AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene58210


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene58210.t1 MTR_4g130300 93.651 126 6 1 1 126 1 124 1.51e-66 198
MS.gene58210.t1 MTR_4g130300 90.909 88 6 1 1 88 1 86 4.90e-48 150
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene58210.t1 AT2G24090 81.818 55 10 0 71 125 66 120 6.74e-25 92.8

Find 29 sgRNAs with CRISPR-Local

Find 38 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGCATCAGCAAAGCGATTT+AGG 0.147866 8.2:+4371423 MS.gene58210:intron
CAAGATTGAACAAACCATTT+TGG 0.208259 8.2:-4371534 None:intergenic
GAAATTGAGACTCTCCAAAA+TGG 0.323830 8.2:+4371520 MS.gene58210:CDS
GGCATCAGCAAAGCGATTTA+GGG 0.327417 8.2:+4371424 MS.gene58210:intron
CGATTTAGGGTTACCGGTGC+TGG 0.339311 8.2:+4371437 MS.gene58210:CDS
TAGTAACCATGGAATGGTTT+TGG 0.345248 8.2:-4371263 None:intergenic
GCAAAGCGATTTAGGGTTAC+CGG 0.390331 8.2:+4371431 MS.gene58210:CDS
TCAATTCCCTCAAACTCAAT+TGG 0.415519 8.2:+4371211 MS.gene58210:CDS
AAAATCGTGCGTCGGAGAGC+AGG 0.438969 8.2:+4371461 MS.gene58210:CDS
GAATTGACATTGTTTGAGAA+AGG 0.445692 8.2:-4371195 None:intergenic
TACTAGACCAATTGAGTTTG+AGG 0.451953 8.2:-4371218 None:intergenic
ACTAGACCAATTGAGTTTGA+GGG 0.466679 8.2:-4371217 None:intergenic
CTCACTATCGTATCCGCTAA+AGG 0.476723 8.2:+4371300 MS.gene58210:CDS
AGGATAGGATAGAACCTTGT+GGG 0.517887 8.2:-4371337 None:intergenic
ACACACTCTTAACATGGCGT+TGG 0.535399 8.2:+4371074 None:intergenic
TCTTAACCAAAACCATTCCA+TGG 0.537305 8.2:+4371257 MS.gene58210:CDS
TTTCAATTTGTAGCCTTTAG+CGG 0.541342 8.2:-4371313 None:intergenic
CATGGCGTTGGCTTCTGCAA+CGG 0.545322 8.2:+4371086 None:intergenic
GCGAGGAGAAGTAGTAACCA+TGG 0.549868 8.2:-4371274 None:intergenic
CGAGTAGAGGAAGAAGAAGA+TGG 0.569694 8.2:-4371147 None:intergenic
GAGAAGTAGTAACCATGGAA+TGG 0.608033 8.2:-4371269 None:intergenic
AAGTCTCAAGGCGGCAAAGG+AGG 0.608560 8.2:-4371118 None:intergenic
TGAAAGTCTCAAGGCGGCAA+AGG 0.614182 8.2:-4371121 None:intergenic
GTAGAGGAAGAAGAAGATGG+TGG 0.614461 8.2:-4371144 None:intergenic
AGATGGTGGTGAAAGTCTCA+AGG 0.634963 8.2:-4371130 None:intergenic
ACTGAAAGAGACACGAGTAG+AGG 0.649199 8.2:-4371160 None:intergenic
GATACGATAGTGAGAGAGCG+AGG 0.653895 8.2:-4371291 None:intergenic
CTACAAATTGAAAACCCACA+AGG 0.682218 8.2:+4371323 MS.gene58210:CDS
TGGTGGTGAAAGTCTCAAGG+CGG 0.774344 8.2:-4371127 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTAATTGAATTTCATTTTTC+AGG + chr8.2:4371403-4371422 MS.gene58210:intron 15.0%
! ATACATAGTTAAACTTGAAG+TGG - chr8.2:4371372-4371391 None:intergenic 25.0%
! TACATAGTTAAACTTGAAGT+GGG - chr8.2:4371371-4371390 None:intergenic 25.0%
! TCTACAAAAAGAATAAGAAG+AGG + chr8.2:4371498-4371517 MS.gene58210:CDS 25.0%
GAATTGACATTGTTTGAGAA+AGG - chr8.2:4371198-4371217 None:intergenic 30.0%
TTTCAATTTGTAGCCTTTAG+CGG - chr8.2:4371316-4371335 None:intergenic 30.0%
! CAAGATTGAACAAACCATTT+TGG - chr8.2:4371537-4371556 None:intergenic 30.0%
!!! GAATGGTTTTGGTTAAGAAT+TGG - chr8.2:4371255-4371274 None:intergenic 30.0%
ACTAGACCAATTGAGTTTGA+GGG - chr8.2:4371220-4371239 None:intergenic 35.0%
CTACAAATTGAAAACCCACA+AGG + chr8.2:4371323-4371342 MS.gene58210:CDS 35.0%
GAAATTGAGACTCTCCAAAA+TGG + chr8.2:4371520-4371539 MS.gene58210:CDS 35.0%
TACTAGACCAATTGAGTTTG+AGG - chr8.2:4371221-4371240 None:intergenic 35.0%
TCAATTCCCTCAAACTCAAT+TGG + chr8.2:4371211-4371230 MS.gene58210:CDS 35.0%
TCTTAACCAAAACCATTCCA+TGG + chr8.2:4371257-4371276 MS.gene58210:CDS 35.0%
! TAGTAACCATGGAATGGTTT+TGG - chr8.2:4371266-4371285 None:intergenic 35.0%
!!! GTTTTGGTTAAGAATTGGAG+CGG - chr8.2:4371250-4371269 None:intergenic 35.0%
AGGATAGGATAGAACCTTGT+GGG - chr8.2:4371340-4371359 None:intergenic 40.0%
GAGAAGTAGTAACCATGGAA+TGG - chr8.2:4371272-4371291 None:intergenic 40.0%
! AAGTGGGTTTGAAAGAGGAT+AGG - chr8.2:4371355-4371374 None:intergenic 40.0%
! ACTTGAAGTGGGTTTGAAAG+AGG - chr8.2:4371360-4371379 None:intergenic 40.0%
ACTGAAAGAGACACGAGTAG+AGG - chr8.2:4371163-4371182 None:intergenic 45.0%
AGGCATCAGCAAAGCGATTT+AGG + chr8.2:4371423-4371442 MS.gene58210:intron 45.0%
CGAGTAGAGGAAGAAGAAGA+TGG - chr8.2:4371150-4371169 None:intergenic 45.0%
CTCACTATCGTATCCGCTAA+AGG + chr8.2:4371300-4371319 MS.gene58210:CDS 45.0%
GAGGATAGGATAGAACCTTG+TGG - chr8.2:4371341-4371360 None:intergenic 45.0%
GGCATCAGCAAAGCGATTTA+GGG + chr8.2:4371424-4371443 MS.gene58210:intron 45.0%
GTAGAGGAAGAAGAAGATGG+TGG - chr8.2:4371147-4371166 None:intergenic 45.0%
! AGATGGTGGTGAAAGTCTCA+AGG - chr8.2:4371133-4371152 None:intergenic 45.0%
! GCAAAGCGATTTAGGGTTAC+CGG + chr8.2:4371431-4371450 MS.gene58210:CDS 45.0%
GATACGATAGTGAGAGAGCG+AGG - chr8.2:4371294-4371313 None:intergenic 50.0%
GCGAGGAGAAGTAGTAACCA+TGG - chr8.2:4371277-4371296 None:intergenic 50.0%
GTGCTGGAAAAATCGTGCGT+CGG + chr8.2:4371453-4371472 MS.gene58210:CDS 50.0%
TGAAAGTCTCAAGGCGGCAA+AGG - chr8.2:4371124-4371143 None:intergenic 50.0%
! ACGCACGATTTTTCCAGCAC+CGG - chr8.2:4371453-4371472 None:intergenic 50.0%
! TGGTGGTGAAAGTCTCAAGG+CGG - chr8.2:4371130-4371149 None:intergenic 50.0%
AAAATCGTGCGTCGGAGAGC+AGG + chr8.2:4371461-4371480 MS.gene58210:CDS 55.0%
AAGTCTCAAGGCGGCAAAGG+AGG - chr8.2:4371121-4371140 None:intergenic 55.0%
! CGATTTAGGGTTACCGGTGC+TGG + chr8.2:4371437-4371456 MS.gene58210:CDS 55.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 4371087 4371571 4371087 ID=MS.gene58210
chr8.2 mRNA 4371087 4371571 4371087 ID=MS.gene58210.t1;Parent=MS.gene58210
chr8.2 exon 4371087 4371344 4371087 ID=MS.gene58210.t1.exon1;Parent=MS.gene58210.t1
chr8.2 CDS 4371087 4371344 4371087 ID=cds.MS.gene58210.t1;Parent=MS.gene58210.t1
chr8.2 exon 4371425 4371571 4371425 ID=MS.gene58210.t1.exon2;Parent=MS.gene58210.t1
chr8.2 CDS 4371425 4371571 4371425 ID=cds.MS.gene58210.t1;Parent=MS.gene58210.t1
Gene Sequence

>MS.gene58210

ATGGCGTTGGCTTCTGCAACGGTCACAGTCTCCTCCTTTGCCGCCTTGAGACTTTCACCACCATCTTCTTCTTCCTCTACTCGTGTCTCTTTCAGTTCAGTTAAATCACCTTTCTCAAACAATGTCAATTCCCTCAAACTCAATTGGTCTAGTAGTATTTCCGCTCCAATTCTTAACCAAAACCATTCCATGGTTACTACTTCTCCTCGCTCTCTCACTATCGTATCCGCTAAAGGCTACAAATTGAAAACCCACAAGGTTCTATCCTATCCTCTTTCAAACCCACTTCAAGTTTAACTATGTATCATTCATTATTTTAATTGAATTTCATTTTTCAGGCATCAGCAAAGCGATTTAGGGTTACCGGTGCTGGAAAAATCGTGCGTCGGAGAGCAGGAAAGCAACATTTGCTCTACAAAAAGAATAAGAAGAGGAAATTGAGACTCTCCAAAATGGTTTGTTCAATCTTGTTAACATGCTCTTAA

Protein sequence

>MS.gene58210.t1

MALASATVTVSSFAALRLSPPSSSSSTRVSFSSVKSPFSNNVNSLKLNWSSSISAPILNQNHSMVTTSPRSLTIVSAKGYKLKTHKASAKRFRVTGAGKIVRRRAGKQHLLYKKNKKRKLRLSKMVCSILLTCS