45.0%
AGTGAAGAGGAAATCAAGGG+TGG - chr2.2:53809451-53809470 MS.gene071837:CDS 45.0%
CCCTTGATTTCCTCTTCACT+TGG + chr2.2:53809451-53809470 None:intergenic 45.0%
CGCAACTTCGTGAAAGTTAG+GGG + chr2.2:53808897-53808916 None:intergenic 45.0%
CTGTCTCTATTTCAGCGAGA+TGG + chr2.2:53808762-53808781 None:intergenic 45.0%
GCAACTTCGTGAAAGTTAGG+GGG + chr2.2:53808896-53808915 None:intergenic 45.0%
TTTGCAATGGATCCTCCATC+TGG + chr2.2:53809391-53809410 None:intergenic 45.0%
! GGCTCTTGAAGGTTACGTTT+TGG - chr2.2:53809501-53809520 MS.gene071837:CDS 45.0%
!! AACTACAGCATAGTTGGTGG+TGG - chr2.2:53809310-53809329 MS.gene071837:intron 45.0%
!! GGTCTTTTCAAGGCTCTTGA+AGG - chr2.2:53809490-53809509 MS.gene071837:CDS 45.0%
!! TAGGGGTGATGGTCTTTTCA+AGG - chr2.2:53809480-53809499 MS.gene071837:CDS 45.0%
!!! TTTTTCTATAAATAATTTAT+TGG - chr2.2:53808642-53808661 MS.gene071837:intron 5.0%
AAATTGTCTGCAGGGCCAGA+TGG - chr2.2:53809373-53809392 MS.gene071837:CDS 50.0%
AACACGTGGCACCTCACTTA+GGG - chr2.2:53809014-53809033 MS.gene071837:intron 50.0%
ATCAAGGGTGGCAAAGCTAG+GGG - chr2.2:53809463-53809482 MS.gene071837:CDS 50.0%
GAGATCTTCTCCACTGTGTC+TGG + chr2.2:53809343-53809362 None:intergenic 50.0%
TAACACGTGGCACCTCACTT+AGG - chr2.2:53809013-53809032 MS.gene071837:intron 50.0%
TGATGCTGCACCAAGTGAAG+AGG - chr2.2:53809438-53809457 MS.gene071837:CDS 50.0%
!! ACTTGGTGCAGCATCACCTT+TGG + chr2.2:53809434-53809453 None:intergenic 50.0%
!! TACAGCATAGTTGGTGGTGG+TGG - chr2.2:53809313-53809332 MS.gene071837:intron 50.0%
TGACTCAGTCTACGCTGACG+TGG + chr2.2:53809042-53809061 None:intergenic 55.0%
!! TGGTGGACTTCCAGACACAG+TGG - chr2.2:53809330-53809349 MS.gene071837:intron 55.0%
CTGACGTGGCACCCTAAGTG+AGG + chr2.2:53809028-53809047 None:intergenic 60.0%
GGTGGCAAAGCTAGGGGTGA+TGG - chr2.2:53809469-53809488 MS.gene071837:CDS 60.0%
GTTGAAGGAAACGGTGGCGC+CGG - chr2.2:53808441-53808460 MS.gene071837:CDS 60.0%
TTGTCTGCAGGGCCAGATGG+AGG - chr2.2:53809376-53809395 MS.gene071837:CDS 60.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 53808312 53809540 53808312 ID=MS.gene071837
chr2.2 mRNA 53808312 53809540 53808312 ID=MS.gene071837.t1;Parent=MS.gene071837
chr2.2 exon 53809360 53809540 53809360 ID=MS.gene071837.t1.exon1;Parent=MS.gene071837.t1
chr2.2 CDS 53809360 53809540 53809360 ID=cds.MS.gene071837.t1;Parent=MS.gene071837.t1
chr2.2 exon 53808312 53808604 53808312 ID=MS.gene071837.t1.exon2;Parent=MS.gene071837.t1
chr2.2 CDS 53808312 53808604 53808312 ID=cds.MS.gene071837.t1;Parent=MS.gene071837.t1
Gene Sequence

>MS.gene071837

ATGGGTGTCTTCAACTTTGATGATGAAACCACATCTGTTGTAGCTCCTTCTAGACTTTACAAAGCTCTAGTTACAGATTCTGATAACCTTATCCCAAAGGTTATTGATGCCATCCAAAGTATTGAAATTGTTGAAGGAAACGGTGGCGCCGGAACCATCAAGAAACTTACTTTCGTTGAAGGTTAGTATATATGTGAAAAATTGAAGTGGCAAGAACTTTTTTTAACCCTAAGTAAAATAAAATGTTTAGAAACAAGAAACAAGAATATTCGATTTAATCTAATGGTCATAGATGATAGATGGGTTGACTAAACAAATGTATACAAGTTTTTTTTCTATAAATAATTTATTGGTTAGAAATTCATCTTTAAAGTAAAGAAATGAGTTTTGGGCCCTAATTATGAAATTTCACTGCGACAAATGCGTACAATTTTTACTGCATACAATCCATCTCGCTGAAATAGAGACAGTTAAAAAAAAGTTATCTAAATATACTAGCGAATGAATGTTTAAGACACTACTTATGGTTTTGTGCTAATTACTTGATTTGAGAAAATATTTTGGCTTAATAGCAGTTTTCGCCCCCTAACTTTCACGAAGTTGCGATTTTGGCACCCTAAGAAAAAAAAACTACAAAACCGCCCCCTAAGTTTTGCAACTTTAGAGTATTGGCACCCTAAGGCCAAAAAAAATAAAAAACATAACACGTGGCACCTCACTTAGGGTGCCACGTCAGCGTAGACTGAGTCAAAACTAGAAACTTACTTTGGATTGGATTATTTGTTACTATGTTTTTTATATAATTTTTTTTTGTGAGAAACAGTAATTTTTTTAAAAATTATTTTTAATAGCTTATACTAATTTTTAATGACCTAATTGAACAAAGTGAATGTCCATCATGTTAGTAATTGTGAAACGAATCAATTAAATGTGCAGGTGGTGAAACAAAGTATGATTTGCACAAAGTGGACTTAGTAGATGATGTTAACTTTGCTTACAACTACAGCATAGTTGGTGGTGGTGGACTTCCAGACACAGTGGAGAAGATCTCCTTTGAGTCTAAATTGTCTGCAGGGCCAGATGGAGGATCCATTGCAAAGCTTACTGTGAAATACTTCACCAAAGGTGATGCTGCACCAAGTGAAGAGGAAATCAAGGGTGGCAAAGCTAGGGGTGATGGTCTTTTCAAGGCTCTTGAAGGTTACGTTTTGGCAAATCCTGATTACTAA
Protein sequence

>MS.gene071837.t1

MGVFNFDDETTSVVAPSRLYKALVTDSDNLIPKVIDAIQSIEIVEGNGGAGTIKKLTFVEGGETKYDLHKVDLVDDVNFAYNYSIVGGGGLPDTVEKISFESKLSAGPDGGSIAKLTVKYFTKGDAAPSEEEIKGGKARGDGLFKALEGYVLANPDY