AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene055430

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055430.t1 MTR_8g007380 98.958 192 2 0 1 192 9 200 4.97e-143 396
MS.gene055430.t1 MTR_7g081130 81.443 194 34 1 1 192 10 203 2.44e-113 321
MS.gene055430.t1 MTR_7g094880 50.633 158 73 3 1 154 30 186 6.06e-50 161
MS.gene055430.t1 MTR_7g094880 50.633 158 73 3 1 154 45 201 1.22e-49 160
MS.gene055430.t1 MTR_2g088860 42.211 199 98 2 1 183 25 222 1.12e-43 145
MS.gene055430.t1 MTR_4g028060 45.912 159 78 1 2 152 29 187 7.33e-37 127
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055430.t1 AT2G44740 70.745 188 46 2 1 184 10 192 4.98e-93 270
MS.gene055430.t1 AT5G61650 58.376 197 77 2 1 192 22 218 2.68e-80 238
MS.gene055430.t1 AT5G07450 57.949 195 72 3 1 188 20 211 8.36e-77 229
MS.gene055430.t1 AT3G60550 40.909 198 108 2 2 191 30 226 2.28e-46 152
MS.gene055430.t1 AT2G45080 40.314 191 109 2 1 187 27 216 3.52e-46 151
MS.gene055430.t1 AT3G05327 45.963 161 78 3 2 153 31 191 2.17e-45 149
MS.gene055430.t1 AT3G21870 45.513 156 80 2 2 152 25 180 1.63e-43 144
MS.gene055430.t1 AT3G63120 50.806 124 60 1 28 151 62 184 1.05e-41 140
MS.gene055430.t1 AT3G63120 50.806 124 60 1 28 151 62 184 1.05e-41 140

Find 20 sgRNAs with CRISPR-Local

Find 74 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTGAGTTGGATTTCTTGTT+TGG 0.226808 8.1:-86273547 MS.gene055430:CDS
AAGAAAATTCATCTCCGTTT+TGG 0.264352 8.1:+86273567 None:intergenic
TTGGATTTCTTGTTTGGTTT+AGG 0.294726 8.1:-86273541 MS.gene055430:CDS
TAGCTTTGAATTGAGATGTT+TGG 0.365755 8.1:+86274969 None:intergenic
TTCTCTCTTCACTTCTTGAA+AGG 0.369852 8.1:-86275058 MS.gene055430:CDS
GCATTTGTAGCATTTCTCTT+TGG 0.372837 8.1:+86273467 None:intergenic
GAGAGAAAAGTTATCAACTT+TGG 0.396655 8.1:+86275074 None:intergenic
TCTCTCTTCACTTCTTGAAA+GGG 0.397849 8.1:-86275057 MS.gene055430:CDS
ATCAAACAGCTAGTTGTTGT+TGG 0.399140 8.1:+86273353 None:intergenic
TATGGTTGCTGCTAAATTCA+TGG 0.400894 8.1:-86274805 MS.gene055430:CDS
AATGCTTATTATGCAAAAGT+TGG 0.413031 8.1:-86273598 MS.gene055430:CDS
CTTGTTGATCACTAGTGTTA+TGG 0.440335 8.1:-86274823 MS.gene055430:CDS
AAGGAGTTGATAGGCAAAGA+AGG 0.486036 8.1:+86274858 None:intergenic
TGAACATTGAAGGAGTTGAT+AGG 0.499691 8.1:+86274849 None:intergenic
GAGTTTGAGTGAAACGATCA+AGG 0.511395 8.1:+86274883 None:intergenic
CAACAAGCGATGAACATTGA+AGG 0.515637 8.1:+86274839 None:intergenic
GCTTATTATGCAAAAGTTGG+AGG 0.519013 8.1:-86273595 MS.gene055430:CDS
AAGTTTAGCAAAATCACTAA+AGG 0.550070 8.1:-86273416 MS.gene055430:CDS
AGTTGGAGGAATCACCAAAA+CGG 0.594734 8.1:-86273581 MS.gene055430:CDS
CAATAAGCTTGAAATGTGAC+TGG 0.606542 8.1:+86273499 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTAAATTTGTTTAGATTTTA+CGG - chr8.1:86274080-86274099 MS.gene055430:intron 10.0%
!! ATATTTATAATAACAATTGG+TGG + chr8.1:86274684-86274703 None:intergenic 15.0%
!! TAAAAAGAATACAACATTAA+AGG + chr8.1:86274188-86274207 None:intergenic 15.0%
!! TTATTCAATGAATCTAAAAA+AGG + chr8.1:86274447-86274466 None:intergenic 15.0%
!!! AATTCAGATCAAAATATTTT+TGG + chr8.1:86273889-86273908 None:intergenic 15.0%
!!! TAAGAAAATATTCCTTTTTT+AGG + chr8.1:86274451-86274432 None:intergenic 15.0%
!! ACATCAAAATAATAGAAGAA+AGG + chr8.1:86273956-86273975 None:intergenic 20.0%
!! ATCAAACAAAAACAGAATTA+TGG - chr8.1:86273813-86273832 MS.gene055430:intron 20.0%
!! CGTATATAAAAAAAAAACAG+AGG + chr8.1:86273856-86273875 None:intergenic 20.0%
!! TCTAAACAAATTTAAGTGTA+TGG + chr8.1:86274075-86274094 None:intergenic 20.0%
!!! AATCAGACTTTACTAATTTT+CGG + chr8.1:86274258-86274277 None:intergenic 20.0%
!!! TATTTTCTTATATTTGAGAC+CGG - chr8.1:86274531-86274550 MS.gene055430:intron 20.0%
!!! TCTTTAGAAAAAATTGTCTT+AGG - chr8.1:86273765-86273784 MS.gene055430:intron 20.0%
! AAGTTTAGCAAAATCACTAA+AGG - chr8.1:86275015-86275034 MS.gene055430:CDS 25.0%
! AATGCTTATTATGCAAAAGT+TGG - chr8.1:86274833-86274852 MS.gene055430:CDS 25.0%
! CACTCAAATATGCTAAAATT+TGG - chr8.1:86274039-86274058 MS.gene055430:intron 25.0%
! CATAGTATTATTCACAAGAA+AGG + chr8.1:86274583-86274602 None:intergenic 25.0%
! GAAAAATAGAGATCTTATGA+TGG + chr8.1:86273428-86273447 None:intergenic 25.0%
! GGATTATAAATCATAGACAA+AGG + chr8.1:86274799-86274818 None:intergenic 25.0%
! GTAGAATCTTCAAAAATTAG+AGG + chr8.1:86274992-86275011 None:intergenic 25.0%
!! AAATAGAACCTTGATAATTC+AGG - chr8.1:86274226-86274245 MS.gene055430:intron 25.0%
!! AAGTCTAAAATACCATAGAT+TGG + chr8.1:86274353-86274372 None:intergenic 25.0%
!! AATAGAACCTTGATAATTCA+GGG - chr8.1:86274227-86274246 MS.gene055430:intron 25.0%
!! TAGATTTTACGGTTAACTTT+TGG - chr8.1:86274114-86274133 MS.gene055430:intron 25.0%
!!! AACAATTTTAGTCCAATCTA+TGG - chr8.1:86274338-86274357 MS.gene055430:intron 25.0%
!!! CATAAGATCTCTATTTTTCA+TGG - chr8.1:86273429-86273448 MS.gene055430:CDS 25.0%
!!! GGTTCTATTTTTCTGAAAAT+CGG + chr8.1:86274216-86274235 None:intergenic 25.0%
!!! TATTTTCTTACATTTGAGAC+CGG + chr8.1:86274422-86274441 None:intergenic 25.0%
!!! TTGCATAAATTCTGAAACTT+TGG - chr8.1:86273680-86273699 MS.gene055430:intron 25.0%
CATTGAGTAGTTAATGTATC+TGG + chr8.1:86274496-86274515 None:intergenic 30.0%
CTACTCAATGAACCTAAAAA+AGG - chr8.1:86274506-86274525 MS.gene055430:intron 30.0%
CTTAGGAATTCTATGTAGTT+TGG - chr8.1:86273782-86273801 MS.gene055430:intron 30.0%
GACAAAGGAAAAAGAACATT+AGG + chr8.1:86274784-86274803 None:intergenic 30.0%
GAGAGAAAAGTTATCAACTT+TGG + chr8.1:86273360-86273379 None:intergenic 30.0%
GTCTATGATTTATAATCCTC+AGG - chr8.1:86274801-86274820 MS.gene055430:CDS 30.0%
TGGATTGATTGTATGTTTGT+TGG + chr8.1:86274620-86274639 None:intergenic 30.0%
TTGTGAATAATACTATGTCC+AGG - chr8.1:86274586-86274605 MS.gene055430:intron 30.0%
TTGTTAAAAAATACTCCCTC+CGG - chr8.1:86274400-86274419 MS.gene055430:intron 30.0%
! AAGAAAATTCATCTCCGTTT+TGG + chr8.1:86274867-86274886 None:intergenic 30.0%
! TTGGATTTCTTGTTTGGTTT+AGG - chr8.1:86274890-86274909 MS.gene055430:CDS 30.0%
!! TAGCTTTGAATTGAGATGTT+TGG + chr8.1:86273465-86273484 None:intergenic 30.0%
!! TCTATTTTTCTGAAAATCGG+AGG + chr8.1:86274213-86274232 None:intergenic 30.0%
CAATAAGCTTGAAATGTGAC+TGG + chr8.1:86274935-86274954 None:intergenic 35.0%
CTTGTTGATCACTAGTGTTA+TGG - chr8.1:86273608-86273627 MS.gene055430:CDS 35.0%
GCATTTGTAGCATTTCTCTT+TGG + chr8.1:86274967-86274986 None:intergenic 35.0%
GCTTATTATGCAAAAGTTGG+AGG - chr8.1:86274836-86274855 MS.gene055430:CDS 35.0%
TATGGTTGCTGCTAAATTCA+TGG - chr8.1:86273626-86273645 MS.gene055430:intron 35.0%
TCTCTCTTCACTTCTTGAAA+GGG - chr8.1:86273374-86273393 MS.gene055430:CDS 35.0%
TTCTCTCTTCACTTCTTGAA+AGG - chr8.1:86273373-86273392 MS.gene055430:CDS 35.0%
! AACCTTGATAATTCAGGGTT+CGG - chr8.1:86274232-86274251 MS.gene055430:intron 35.0%
! GAGCTCTAGTGAATGATTAA+TGG + chr8.1:86274315-86274334 None:intergenic 35.0%
! GGAGATGAATTTTCTTGAGT+TGG - chr8.1:86274871-86274890 MS.gene055430:CDS 35.0%
! GGTCATCATCGATGAATTTT+TGG - chr8.1:86273701-86273720 MS.gene055430:intron 35.0%
! TGAACATTGAAGGAGTTGAT+AGG + chr8.1:86273585-86273604 None:intergenic 35.0%
! TTCTTATATTTGAGACCGGA+GGG - chr8.1:86274535-86274554 MS.gene055430:intron 35.0%
! TTTCTTATATTTGAGACCGG+AGG - chr8.1:86274534-86274553 MS.gene055430:intron 35.0%
!! CTTGAGTTGGATTTCTTGTT+TGG - chr8.1:86274884-86274903 MS.gene055430:CDS 35.0%
!!! CTTTTTAAAGTTTCTCCCTC+CGG + chr8.1:86274553-86274572 None:intergenic 35.0%
AAGCATTATTGTAGCACCTG+AGG + chr8.1:86274820-86274839 None:intergenic 40.0%
AGTTAGCTAGCAAACTCACA+TGG + chr8.1:86274644-86274663 None:intergenic 40.0%
AGTTGGAGGAATCACCAAAA+CGG - chr8.1:86274850-86274869 MS.gene055430:CDS 40.0%
CAACAAGCGATGAACATTGA+AGG + chr8.1:86273595-86273614 None:intergenic 40.0%
GAATAATACTATGTCCAGGC+TGG - chr8.1:86274590-86274609 MS.gene055430:intron 40.0%
GAGTTTGAGTGAAACGATCA+AGG + chr8.1:86273551-86273570 None:intergenic 40.0%
GTTAGCTAGCAAACTCACAT+GGG + chr8.1:86274643-86274662 None:intergenic 40.0%
TAGAGACCATACGATGCATT+TGG + chr8.1:86274140-86274159 None:intergenic 40.0%
! TTCTTACATTTGAGACCGGA+GGG + chr8.1:86274418-86274437 None:intergenic 40.0%
! TTTCTTACATTTGAGACCGG+AGG + chr8.1:86274419-86274438 None:intergenic 40.0%
! TTTTGGCCAAATGCATCGTA+TGG - chr8.1:86274131-86274150 MS.gene055430:intron 40.0%
!! AAGGAGTTGATAGGCAAAGA+AGG + chr8.1:86273576-86273595 None:intergenic 40.0%
!! ATTATATTTATAATAACAAT+TGG + chr8.1:86274687-86274706 None:intergenic 5.0%
AGCTAGCAAACTCACATGGG+TGG + chr8.1:86274640-86274659 None:intergenic 50.0%
GGCCGAACCCTGAATTATCA+AGG + chr8.1:86274237-86274256 None:intergenic 50.0%
! TGTTTGTTGGAAAGCCAGCC+TGG + chr8.1:86274607-86274626 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 86273354 86275099 86273354 ID=MS.gene055430
chr8.1 mRNA 86273354 86275099 86273354 ID=MS.gene055430.t1;Parent=MS.gene055430
chr8.1 exon 86274798 86275099 86274798 ID=MS.gene055430.t1.exon1;Parent=MS.gene055430.t1
chr8.1 CDS 86274798 86275099 86274798 ID=cds.MS.gene055430.t1;Parent=MS.gene055430.t1
chr8.1 exon 86273354 86273630 86273354 ID=MS.gene055430.t1.exon2;Parent=MS.gene055430.t1
chr8.1 CDS 86273354 86273630 86273354 ID=cds.MS.gene055430.t1;Parent=MS.gene055430.t1
Gene Sequence

>MS.gene055430

ATGCCAAAGTTGATAACTTTTCTCTCTTCACTTCTTGAAAGGGTTGCTGAATCAAATGATGAAACACAAAACCATCATAAGATCTCTATTTTTCATGGTTTGTCAAGACCAAACATCTCAATTCAAAGCTATCTTGAGAGAATTTTCAAGTATGCAAATTGTAGTTCTTCATGCTTCATTGTTGCTTATGTCTACCTTGATCGTTTCACTCAAACTCAACCTTCTTTGCCTATCAACTCCTTCAATGTTCATCGCTTGTTGATCACTAGTGTTATGGTTGCTGCTAAATTCATGGATGATGTGTAAGTTTTTTTAGTCTTTTTTTATTGCATAAATTCTGAAACTTTGGTCATCATCGATGAATTTTTGGTGTTACTCTTTTTTCTTTTTGAGTACACAAATTCATGTGATTCTTTAGAAAAAATTGTCTTAGGAATTCTATGTAGTTTGGTATAATTAATCAAACAAAAACAGAATTATGGTTAGTTGCTCTGTTTTTCCTCTGTTTTTTTTTTATATACGTGATTGTGATCCAAAAATATTTTGATCTGAATTTGAAGTGTTACACTTCAAGCATTACAGAAGAGTACAAATCTTTTCCTTTCTTCTATTATTTTGATGTGAAGTTTCTTCAACAATGTCTATAGTAATAATTTTAATGATTGTATAATGTAAAAAAGTTTTACACTCAAATATGCTAAAATTTGGATGACATTTACCATACACTTAAATTTGTTTAGATTTTACATTTAAATTTGTTTAGATTTTACGGTTAACTTTTGGCCAAATGCATCGTATGGTCTCTAAGTTCAACGTTTATATCACATTGATCCTTTAATGTTGTATTCTTTTTAAACCTCCGATTTTCAGAAAAATAGAACCTTGATAATTCAGGGTTCGGCCGAAAATTAGTAAAGTCTGATTATCGATTGTTTAAGAAAATATTCGAAATTGAGAACCATTAATCATTCACTAGAGCTCATTAACAATTTTAGTCCAATCTATGGTATTTTAGACTTTATAGCTATTATACTCTAAAAAGAATCTTGTTAAAAAATACTCCCTCCGGTCTCAAATGTAAGAAAATATTCCTTTTTTAGATTCATTGAATAATTAATGTATCTGTTTTACAATGTAGACCAGATACATTAACTACTCAATGAACCTAAAAAAGGAATATTTTCTTATATTTGAGACCGGAGGGAGAAACTTTAAAAAGAATACAGCCTTTCTTGTGAATAATACTATGTCCAGGCTGGCTTTCCAACAAACATACAATCAATCCACCCATGTGAGTTTGCTAGCTAACTAGTACAAATGTACAACACCACCAATTGTTATTATAAATATAATAAAATAAAATATTATAATAATAAATGTCAAATTTTGTTGTTGCATATTTTCTATGATTTTATTTTTTTGCATGACCTAATGTTCTTTTTCCTTTGTCTATGATTTATAATCCTCAGGTGCTACAATAATGCTTATTATGCAAAAGTTGGAGGAATCACCAAAACGGAGATGAATTTTCTTGAGTTGGATTTCTTGTTTGGTTTAGGTTTCAATTTAAATGTAACACCAGTCACATTTCAAGCTTATTGTGTTCATCTCCAAAGAGAAATGCTACAAATGCAACCTCTAATTTTTGAAGATTCTACACTAAGTTTAGCAAAATCACTAAAGGCTCATTTATGCTTGAATGAAGATGAATCTTCTCATCAAAACCAACAACAACTAGCTGTTTGA
Protein sequence

>MS.gene055430.t1

MPKLITFLSSLLERVAESNDETQNHHKISIFHGLSRPNISIQSYLERIFKYANCSSSCFIVAYVYLDRFTQTQPSLPINSFNVHRLLITSVMVAAKFMDDVCYNNAYYAKVGGITKTEMNFLELDFLFGLGFNLNVTPVTFQAYCVHLQREMLQMQPLIFEDSTLSLAKSLKAHLCLNEDESSHQNQQQLAV