AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene24731

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene24731.t1 MTR_7g104870 98.113 106 2 0 1 106 51 156 6.83e-74 216
MS.gene24731.t1 MTR_1g112020 54.206 107 48 1 1 106 1 107 2.60e-38 124
MS.gene24731.t1 MTR_1g112040 55.140 107 47 1 1 106 1 107 9.06e-38 123
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene24731.t1 AT4G18590 58.491 106 44 0 1 106 1 106 2.64e-46 144
MS.gene24731.t1 AT3G52630 55.140 107 47 1 1 106 1 107 7.44e-42 133
MS.gene24731.t1 AT3G52630 55.140 107 47 1 1 106 1 107 7.44e-42 133

Find 22 sgRNAs with CRISPR-Local

Find 33 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACCCTTCTTCCGACATAAA+AGG 0.241109 7.1:+6755220 None:intergenic
ACAAGGACTGCAGGGCTTAA+TGG 0.275580 7.1:+6755260 None:intergenic
GAGAAGCAGTTGATTGTAAA+AGG 0.288767 7.1:-6755137 MS.gene24731:CDS
ACCAACTTTGGTGATGAAAT+TGG 0.344480 7.1:-6755032 MS.gene24731:intron
TTGCAAGCTGACATAGCTTA+TGG 0.355631 7.1:+6754826 None:intergenic
GGTCCATAACTCAGCTTTGA+TGG 0.369681 7.1:+6755052 None:intergenic
ACAATCAACTGCTTCTCATC+TGG 0.376539 7.1:+6755143 None:intergenic
ACCAATTTCATCACCAAAGT+TGG 0.430140 7.1:+6755031 None:intergenic
ACAAAACTTGTAAGAGGAGC+AGG 0.439485 7.1:+6755107 None:intergenic
ACTTCTACAAAACTTGTAAG+AGG 0.459678 7.1:+6755101 None:intergenic
GCTGAGTTATGGACCAACTT+TGG 0.463853 7.1:-6755044 MS.gene24731:CDS
TCTGCATTGACAAGGACTGC+AGG 0.468536 7.1:+6755251 None:intergenic
ACCCTTCTTCCGACATAAAA+GGG 0.468915 7.1:+6755221 None:intergenic
AAGCTATGTCAGCTTGCAAA+TGG 0.472567 7.1:-6754822 MS.gene24731:CDS
TCTGACGCTCTAGCTGTCAT+TGG 0.479697 7.1:-6755173 MS.gene24731:CDS
AGTCCATCAAAGCTGAGTTA+TGG 0.498331 7.1:-6755055 MS.gene24731:CDS
AAGGGTTCGTACAGTGATGC+AGG 0.527340 7.1:-6755204 MS.gene24731:CDS
CTGCATTGACAAGGACTGCA+GGG 0.550141 7.1:+6755252 None:intergenic
CAAAACTTGTAAGAGGAGCA+GGG 0.615820 7.1:+6755108 None:intergenic
AAAACTTGTAAGAGGAGCAG+GGG 0.643901 7.1:+6755109 None:intergenic
GCAACAGTTCTGCATTGACA+AGG 0.657999 7.1:+6755243 None:intergenic
AAACTTGTAAGAGGAGCAGG+GGG 0.714728 7.1:+6755110 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GTAATGATATTTATTCTCTA+TGG - chr7.1:6755124-6755143 MS.gene24731:CDS 20.0%
!! TTGAAATTTCACTTATAACA+AGG + chr7.1:6755151-6755170 None:intergenic 20.0%
!!! ACAAGTTTTGTAGAAGTTAT+TGG - chr7.1:6754968-6754987 MS.gene24731:intron 25.0%
ACTTCTACAAAACTTGTAAG+AGG + chr7.1:6754965-6754984 None:intergenic 30.0%
TTCTAAGCATATTAAGCTGT+GGG - chr7.1:6755173-6755192 MS.gene24731:CDS 30.0%
TTTCTAAGCATATTAAGCTG+TGG - chr7.1:6755172-6755191 MS.gene24731:CDS 30.0%
! TTTATTCCCTTTTCTCAAAC+TGG - chr7.1:6755062-6755081 MS.gene24731:CDS 30.0%
ACCAATTTCATCACCAAAGT+TGG + chr7.1:6755035-6755054 None:intergenic 35.0%
ATGACAACCAGTTTGAGAAA+AGG + chr7.1:6755072-6755091 None:intergenic 35.0%
GAGAAGCAGTTGATTGTAAA+AGG - chr7.1:6754926-6754945 MS.gene24731:intron 35.0%
TGACAACCAGTTTGAGAAAA+GGG + chr7.1:6755071-6755090 None:intergenic 35.0%
!! ACCAACTTTGGTGATGAAAT+TGG - chr7.1:6755031-6755050 MS.gene24731:intron 35.0%
AAAACTTGTAAGAGGAGCAG+GGG + chr7.1:6754957-6754976 None:intergenic 40.0%
AACCCTTCTTCCGACATAAA+AGG + chr7.1:6754846-6754865 None:intergenic 40.0%
AAGCTATGTCAGCTTGCAAA+TGG - chr7.1:6755241-6755260 MS.gene24731:CDS 40.0%
ACAAAACTTGTAAGAGGAGC+AGG + chr7.1:6754959-6754978 None:intergenic 40.0%
ACAATCAACTGCTTCTCATC+TGG + chr7.1:6754923-6754942 None:intergenic 40.0%
ACCCTTCTTCCGACATAAAA+GGG + chr7.1:6754845-6754864 None:intergenic 40.0%
AGTCCATCAAAGCTGAGTTA+TGG - chr7.1:6755008-6755027 MS.gene24731:intron 40.0%
CAAAACTTGTAAGAGGAGCA+GGG + chr7.1:6754958-6754977 None:intergenic 40.0%
TTGCAAGCTGACATAGCTTA+TGG + chr7.1:6755240-6755259 None:intergenic 40.0%
! GAACTGTTGCCCTTTTATGT+CGG - chr7.1:6754833-6754852 MS.gene24731:CDS 40.0%
AAACTTGTAAGAGGAGCAGG+GGG + chr7.1:6754956-6754975 None:intergenic 45.0%
GCTGAGTTATGGACCAACTT+TGG - chr7.1:6755019-6755038 MS.gene24731:intron 45.0%
! GCAACAGTTCTGCATTGACA+AGG + chr7.1:6754823-6754842 None:intergenic 45.0%
! GCCCTTTTATGTCGGAAGAA+GGG - chr7.1:6754841-6754860 MS.gene24731:CDS 45.0%
! GGTCCATAACTCAGCTTTGA+TGG + chr7.1:6755014-6755033 None:intergenic 45.0%
! TGCCCTTTTATGTCGGAAGA+AGG - chr7.1:6754840-6754859 MS.gene24731:CDS 45.0%
AAGGGTTCGTACAGTGATGC+AGG - chr7.1:6754859-6754878 MS.gene24731:intron 50.0%
ACAAGGACTGCAGGGCTTAA+TGG + chr7.1:6754806-6754825 None:intergenic 50.0%
TCTGACGCTCTAGCTGTCAT+TGG - chr7.1:6754890-6754909 MS.gene24731:intron 50.0%
! CTGCATTGACAAGGACTGCA+GGG + chr7.1:6754814-6754833 None:intergenic 50.0%
! TCTGCATTGACAAGGACTGC+AGG + chr7.1:6754815-6754834 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 6754797 6755288 6754797 ID=MS.gene24731
chr7.1 mRNA 6754797 6755288 6754797 ID=MS.gene24731.t1;Parent=MS.gene24731
chr7.1 exon 6755033 6755288 6755033 ID=MS.gene24731.t1.exon1;Parent=MS.gene24731.t1
chr7.1 CDS 6755033 6755288 6755033 ID=cds.MS.gene24731.t1;Parent=MS.gene24731.t1
chr7.1 exon 6754797 6754861 6754797 ID=MS.gene24731.t1.exon2;Parent=MS.gene24731.t1
chr7.1 CDS 6754797 6754861 6754797 ID=cds.MS.gene24731.t1;Parent=MS.gene24731.t1
Gene Sequence

>MS.gene24731

ATGGATCCATTAAGCCCTGCAGTCCTTGTCAATGCAGAACTGTTGCCCTTTTATGTCGGAAGAAGGGTTCGTACAGTGATGCAGGTTGTGCGATCTGACGCTCTAGCTGTCATTGGAAAATCACCAGATGAGAAGCAGTTGATTGTAAAAGGATCACCCCCTGCTCCTCTTACAAGTTTTGTAGAAGTTATTGGTATTGTTAACAGTGACAAGTCCATCAAAGCTGAGTTATGGACCAACTTTGGTGATGAAATTGGTATTGTTTTTTATTCCCTTTTCTCAAACTGGTTGTCATATTGATTTTGAGACATGACTCTTAAACTTAATGTAATGATATTTATTCTCTATGGTCCTTGTTATAAGTGAAATTTCAAATTTCTAAGCATATTAAGCTGTGGGTTTTGATATTGTTTCAATGCTTTTGCAGATATGCTCAGCTACCATAAGCTATGTCAGCTTGCAAATGGAGAATTTAAACACTTGTTCCTGTGA
Protein sequence

>MS.gene24731.t1

MDPLSPAVLVNAELLPFYVGRRVRTVMQVVRSDALAVIGKSPDEKQLIVKGSPPAPLTSFVEVIGIVNSDKSIKAELWTNFGDEIDMLSYHKLCQLANGEFKHLFL