AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene99175

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene99175.t1 MTR_8g007380 98.953 191 2 0 9 199 10 200 2.91e-142 394
MS.gene99175.t1 MTR_7g081130 81.347 193 34 1 9 199 11 203 1.90e-112 319
MS.gene99175.t1 MTR_7g094880 50.625 160 74 3 6 161 28 186 9.22e-50 160
MS.gene99175.t1 MTR_7g094880 50.625 160 74 3 6 161 43 201 1.35e-49 161
MS.gene99175.t1 MTR_2g088860 42.424 198 97 2 9 190 26 222 2.39e-43 145
MS.gene99175.t1 MTR_4g028060 45.912 159 78 1 9 159 29 187 1.13e-36 127
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene99175.t1 AT2G44740 70.968 186 45 2 10 191 12 192 2.28e-92 268
MS.gene99175.t1 AT5G61650 58.163 196 77 2 9 199 23 218 2.06e-79 236
MS.gene99175.t1 AT5G07450 57.732 194 72 3 9 195 21 211 4.88e-76 228
MS.gene99175.t1 AT3G60550 40.686 204 112 2 3 198 24 226 7.85e-47 154
MS.gene99175.t1 AT2G45080 40.625 192 109 2 7 194 26 216 2.56e-46 152
MS.gene99175.t1 AT3G05327 46.012 163 79 3 7 160 29 191 9.64e-46 150
MS.gene99175.t1 AT3G21870 45.513 156 80 2 9 159 25 180 2.21e-43 144
MS.gene99175.t1 AT3G63120 50.806 124 60 1 35 158 62 184 1.29e-41 140
MS.gene99175.t1 AT3G63120 50.806 124 60 1 35 158 62 184 1.29e-41 140

Find 20 sgRNAs with CRISPR-Local

Find 61 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTGAGTTGGATTTCTTGTT+TGG 0.226808 8.2:-82322348 MS.gene99175:CDS
AAGAAAATTCATCTCCGTTT+TGG 0.264352 8.2:+82322368 None:intergenic
TTGGATTTCTTGTTTGGTTT+AGG 0.294726 8.2:-82322342 MS.gene99175:CDS
TAGCTTTGAATTGAGATGTT+TGG 0.365755 8.2:+82323621 None:intergenic
TTCTCTCTTCACTTCTTGAA+AGG 0.369852 8.2:-82323710 MS.gene99175:CDS
GCATTTGTAGCATTTCTCTT+TGG 0.372837 8.2:+82322268 None:intergenic
GAGAGAAAAGTTATCAACTT+TGG 0.372936 8.2:+82323726 None:intergenic
TCTCTCTTCACTTCTTGAAA+GGG 0.397849 8.2:-82323709 MS.gene99175:CDS
ATCAAACAGCTAGTTGTTGT+TGG 0.399140 8.2:+82322154 None:intergenic
TATGGTTGCTGCTAAATTCA+TGG 0.400894 8.2:-82323457 MS.gene99175:CDS
AATGCTTATTATGCAAAAGT+TGG 0.413031 8.2:-82322399 MS.gene99175:CDS
CTTGTTGATCACTAGTGTTA+TGG 0.440335 8.2:-82323475 MS.gene99175:CDS
AAGGAGTTGATAGGCAAAGA+AGG 0.486036 8.2:+82323510 None:intergenic
TGAACATTGAAGGAGTTGAT+AGG 0.499691 8.2:+82323501 None:intergenic
GAGTTTGAGTGAAACGATCA+AGG 0.511395 8.2:+82323535 None:intergenic
CAACAAGCGATGAACATTGA+AGG 0.515637 8.2:+82323491 None:intergenic
GCTTATTATGCAAAAGTTGG+AGG 0.519013 8.2:-82322396 MS.gene99175:CDS
AAGTTTAGCAAAATCACTAA+AGG 0.550070 8.2:-82322217 MS.gene99175:CDS
AGTTGGAGGAATCACCAAAA+CGG 0.594734 8.2:-82322382 MS.gene99175:CDS
CAATAAGCTTGAAATGTGAC+TGG 0.606542 8.2:+82322300 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTAAATTTGTTTAGATTTTA+CGG - chr8.2:82322901-82322920 MS.gene99175:intron 10.0%
!! ATATTTATAATAACAATTGG+TGG + chr8.2:82323356-82323375 None:intergenic 15.0%
!! TAAAAAGAATACAACATTAA+AGG + chr8.2:82323009-82323028 None:intergenic 15.0%
!!! AATTCAGATCAAAATATTTT+TGG + chr8.2:82322710-82322729 None:intergenic 15.0%
!! ACATCAAAATAATAGAAGAA+AGG + chr8.2:82322777-82322796 None:intergenic 20.0%
!! ATCAAACAAAAACAGAATTA+TGG - chr8.2:82322634-82322653 MS.gene99175:intron 20.0%
!! CATATTATTATTCACAAGAA+AGG + chr8.2:82323255-82323274 None:intergenic 20.0%
!! CGTATATAAAAAAAAAACAG+AGG + chr8.2:82322677-82322696 None:intergenic 20.0%
!! TCTAAACAAATTTAAGTGTA+TGG + chr8.2:82322896-82322915 None:intergenic 20.0%
!!! AATCAGACTTTACTAATTTT+CGG + chr8.2:82323079-82323098 None:intergenic 20.0%
!!! TCTTTAGAAAAAATTGTCTT+AGG - chr8.2:82322586-82322605 MS.gene99175:intron 20.0%
! AAGTTTAGCAAAATCACTAA+AGG - chr8.2:82323688-82323707 MS.gene99175:CDS 25.0%
! AATGCTTATTATGCAAAAGT+TGG - chr8.2:82323506-82323525 MS.gene99175:CDS 25.0%
! CACTCAAATATGCTAAAATT+TGG - chr8.2:82322860-82322879 MS.gene99175:intron 25.0%
! GAAAAATAGAGATCTTATGA+TGG + chr8.2:82322250-82322269 None:intergenic 25.0%
! GGATTATAAATCATAGACAA+AGG + chr8.2:82323472-82323491 None:intergenic 25.0%
! GTAGAATCTTCAAAAATTAG+AGG + chr8.2:82323665-82323684 None:intergenic 25.0%
! TTGTGAATAATAATATGTCC+AGG - chr8.2:82323258-82323277 MS.gene99175:intron 25.0%
!! AAATAGAACCTTGATAATTC+AGG - chr8.2:82323047-82323066 MS.gene99175:intron 25.0%
!! AAGTCTAAAATACCATAGAT+TGG + chr8.2:82323174-82323193 None:intergenic 25.0%
!! TAGATTTTACGGTTAACTTT+TGG - chr8.2:82322935-82322954 MS.gene99175:intron 25.0%
!!! AACAATTTTAGTCCAATCTA+TGG - chr8.2:82323159-82323178 MS.gene99175:intron 25.0%
!!! CATAAGATCTCTATTTTTCA+TGG - chr8.2:82322251-82322270 MS.gene99175:CDS 25.0%
!!! GGTTCTATTTTTCTGAAAAT+CGG + chr8.2:82323037-82323056 None:intergenic 25.0%
!!! TTGCATAAATTCTGAAACTT+TGG - chr8.2:82322501-82322520 MS.gene99175:intron 25.0%
CTTAGGAATTCTATGTAGTT+TGG - chr8.2:82322603-82322622 MS.gene99175:intron 30.0%
GACAAAGGAAAAAGAACATT+AGG + chr8.2:82323457-82323476 None:intergenic 30.0%
GAGAGAAAAGTTATCAACTT+TGG + chr8.2:82322182-82322201 None:intergenic 30.0%
GTCTATGATTTATAATCCTC+AGG - chr8.2:82323474-82323493 MS.gene99175:CDS 30.0%
TGGATTGATTGTATGTTTGT+TGG + chr8.2:82323292-82323311 None:intergenic 30.0%
! AACCTTGATAATTCAGGATT+CGG - chr8.2:82323053-82323072 MS.gene99175:intron 30.0%
! AAGAAAATTCATCTCCGTTT+TGG + chr8.2:82323540-82323559 None:intergenic 30.0%
! GGTCATCATTGATGAATTTT+TGG - chr8.2:82322522-82322541 MS.gene99175:intron 30.0%
! TTGGATTTCTTGTTTGGTTT+AGG - chr8.2:82323563-82323582 MS.gene99175:CDS 30.0%
!! TAGCTTTGAATTGAGATGTT+TGG + chr8.2:82322287-82322306 None:intergenic 30.0%
!! TCTATTTTTCTGAAAATCGG+AGG + chr8.2:82323034-82323053 None:intergenic 30.0%
CAATAAGCTTGAAATGTGAC+TGG + chr8.2:82323608-82323627 None:intergenic 35.0%
CTTGTTGATCACTAGTGTTA+TGG - chr8.2:82322430-82322449 MS.gene99175:intron 35.0%
GAATAATAATATGTCCAGGC+TGG - chr8.2:82323262-82323281 MS.gene99175:intron 35.0%
GCATTTGTAGCATTTCTCTT+TGG + chr8.2:82323640-82323659 None:intergenic 35.0%
GCTTATTATGCAAAAGTTGG+AGG - chr8.2:82323509-82323528 MS.gene99175:CDS 35.0%
TATGGTTGCTGCTAAATTCA+TGG - chr8.2:82322448-82322467 MS.gene99175:intron 35.0%
TCTCTCTTCACTTCTTGAAA+GGG - chr8.2:82322196-82322215 MS.gene99175:CDS 35.0%
TTCTCTCTTCACTTCTTGAA+AGG - chr8.2:82322195-82322214 MS.gene99175:CDS 35.0%
! GAGCTCTAGTGAATGATTAA+TGG + chr8.2:82323136-82323155 None:intergenic 35.0%
! GGAGATGAATTTTCTTGAGT+TGG - chr8.2:82323544-82323563 MS.gene99175:CDS 35.0%
! TGAACATTGAAGGAGTTGAT+AGG + chr8.2:82322407-82322426 None:intergenic 35.0%
!! CTTGAGTTGGATTTCTTGTT+TGG - chr8.2:82323557-82323576 MS.gene99175:CDS 35.0%
AAGCATTATTGTAGCACCTG+AGG + chr8.2:82323493-82323512 None:intergenic 40.0%
AGTTAGCTAGCAAACTCACA+TGG + chr8.2:82323316-82323335 None:intergenic 40.0%
AGTTGGAGGAATCACCAAAA+CGG - chr8.2:82323523-82323542 MS.gene99175:CDS 40.0%
CAACAAGCGATGAACATTGA+AGG + chr8.2:82322417-82322436 None:intergenic 40.0%
GAGTTTGAGTGAAACGATCA+AGG + chr8.2:82322373-82322392 None:intergenic 40.0%
GTTAGCTAGCAAACTCACAT+GGG + chr8.2:82323315-82323334 None:intergenic 40.0%
TAGAGACCATACGATGCATT+TGG + chr8.2:82322961-82322980 None:intergenic 40.0%
! TTTTGGCCAAATGCATCGTA+TGG - chr8.2:82322952-82322971 MS.gene99175:intron 40.0%
!! AAGGAGTTGATAGGCAAAGA+AGG + chr8.2:82322398-82322417 None:intergenic 40.0%
GGCCGAATCCTGAATTATCA+AGG + chr8.2:82323058-82323077 None:intergenic 45.0%
!! ATTATATTTATAATAACAAT+TGG + chr8.2:82323359-82323378 None:intergenic 5.0%
AGCTAGCAAACTCACATGGG+TGG + chr8.2:82323312-82323331 None:intergenic 50.0%
! TGTTTGTTGGAAAGCCAGCC+TGG + chr8.2:82323279-82323298 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 82322155 82323772 82322155 ID=MS.gene99175
chr8.2 mRNA 82322155 82323772 82322155 ID=MS.gene99175.t1;Parent=MS.gene99175
chr8.2 exon 82323450 82323772 82323450 ID=MS.gene99175.t1.exon1;Parent=MS.gene99175.t1
chr8.2 CDS 82323450 82323772 82323450 ID=cds.MS.gene99175.t1;Parent=MS.gene99175.t1
chr8.2 exon 82322155 82322431 82322155 ID=MS.gene99175.t1.exon2;Parent=MS.gene99175.t1
chr8.2 CDS 82322155 82322431 82322155 ID=cds.MS.gene99175.t1;Parent=MS.gene99175.t1
Gene Sequence

>MS.gene99175

ATGAAGCAAAACTTTGTCACAAAACCAAAGTTGATAACTTTTCTCTCTTCACTTCTTGAAAGGGTTGCTGAATCAAATGATGAAACACAAAACCATCATAAGATCTCTATTTTTCATGGTTTGTCAAGACCAAACATCTCAATTCAAAGCTATCTTGAGAGAATTTTCAAATATGCAAATTGTAGCTCTTCATGCTTCATTGTTGCTTATGTCTACCTTGATCGTTTCACTCAAACTCAACCTTCTTTGCCTATCAACTCCTTCAATGTTCATCGCTTGTTGATCACTAGTGTTATGGTTGCTGCTAAATTCATGGATGATGTGTAAGTTTTTTAGTCTTTTTTTATTGCATAAATTCTGAAACTTTGGTCATCATTGATGAATTTTTGGTGTTACTCTTTTTTCTTTTTGAGTACACAAATTCATGTGATTCTTTAGAAAAAATTGTCTTAGGAATTCTATGTAGTTTGGTATAATTAATCAAACAAAAACAGAATTATGGTTAGTTGCTCTGTTTTTCCTCTGTTTTTTTTTTATATACGTGATTGTGATCCAAAAATATTTTGATCTGAATTTGAAGTGTTACACTTCAAGCATTACAGAAGAGTACAAATCTTTTCCTTTCTTCTATTATTTTGATGTGAAGTTTCTTCAACAATGTCTATAGTAATAAATTTAATGATTGTATAATGTAAAAAAAATTTACACTCAAATATGCTAAAATTTGGATGACATTTACCATACACTTAAATTTGTTTAGATTTTACATTTAAATTTGTTTAGATTTTACGGTTAACTTTTGGCCAAATGCATCGTATGGTCTCTAAGTTCAACGTTTATATCACATTGATCCTTTAATGTTGTATTCTTTTTAAACCTCCGATTTTCAGAAAAATAGAACCTTGATAATTCAGGATTCGGCCGAAAATTAGTAAAGTCTGATTATCGATTGTTTAAGAAAATATTCGAAATTGAGAACCATTAATCATTCACTAGAGCTCATTAACAATTTTAGTCCAATCTATGGTATTTTAGACTTTATAGCTATTATACTCTAAAAAAAATCTTGTTAAAAAATAACTTTAAAAAGAATATAGCCTTTCTTGTGAATAATAATATGTCCAGGCTGGCTTTCCAACAAACATACAATCAATCCACCCATGTGAGTTTGCTAGCTAACTAGTACAAATGTACAACACCACCAATTGTTATTATAAATATAATAAAATAAAATAAAATATTATAATAATAAATGTCAAATTTTGTTGTTGCATATTTTCTATGATTTTATTTGCATGACCTAATGTTCTTTTTCCTTTGTCTATGATTTATAATCCTCAGGTGCTACAATAATGCTTATTATGCAAAAGTTGGAGGAATCACCAAAACGGAGATGAATTTTCTTGAGTTGGATTTCTTGTTTGGTTTAGGTTTCAATTTAAATGTAACACCAGTCACATTTCAAGCTTATTGTGTTCATCTCCAAAGAGAAATGCTACAAATGCAACCTCTAATTTTTGAAGATTCTACACTAAGTTTAGCAAAATCACTAAAGGCTCATTTATGCTTGAATGAAGATGAATCTTCTCATCAAAACCAACAACAACTAGCTGTTTGA
Protein sequence

>MS.gene99175.t1

MKQNFVTKPKLITFLSSLLERVAESNDETQNHHKISIFHGLSRPNISIQSYLERIFKYANCSSSCFIVAYVYLDRFTQTQPSLPINSFNVHRLLITSVMVAAKFMDDVCYNNAYYAKVGGITKTEMNFLELDFLFGLGFNLNVTPVTFQAYCVHLQREMLQMQPLIFEDSTLSLAKSLKAHLCLNEDESSHQNQQQLAV