AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880045765.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880045765.01.T01 MTR_8g078270 97.561 82 2 0 9 90 107 188 1.35e-54 167
MsG0880045765.01.T01 MTR_4g103655 52.941 85 35 2 7 89 58 139 4.13e-22 84.0
MsG0880045765.01.T01 MTR_6g023460 54.118 85 34 3 7 89 60 141 1.05e-21 82.8
MsG0880045765.01.T01 MTR_4g103630 52.941 85 35 2 7 89 58 139 1.15e-21 82.8
MsG0880045765.01.T01 MTR_4g103650 51.765 85 36 2 7 89 54 135 6.65e-21 80.5
MsG0880045765.01.T01 MTR_3g089070 46.988 83 43 1 7 89 58 139 7.63e-18 72.8
MsG0880045765.01.T01 MTR_3g089090 46.988 83 43 1 7 89 57 138 7.95e-18 72.8
MsG0880045765.01.T01 MTR_5g017510 32.530 83 55 1 7 89 101 182 7.92e-11 55.8
MsG0880045765.01.T01 MTR_5g017560 32.530 83 55 1 7 89 101 182 7.92e-11 55.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880045765.01.T01 AT3G50770 54.444 90 36 1 6 90 115 204 7.21e-28 100
MsG0880045765.01.T01 AT3G01830 45.238 84 43 2 6 89 65 145 4.45e-19 76.3
MsG0880045765.01.T01 AT1G76650 41.975 81 46 1 9 89 97 176 8.42e-17 71.2
MsG0880045765.01.T01 AT1G76650 41.975 81 46 1 9 89 97 176 8.42e-17 71.2
MsG0880045765.01.T01 AT1G76650 41.975 81 46 1 9 89 87 166 9.01e-17 70.9
MsG0880045765.01.T01 AT5G42380 45.882 85 43 2 7 89 101 184 1.01e-15 68.6
MsG0880045765.01.T01 AT1G76640 42.169 83 44 2 10 89 77 158 2.79e-14 64.3

Find 18 sgRNAs with CRISPR-Local

Find 19 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATTTGATATTGATCATAAT+GGG 0.291826 8:+64013302 MsG0880045765.01.T01:CDS
GCATTTGATATTGATCATAA+TGG 0.322836 8:+64013301 MsG0880045765.01.T01:CDS
AACATCCTTTGCAACCCTTT+TGG 0.322939 8:-64013226 None:intergenic
GAAGGTTGTATTACTCCAAA+AGG 0.358609 8:+64013211 MsG0880045765.01.T01:CDS
CAATGAGTTTCATCAAATGA+TGG 0.411036 8:+64013336 MsG0880045765.01.T01:CDS
CAAAGGATGTTGCAACGTCT+TGG 0.455200 8:+64013238 MsG0880045765.01.T01:CDS
TGATGATAAAGATTTAAGAA+AGG 0.493170 8:+64013159 MsG0880045765.01.T01:CDS
ATGCCGACGGTGACAACTGT+TGG 0.508987 8:+64013091 MsG0880045765.01.T01:CDS
AAGGTTGTATTACTCCAAAA+GGG 0.532412 8:+64013212 MsG0880045765.01.T01:CDS
ATTAAGTTGATGAAAGGTGA+AGG 0.540993 8:+64013127 MsG0880045765.01.T01:CDS
ATAAATTACCTCGATGCCGA+CGG 0.561111 8:+64013078 None:intergenic
TTACTCCAAAAGGGTTGCAA+AGG 0.573176 8:+64013221 MsG0880045765.01.T01:CDS
TTTGTGTGCGAGGAGAAAGA+AGG 0.596923 8:+64013193 MsG0880045765.01.T01:CDS
ATTTGATATTGATCATAATG+GGG 0.620450 8:+64013303 MsG0880045765.01.T01:CDS
AAGTTGATGAAAGGTGAAGG+AGG 0.624388 8:+64013130 MsG0880045765.01.T01:CDS
TGCAACGTCTTGGAGATGAT+AGG 0.646741 8:+64013248 MsG0880045765.01.T01:CDS
AATCCAACAGTTGTCACCGT+CGG 0.675394 8:-64013094 None:intergenic
TAGGTCTTATGAAGAGTGTG+TGG 0.717207 8:+64013267 MsG0880045765.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTTGATATTGATCATAATG+GGG + Chr8:64013303-64013322 MsG0880045765.01.T01:CDS 20.0%
!! CATTTGATATTGATCATAAT+GGG + Chr8:64013302-64013321 MsG0880045765.01.T01:CDS 20.0%
!! TGATGATAAAGATTTAAGAA+AGG + Chr8:64013159-64013178 MsG0880045765.01.T01:CDS 20.0%
!!! GATTTTATTAAGTTGATGAA+AGG + Chr8:64013121-64013140 MsG0880045765.01.T01:CDS 20.0%
! GCATTTGATATTGATCATAA+TGG + Chr8:64013301-64013320 MsG0880045765.01.T01:CDS 25.0%
AAGGTTGTATTACTCCAAAA+GGG + Chr8:64013212-64013231 MsG0880045765.01.T01:CDS 30.0%
CAATGAGTTTCATCAAATGA+TGG + Chr8:64013336-64013355 MsG0880045765.01.T01:CDS 30.0%
!! ATTAAGTTGATGAAAGGTGA+AGG + Chr8:64013127-64013146 MsG0880045765.01.T01:CDS 30.0%
GAAGGTTGTATTACTCCAAA+AGG + Chr8:64013211-64013230 MsG0880045765.01.T01:CDS 35.0%
TTACTCCAAAAGGGTTGCAA+AGG + Chr8:64013221-64013240 MsG0880045765.01.T01:CDS 40.0%
! AACATCCTTTGCAACCCTTT+TGG - Chr8:64013229-64013248 None:intergenic 40.0%
! TAGGTCTTATGAAGAGTGTG+TGG + Chr8:64013267-64013286 MsG0880045765.01.T01:CDS 40.0%
!! AAGTTGATGAAAGGTGAAGG+AGG + Chr8:64013130-64013149 MsG0880045765.01.T01:CDS 40.0%
!!! TTTTGAGATGTTTGTGTGCG+AGG + Chr8:64013183-64013202 MsG0880045765.01.T01:CDS 40.0%
AATCCAACAGTTGTCACCGT+CGG - Chr8:64013097-64013116 None:intergenic 45.0%
CAAAGGATGTTGCAACGTCT+TGG + Chr8:64013238-64013257 MsG0880045765.01.T01:CDS 45.0%
TGCAACGTCTTGGAGATGAT+AGG + Chr8:64013248-64013267 MsG0880045765.01.T01:CDS 45.0%
TTTGTGTGCGAGGAGAAAGA+AGG + Chr8:64013193-64013212 MsG0880045765.01.T01:CDS 45.0%
ATGCCGACGGTGACAACTGT+TGG + Chr8:64013091-64013110 MsG0880045765.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr8 gene 64013091 64013363 64013091 ID=MsG0880045765.01;Name=MsG0880045765.01
Chr8 mRNA 64013091 64013363 64013091 ID=MsG0880045765.01.T01;Parent=MsG0880045765.01;Name=MsG0880045765.01.T01;_AED=0.39;_eAED=0.39;_QI=0|-1|0|1|-1|1|1|0|90
Chr8 exon 64013091 64013363 64013091 ID=MsG0880045765.01.T01:exon:24320;Parent=MsG0880045765.01.T01
Chr8 CDS 64013091 64013363 64013091 ID=MsG0880045765.01.T01:cds;Parent=MsG0880045765.01.T01
Gene Sequence

>MsG0880045765.01.T01

ATGCCGACGGTGACAACTGTTGGATTTCATGATTTTATTAAGTTGATGAAAGGTGAAGGAGGAAGAGATGATGATAAAGATTTAAGAAAGGCTTTTGAGATGTTTGTGTGCGAGGAGAAAGAAGGTTGTATTACTCCAAAAGGGTTGCAAAGGATGTTGCAACGTCTTGGAGATGATAGGTCTTATGAAGAGTGTGTGGTTATGATTGATGCATTTGATATTGATCATAATGGGGTTCTTGATTTCAATGAGTTTCATCAAATGATGGCTTAA

Protein sequence

>MsG0880045765.01.T01

MPTVTTVGFHDFIKLMKGEGGRDDDKDLRKAFEMFVCEEKEGCITPKGLQRMLQRLGDDRSYEECVVMIDAFDIDHNGVLDFNEFHQMMA*