AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene45422


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene45422.t1 MTR_8g009870 96.053 76 3 0 1 76 1 76 1.16e-50 156
MS.gene45422.t1 MTR_8g009870 95.522 67 3 0 10 76 6 72 1.19e-43 138
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene45422.t1 AT1G64850 65.333 75 26 0 1 75 1 75 6.27e-32 108

Find 6 sgRNAs with CRISPR-Local

Find 70 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATATCAACAAGATTATTCC+TGG 0.423948 8.3:-78715618 MS.gene45422:CDS
CAAATCTTCGATAAATTACA+AGG 0.489770 8.3:-78716874 MS.gene45422:intron
TTTGATGGAGGATCGAAATG+AGG 0.530263 8.3:+78715594 None:intergenic
CATTTAATGCAGGTGAGGAG+TGG 0.581643 8.3:-78715875 MS.gene45422:intron
GGAGGATCGAAATGAGGACC+AGG 0.588209 8.3:+78715600 None:intergenic
AACTGTCAGACAAATCATGC+AGG 0.595607 8.3:-78715568 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTCTTTATCTTTTATTTTT+TGG - chr8.3:78715647-78715666 MS.gene45422:intron 10.0%
!! GACATGATTTATCATAAAAA+TGG + chr8.3:78716492-78716511 None:intergenic 20.0%
!! TAAAGAAAAATCAGCAAAAA+AGG + chr8.3:78715635-78715654 None:intergenic 20.0%
!! TGGAATTAAGGAAATTTAAT+TGG - chr8.3:78715841-78715860 MS.gene45422:CDS 20.0%
!!! TTGATTTATTTGTTATCTTC+TGG - chr8.3:78716443-78716462 MS.gene45422:intron 20.0%
! AAAAAAGGTAATTCCAAAAC+AGG + chr8.3:78715620-78715639 None:intergenic 25.0%
! AGTGGAGAAAAAAACAAATT+AGG - chr8.3:78716592-78716611 MS.gene45422:intron 25.0%
! CAAATCTTCGATAAATTACA+AGG - chr8.3:78715575-78715594 MS.gene45422:CDS 25.0%
! CACAGTTTATTATGGAATTA+AGG - chr8.3:78715829-78715848 MS.gene45422:CDS 25.0%
! CTTTCTATTAATCAAGCTTA+AGG + chr8.3:78716085-78716104 None:intergenic 25.0%
! GAAATTTAATTGGAGTCTTA+TGG - chr8.3:78715851-78715870 MS.gene45422:CDS 25.0%
! GTAAGTAACACAGTTTATTA+TGG - chr8.3:78715821-78715840 MS.gene45422:CDS 25.0%
AAACACATGATACTTGATCA+TGG + chr8.3:78716326-78716345 None:intergenic 30.0%
ATCAACTCAAGTATGATTTC+TGG - chr8.3:78715960-78715979 MS.gene45422:intron 30.0%
GAAAAGTTGCATAAATCCAT+AGG - chr8.3:78716411-78716430 MS.gene45422:intron 30.0%
GATATCAACAAGATTATTCC+TGG - chr8.3:78716831-78716850 MS.gene45422:intron 30.0%
TGTATTCATTCATGTACTCA+AGG - chr8.3:78716513-78716532 MS.gene45422:intron 30.0%
! CTTTATAGCACTAACACTTT+TGG - chr8.3:78716105-78716124 MS.gene45422:intron 30.0%
! TCATTGATTGAATCTGAATG+AGG - chr8.3:78715900-78715919 MS.gene45422:intron 30.0%
! TTAATTGGAGTCTTATGGTA+TGG - chr8.3:78715856-78715875 MS.gene45422:CDS 30.0%
! TTACAACAGCTTGATTTTAG+AGG - chr8.3:78715775-78715794 MS.gene45422:CDS 30.0%
!! TGAGTTGATCAATCATCTTA+GGG + chr8.3:78715949-78715968 None:intergenic 30.0%
!! TTGAGTTGATCAATCATCTT+AGG + chr8.3:78715950-78715969 None:intergenic 30.0%
ACATGATACTTGATCATGGA+GGG + chr8.3:78716322-78716341 None:intergenic 35.0%
AGGTAATTCCAAAACAGGAA+AGG + chr8.3:78715615-78715634 None:intergenic 35.0%
ATTCATGTACTCAAGGAATC+TGG - chr8.3:78716520-78716539 MS.gene45422:intron 35.0%
CATCCATGTACATCATTTGT+AGG + chr8.3:78715679-78715698 None:intergenic 35.0%
CATGTACATCATTTGTAGGT+GGG + chr8.3:78715675-78715694 None:intergenic 35.0%
TATGCCATGACATTTAATGC+AGG - chr8.3:78716564-78716583 MS.gene45422:intron 35.0%
! ATAGCACTAACACTTTTGGT+AGG - chr8.3:78716109-78716128 MS.gene45422:intron 35.0%
! TATGCAACTTTTCAGCTCAA+AGG + chr8.3:78716404-78716423 None:intergenic 35.0%
! TCGGTGCTTCATAGATAAAA+AGG - chr8.3:78716251-78716270 MS.gene45422:intron 35.0%
! TCTTTCTTCCTTTCCTGTTT+TGG - chr8.3:78715604-78715623 MS.gene45422:CDS 35.0%
! TGTCTGACAGTTTCTTTTGA+TGG + chr8.3:78716873-78716892 None:intergenic 35.0%
!! CTGTGTTACTTACACAATCA+AGG + chr8.3:78715814-78715833 None:intergenic 35.0%
!! GAGTTTGCTTTTGTCAGATA+TGG - chr8.3:78715987-78716006 MS.gene45422:intron 35.0%
AAACACACACACATAGACAC+AGG + chr8.3:78715752-78715771 None:intergenic 40.0%
AAATCAATCAACCCTGCCTA+TGG + chr8.3:78716430-78716449 None:intergenic 40.0%
AACACACACACATAGACACA+GGG + chr8.3:78715751-78715770 None:intergenic 40.0%
AGGCTGTTAGAACAGTAACT+TGG + chr8.3:78716384-78716403 None:intergenic 40.0%
AGTTGCATAAATCCATAGGC+AGG - chr8.3:78716415-78716434 MS.gene45422:intron 40.0%
CACATGATACTTGATCATGG+AGG + chr8.3:78716323-78716342 None:intergenic 40.0%
CATGACATTTAATGCAGGTG+AGG - chr8.3:78716569-78716588 MS.gene45422:intron 40.0%
CCACCTACAAATGATGTACA+TGG - chr8.3:78715673-78715692 MS.gene45422:intron 40.0%
CCATGTACATCATTTGTAGG+TGG + chr8.3:78715676-78715695 None:intergenic 40.0%
CTCACCTGCATTAAATGTCA+TGG + chr8.3:78716571-78716590 None:intergenic 40.0%
GTTGCATAAATCCATAGGCA+GGG - chr8.3:78716416-78716435 MS.gene45422:intron 40.0%
GTTGTGTTCGATGTCTATGT+CGG - chr8.3:78716232-78716251 MS.gene45422:intron 40.0%
TGGCTCACTTTACTGAATAG+CGG - chr8.3:78716007-78716026 MS.gene45422:intron 40.0%
TTTGATGGAGGATCGAAATG+AGG + chr8.3:78716858-78716877 None:intergenic 40.0%
! CTGACAGTTTCTTTTGATGG+AGG + chr8.3:78716870-78716889 None:intergenic 40.0%
!! CTCAAGTATGATTTCTGGCT+TGG - chr8.3:78715965-78715984 MS.gene45422:intron 40.0%
CATTTAATGCAGGTGAGGAG+TGG - chr8.3:78716574-78716593 MS.gene45422:intron 45.0%
GGCTCACTTTACTGAATAGC+GGG - chr8.3:78716008-78716027 MS.gene45422:intron 45.0%
TACTGCAGCCTCTATGTAGT+CGG - chr8.3:78716274-78716293 MS.gene45422:intron 45.0%
TCAGACTGTCAGTGATGTGT+AGG + chr8.3:78716153-78716172 None:intergenic 45.0%
TGTCAGTGATGTGTAGGTGT+GGG + chr8.3:78716147-78716166 None:intergenic 45.0%
! ACACTTTTGGTAGGTGTGTC+CGG - chr8.3:78716118-78716137 MS.gene45422:intron 45.0%
CTACGTCTCCGACTACATAG+AGG + chr8.3:78716285-78716304 None:intergenic 50.0%
CTCTATGTAGTCGGAGACGT+AGG - chr8.3:78716283-78716302 MS.gene45422:intron 50.0%
CTGTCAGTGATGTGTAGGTG+TGG + chr8.3:78716148-78716167 None:intergenic 50.0%
!! ACTTTACTGAATAGCGGGCC+AGG - chr8.3:78716013-78716032 MS.gene45422:intron 50.0%
GATGTGTAGGTGTGGGACAC+CGG + chr8.3:78716140-78716159 None:intergenic 55.0%
GGAGGATCGAAATGAGGACC+AGG + chr8.3:78716852-78716871 None:intergenic 55.0%
GTCGGAGACGTAGGCACAAT+TGG - chr8.3:78716292-78716311 MS.gene45422:intron 55.0%
!! TTACTGAATAGCGGGCCAGG+TGG - chr8.3:78716016-78716035 MS.gene45422:intron 55.0%
AGCGGGCCAGGTGGCACGAG+CGG - chr8.3:78716025-78716044 MS.gene45422:intron 75.0%
CTCTCCCCGCTCGTGCCACC+TGG + chr8.3:78716034-78716053 None:intergenic 75.0%
! CGGGCCAGGTGGCACGAGCG+GGG - chr8.3:78716027-78716046 MS.gene45422:intron 80.0%
! GCGGGCCAGGTGGCACGAGC+GGG - chr8.3:78716026-78716045 MS.gene45422:intron 80.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 78715569 78716902 78715569 ID=MS.gene45422
chr8.3 mRNA 78715569 78716902 78715569 ID=MS.gene45422.t1;Parent=MS.gene45422
chr8.3 exon 78716875 78716902 78716875 ID=MS.gene45422.t1.exon1;Parent=MS.gene45422.t1
chr8.3 CDS 78716875 78716902 78716875 ID=cds.MS.gene45422.t1;Parent=MS.gene45422.t1
chr8.3 exon 78715759 78715885 78715759 ID=MS.gene45422.t1.exon2;Parent=MS.gene45422.t1
chr8.3 CDS 78715759 78715885 78715759 ID=cds.MS.gene45422.t1;Parent=MS.gene45422.t1
chr8.3 exon 78715569 78715641 78715569 ID=MS.gene45422.t1.exon3;Parent=MS.gene45422.t1
chr8.3 CDS 78715569 78715641 78715569 ID=cds.MS.gene45422.t1;Parent=MS.gene45422.t1
Gene Sequence

>MS.gene45422

ATGGGACAAATCTTCGATAAATTACAAGGTTATTTTCTTTCTTCCTTTCCTGTTTTGGAATTACCTTTTTTGCTGATTTTTCTTTATCTTTTATTTTTTGGTTCCCACCTACAAATGATGTACATGGATGCAAATTTATTGAATCTTGAGATTTTCACAATTTCATAATTTGTTATATACCCTGTGTCTATGTGTGTGTGTTTGTTTTACAACAGCTTGATTTTAGAGGAGTTTAATTTAATCCTTGATTGTGTAAGTAACACAGTTTATTATGGAATTAAGGAAATTTAATTGGAGTCTTATGGTATGGCAAACATGTTTCTTAATTTAATCATTGATTGAATCTGAATGAGGTTAGTTTATTGATATATAACTTACCCTAAGATGATTGATCAACTCAAGTATGATTTCTGGCTTGGAGTTTGCTTTTGTCAGATATGGCTCACTTTACTGAATAGCGGGCCAGGTGGCACGAGCGGGGAGAGTATTTAAACATAAGTTGTATTTTGCAAACCTTAAGCTTGATTAATAGAAAGCTTTATAGCACTAACACTTTTGGTAGGTGTGTCCGGTGTCCCACACCTACACATCACTGACAGTCTGACACATGTGATTACATTTAATTGTCTTTTCTTAAATTACTATCAGTATCAACGTGTCAATGTTGTGTTCGATGTCTATGTCGGTGCTTCATAGATAAAAAGGTACTGCAGCCTCTATGTAGTCGGAGACGTAGGCACAATTGGCTGACCCTCCATGATCAAGTATCATGTGTTTTCTGTTTGTGTTTTTCGTATCTTTTTACTTTTGCACCAAGTTACTGTTCTAACAGCCTTTGAGCTGAAAAGTTGCATAAATCCATAGGCAGGGTTGATTGATTTATTTGTTATCTTCTGGATTTTTTTGCTTATTGTTATCTTCCATTTTTATGATAAATCATGTCATGTATTCATTCATGTACTCAAGGAATCTGGATTGAATGATAATGCAATTTTTATGCCATGACATTTAATGCAGGTGAGGAGTGGAGAAAAAAACAAATTAGGAAGATAACAGATCGAGTTTTTCAGAATGTAAAGAATCAAGTCGAAACAGAGTACTTGAGTTTTGAAGATTTGTATATTGCTGTTTTACTTGTCTACAAGTAAGAAGTCTGCTTCGTAGTTGTATTCAACATTTTATCTTAGTTGATAAGATTTTCTTTTGAATAATGAATAAATTTGAATAGATCTTATAACTGTTATCTCTTTCTATGTCATAGTGATATCAACAAGATTATTCCTGGTCCTCATTTCGATCCTCCATCAAAAGAAACTGTCAGACAAATCATGCAG

Protein sequence

>MS.gene45422.t1

MGQIFDKLQGEEWRKKQIRKITDRVFQNVKNQVETEYLSFEDLYIAVLLVYNDINKIIPGPHFDPPSKETVRQIMQ