AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene050504


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050504.t1 MTR_7g114590 97.814 183 4 0 1 183 1 183 4.39e-134 372
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050504.t1 AT1G54500 62.245 196 60 5 1 183 1 195 2.96e-64 196

Find 35 sgRNAs with CRISPR-Local

Find 48 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGAAAACTGTGCTTATTTA+TGG 0.158905 7.2:+2852174 MS.gene050504:CDS
GGGGTTGGTGTAATGGAGTT+TGG 0.242995 7.2:-2851755 None:intergenic
CTTGGTGGAAATTCTCTTAC+TGG 0.257542 7.2:+2852147 MS.gene050504:CDS
AACTGAAAACCAGGTGGAAT+TGG 0.298992 7.2:-2852015 None:intergenic
GGGTTGGTGTAATGGAGTTT+GGG 0.326512 7.2:-2851754 None:intergenic
GGAGTTTGGGTTTGAGAGGA+TGG 0.335353 7.2:-2851741 None:intergenic
TTGAAAAGCTTCCAGATGAT+TGG 0.347062 7.2:+2852037 MS.gene050504:CDS
TTTGCTCAGAATCAACAATA+TGG 0.354668 7.2:+2852123 MS.gene050504:CDS
AGAGGATGGATTTGAGAGAA+AGG 0.359838 7.2:-2851727 None:intergenic
TTTGTTGAAGTGATGGGTTT+TGG 0.373931 7.2:-2851794 None:intergenic
AAAGGGAGGGGTTGGTGTAA+TGG 0.410099 7.2:-2851762 None:intergenic
AGTAAAAGTGTTGAAATTGC+TGG 0.415161 7.2:+2852099 MS.gene050504:CDS
CAGTGAAGTTTCGTGGATGA+AGG 0.418966 7.2:-2851825 None:intergenic
AGGAGTTGAGAGATGGAAAG+TGG 0.425190 7.2:-2851707 None:intergenic
GTGGGACATCTCCAATCATC+TGG 0.448648 7.2:-2852048 None:intergenic
GAGTTTACAGTGAAGTTTCG+TGG 0.451202 7.2:-2851832 None:intergenic
CAGAATCAACAATATGGTCT+TGG 0.468077 7.2:+2852129 MS.gene050504:CDS
AAGTTCGCTGTGTTGAATAC+AGG 0.478954 7.2:+2851931 MS.gene050504:CDS
AATCAACAATATGGTCTTGG+TGG 0.481663 7.2:+2852132 MS.gene050504:CDS
TTTGAGTTTGTTGAAGTGAT+GGG 0.482647 7.2:-2851800 None:intergenic
GTTTGAGTTTGTTGAAGTGA+TGG 0.491302 7.2:-2851801 None:intergenic
GAGAGAAAGGAGTTGAGAGA+TGG 0.493471 7.2:-2851714 None:intergenic
AGTGAAGTTTCGTGGATGAA+GGG 0.530603 7.2:-2851824 None:intergenic
CCTTCGTATCCAATTCCACC+TGG 0.534697 7.2:+2852006 MS.gene050504:CDS
TAATGGAGTTTGGGTTTGAG+AGG 0.568113 7.2:-2851745 None:intergenic
ACTTTGTGCAGCACCACAAG+TGG 0.579838 7.2:-2852067 None:intergenic
GGTGGAAATTCTCTTACTGG+TGG 0.584178 7.2:+2852150 MS.gene050504:CDS
CCAGGTGGAATTGGATACGA+AGG 0.592505 7.2:-2852006 None:intergenic
GTGAAGTTTCGTGGATGAAG+GGG 0.593003 7.2:-2851823 None:intergenic
TATAAATATGATGAAGGTGT+AGG 0.596708 7.2:+2851979 MS.gene050504:CDS
TGTGGTTATAAATATGATGA+AGG 0.597525 7.2:+2851973 MS.gene050504:CDS
ATCTATGAATGTCGTTCATG+TGG 0.599864 7.2:+2851955 MS.gene050504:CDS
GATTGGAGATGTCCCACTTG+TGG 0.648504 7.2:+2852054 MS.gene050504:CDS
CTTTGTGCAGCACCACAAGT+GGG 0.685384 7.2:-2852066 None:intergenic
CAGGTGGAATTGGATACGAA+GGG 0.702702 7.2:-2852005 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TGTGGTTATAAATATGATGA+AGG + chr7.2:2851973-2851992 MS.gene050504:CDS 25.0%
!! TATAAATATGATGAAGGTGT+AGG + chr7.2:2851979-2851998 MS.gene050504:CDS 25.0%
CAGAAAACTGTGCTTATTTA+TGG + chr7.2:2852174-2852193 MS.gene050504:CDS 30.0%
TTTGCTCAGAATCAACAATA+TGG + chr7.2:2852123-2852142 MS.gene050504:CDS 30.0%
!! AGTAAAAGTGTTGAAATTGC+TGG + chr7.2:2852099-2852118 MS.gene050504:CDS 30.0%
!! TTTGAGTTTGTTGAAGTGAT+GGG - chr7.2:2851803-2851822 None:intergenic 30.0%
ATCTATGAATGTCGTTCATG+TGG + chr7.2:2851955-2851974 MS.gene050504:CDS 35.0%
CAGAATCAACAATATGGTCT+TGG + chr7.2:2852129-2852148 MS.gene050504:CDS 35.0%
TTGAAAAGCTTCCAGATGAT+TGG + chr7.2:2852037-2852056 MS.gene050504:CDS 35.0%
! AATCAACAATATGGTCTTGG+TGG + chr7.2:2852132-2852151 MS.gene050504:CDS 35.0%
! AGCTTTTCAAACTGAAAACC+AGG - chr7.2:2852027-2852046 None:intergenic 35.0%
! TTTTCAAACTGAAAACCAGG+TGG - chr7.2:2852024-2852043 None:intergenic 35.0%
!! GTTTGAGTTTGTTGAAGTGA+TGG - chr7.2:2851804-2851823 None:intergenic 35.0%
!!! GGTTTTGGAAAGGAGAAAAA+GGG - chr7.2:2851782-2851801 None:intergenic 35.0%
!!! TTCTTTGCACTTTTTCTCAG+TGG + chr7.2:2852210-2852229 MS.gene050504:CDS 35.0%
!!! TTTGTTGAAGTGATGGGTTT+TGG - chr7.2:2851797-2851816 None:intergenic 35.0%
AACTGAAAACCAGGTGGAAT+TGG - chr7.2:2852018-2852037 None:intergenic 40.0%
AAGTTCGCTGTGTTGAATAC+AGG + chr7.2:2851931-2851950 MS.gene050504:CDS 40.0%
AGTGAAGTTTCGTGGATGAA+GGG - chr7.2:2851827-2851846 None:intergenic 40.0%
CTTGGTGGAAATTCTCTTAC+TGG + chr7.2:2852147-2852166 MS.gene050504:CDS 40.0%
GAGTTTACAGTGAAGTTTCG+TGG - chr7.2:2851835-2851854 None:intergenic 40.0%
TTGGAAAGGAGAAAAAGGGA+GGG - chr7.2:2851778-2851797 None:intergenic 40.0%
TTTGGAAAGGAGAAAAAGGG+AGG - chr7.2:2851779-2851798 None:intergenic 40.0%
! AAACGACGTTTTTCTGAGTC+GGG - chr7.2:2851904-2851923 None:intergenic 40.0%
! AGAGGATGGATTTGAGAGAA+AGG - chr7.2:2851730-2851749 None:intergenic 40.0%
! CAAACGACGTTTTTCTGAGT+CGG - chr7.2:2851905-2851924 None:intergenic 40.0%
! TAATGGAGTTTGGGTTTGAG+AGG - chr7.2:2851748-2851767 None:intergenic 40.0%
!!! GGGTTTTGGAAAGGAGAAAA+AGG - chr7.2:2851783-2851802 None:intergenic 40.0%
!!! TGAAGTGATGGGTTTTGGAA+AGG - chr7.2:2851792-2851811 None:intergenic 40.0%
AGGAGTTGAGAGATGGAAAG+TGG - chr7.2:2851710-2851729 None:intergenic 45.0%
CAGGTGGAATTGGATACGAA+GGG - chr7.2:2852008-2852027 None:intergenic 45.0%
CAGTGAAGTTTCGTGGATGA+AGG - chr7.2:2851828-2851847 None:intergenic 45.0%
CGACTCAGAAAAACGTCGTT+TGG + chr7.2:2851903-2851922 MS.gene050504:CDS 45.0%
GAGAGAAAGGAGTTGAGAGA+TGG - chr7.2:2851717-2851736 None:intergenic 45.0%
GGTGGAAATTCTCTTACTGG+TGG + chr7.2:2852150-2852169 MS.gene050504:CDS 45.0%
GTGAAGTTTCGTGGATGAAG+GGG - chr7.2:2851826-2851845 None:intergenic 45.0%
TGGAAAGGAGAAAAAGGGAG+GGG - chr7.2:2851777-2851796 None:intergenic 45.0%
!! GGGTTGGTGTAATGGAGTTT+GGG - chr7.2:2851757-2851776 None:intergenic 45.0%
AAGGAGAAAAAGGGAGGGGT+TGG - chr7.2:2851773-2851792 None:intergenic 50.0%
ACTTTGTGCAGCACCACAAG+TGG - chr7.2:2852070-2852089 None:intergenic 50.0%
CCAGGTGGAATTGGATACGA+AGG - chr7.2:2852009-2852028 None:intergenic 50.0%
CCTTCGTATCCAATTCCACC+TGG + chr7.2:2852006-2852025 MS.gene050504:CDS 50.0%
CTTTGTGCAGCACCACAAGT+GGG - chr7.2:2852069-2852088 None:intergenic 50.0%
GATTGGAGATGTCCCACTTG+TGG + chr7.2:2852054-2852073 MS.gene050504:CDS 50.0%
GTGGGACATCTCCAATCATC+TGG - chr7.2:2852051-2852070 None:intergenic 50.0%
! GGAGTTTGGGTTTGAGAGGA+TGG - chr7.2:2851744-2851763 None:intergenic 50.0%
!! AAAGGGAGGGGTTGGTGTAA+TGG - chr7.2:2851765-2851784 None:intergenic 50.0%
!! GGGGTTGGTGTAATGGAGTT+TGG - chr7.2:2851758-2851777 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 2851697 2852248 2851697 ID=MS.gene050504
chr7.2 mRNA 2851697 2852248 2851697 ID=MS.gene050504.t1;Parent=MS.gene050504
chr7.2 exon 2851697 2852248 2851697 ID=MS.gene050504.t1.exon1;Parent=MS.gene050504.t1
chr7.2 CDS 2851697 2852248 2851697 ID=cds.MS.gene050504.t1;Parent=MS.gene050504.t1
Gene Sequence

>MS.gene050504

ATGGCTGCTTCCACTTTCCATCTCTCAACTCCTTTCTCTCAAATCCATCCTCTCAAACCCAAACTCCATTACACCAACCCCTCCCTTTTTCTCCTTTCCAAAACCCATCACTTCAACAAACTCAAACCCCTTCATCCACGAAACTTCACTGTAAACTCTGTAGACATCTCAAATGAAGAAGATACAACTTCAGAGTCTGAAAAACCCGACTCAGAAAAACGTCGTTTGGAAGAAAAGTTCGCTGTGTTGAATACAGGAATCTATGAATGTCGTTCATGTGGTTATAAATATGATGAAGGTGTAGGTGACCCTTCGTATCCAATTCCACCTGGTTTTCAGTTTGAAAAGCTTCCAGATGATTGGAGATGTCCCACTTGTGGTGCTGCACAAAGTTTCTTTGAAAGTAAAAGTGTTGAAATTGCTGGTTTTGCTCAGAATCAACAATATGGTCTTGGTGGAAATTCTCTTACTGGTGGTCAGAAAACTGTGCTTATTTATGGTACTTTGTTGTTTTTCTTTGCACTTTTTCTCAGTGGCTACTTCATACAATAG

Protein sequence

>MS.gene050504.t1

MAASTFHLSTPFSQIHPLKPKLHYTNPSLFLLSKTHHFNKLKPLHPRNFTVNSVDISNEEDTTSESEKPDSEKRRLEEKFAVLNTGIYECRSCGYKYDEGVGDPSYPIPPGFQFEKLPDDWRCPTCGAAQSFFESKSVEIAGFAQNQQYGLGGNSLTGGQKTVLIYGTLLFFFALFLSGYFIQ