AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene94534

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene94534.t1 MTR_3g025380 79.032 124 26 0 3 126 2 125 3.25e-58 177
MS.gene94534.t1 MTR_3g025510 49.265 136 59 4 1 126 1 136 6.52e-33 113
MS.gene94534.t1 MTR_3g025550 90.698 43 4 0 84 126 6 48 1.86e-23 86.3
MS.gene94534.t1 MTR_3g025620 63.158 38 14 0 89 126 2 39 7.03e-12 56.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 22 sgRNAs with CRISPR-Local

Find 24 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAATCCCTTTCTACATTTAT+AGG 0.123833 3.2:-15594750 None:intergenic
TATCTGTTTGGCGGAGCTTT+TGG 0.296874 3.2:+15595007 MS.gene94534:CDS
GATTACGATTAGAATGCCTT+TGG 0.413240 3.2:-15594932 None:intergenic
ACGAAGGATGTATTATGAAA+TGG 0.423422 3.2:+15595072 MS.gene94534:CDS
GAACCTCGTTGATGAGGTTA+TGG 0.437573 3.2:-15594881 None:intergenic
TTATGGTGGCGAACAATAGA+AGG 0.439093 3.2:-15594864 None:intergenic
GAAGTCCTATAAATGTAGAA+AGG 0.457940 3.2:+15594745 MS.gene94534:CDS
AATGATGTGTTCTATCTGTT+TGG 0.466778 3.2:+15594995 MS.gene94534:CDS
AAGTCCTATAAATGTAGAAA+GGG 0.482950 3.2:+15594746 MS.gene94534:CDS
AATTAGAGTTGAAGAAGGAA+AGG 0.503387 3.2:+15594962 MS.gene94534:CDS
ATAACCTCATCAACGAGGTT+CGG 0.516089 3.2:+15594883 MS.gene94534:CDS
GATGTGTTCTATCTGTTTGG+CGG 0.555139 3.2:+15594998 MS.gene94534:CDS
GGATGTATTATGAAATGGCT+AGG 0.587358 3.2:+15595077 MS.gene94534:CDS
TGGTTGGATCGCAAGCAACT+CGG 0.597083 3.2:+15595027 MS.gene94534:CDS
CCTCGTTGATGAGGTTATGG+TGG 0.604309 3.2:-15594878 None:intergenic
TAATCCGAACCTCGTTGATG+AGG 0.608297 3.2:-15594887 None:intergenic
GAAATACTGAAACTATCCAA+AGG 0.644867 3.2:+15594916 MS.gene94534:CDS
TCGTGATACAAATGTGAACA+CGG 0.667380 3.2:-15595053 None:intergenic
TGTTCACATTTGTATCACGA+AGG 0.683248 3.2:+15595056 MS.gene94534:CDS
GCTCATCGTCGTCATACACA+TGG 0.711088 3.2:+15594807 MS.gene94534:CDS
ATGGTACAAATCGATCAACA+AGG 0.728585 3.2:+15594826 MS.gene94534:CDS
CCACCATAACCTCATCAACG+AGG 0.765219 3.2:+15594878 MS.gene94534:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAGTCCTATAAATGTAGAAA+GGG + chr3.2:15594746-15594765 MS.gene94534:CDS 25.0%
! TAATCCCTTTCTACATTTAT+AGG - chr3.2:15594753-15594772 None:intergenic 25.0%
AATGATGTGTTCTATCTGTT+TGG + chr3.2:15594995-15595014 MS.gene94534:CDS 30.0%
AATTAGAGTTGAAGAAGGAA+AGG + chr3.2:15594962-15594981 MS.gene94534:CDS 30.0%
ACGAAGGATGTATTATGAAA+TGG + chr3.2:15595072-15595091 MS.gene94534:CDS 30.0%
CCAAAAATTAGAGTTGAAGA+AGG + chr3.2:15594957-15594976 MS.gene94534:CDS 30.0%
GAAATACTGAAACTATCCAA+AGG + chr3.2:15594916-15594935 MS.gene94534:CDS 30.0%
GAAGTCCTATAAATGTAGAA+AGG + chr3.2:15594745-15594764 MS.gene94534:CDS 30.0%
! CCTTCTTCAACTCTAATTTT+TGG - chr3.2:15594960-15594979 None:intergenic 30.0%
ATGGTACAAATCGATCAACA+AGG + chr3.2:15594826-15594845 MS.gene94534:CDS 35.0%
GATTACGATTAGAATGCCTT+TGG - chr3.2:15594935-15594954 None:intergenic 35.0%
TCGTGATACAAATGTGAACA+CGG - chr3.2:15595056-15595075 None:intergenic 35.0%
TGTTCACATTTGTATCACGA+AGG + chr3.2:15595056-15595075 MS.gene94534:CDS 35.0%
ATAACCTCATCAACGAGGTT+CGG + chr3.2:15594883-15594902 MS.gene94534:CDS 40.0%
GATGTGTTCTATCTGTTTGG+CGG + chr3.2:15594998-15595017 MS.gene94534:CDS 40.0%
! TTATGGTGGCGAACAATAGA+AGG - chr3.2:15594867-15594886 None:intergenic 40.0%
TAATCCGAACCTCGTTGATG+AGG - chr3.2:15594890-15594909 None:intergenic 45.0%
! GAACCTCGTTGATGAGGTTA+TGG - chr3.2:15594884-15594903 None:intergenic 45.0%
! TATCTGTTTGGCGGAGCTTT+TGG + chr3.2:15595007-15595026 MS.gene94534:CDS 45.0%
CCACCATAACCTCATCAACG+AGG + chr3.2:15594878-15594897 MS.gene94534:CDS 50.0%
GCTCATCGTCGTCATACACA+TGG + chr3.2:15594807-15594826 MS.gene94534:CDS 50.0%
TGGTTGGATCGCAAGCAACT+CGG + chr3.2:15595027-15595046 MS.gene94534:CDS 50.0%
! CCTCGTTGATGAGGTTATGG+TGG - chr3.2:15594881-15594900 None:intergenic 50.0%
! TGTTTGGCGGAGCTTTTGGT+TGG + chr3.2:15595011-15595030 MS.gene94534:CDS 50.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 15594720 15595098 15594720 ID=MS.gene94534
chr3.2 mRNA 15594720 15595098 15594720 ID=MS.gene94534.t1;Parent=MS.gene94534
chr3.2 exon 15594720 15595098 15594720 ID=MS.gene94534.t1.exon1;Parent=MS.gene94534.t1
chr3.2 CDS 15594720 15595098 15594720 ID=cds.MS.gene94534.t1;Parent=MS.gene94534.t1
Gene Sequence

>MS.gene94534

ATGGAGCAACAACAACGTAATATAAGAAGTCCTATAAATGTAGAAAGGGATTATGTAATGATTCTTGATGCTGTTGATTTAAATCTCGCTCATCGTCGTCATACACATGGTACAAATCGATCAACAAGGTTCACTCTCTTGCGTCCTTCTATTGTTCGCCACCATAACCTCATCAACGAGGTTCGGATTACTATAAGAAATACTGAAACTATCCAAAGGCATTCTAATCGTAATCTTCCAAAAATTAGAGTTGAAGAAGGAAAGGAGTCTGAAGCAATGATGTGTTCTATCTGTTTGGCGGAGCTTTTGGTTGGATCGCAAGCAACTCGGTTGCCGTGTTCACATTTGTATCACGAAGGATGTATTATGAAATGGCTAG
Protein sequence

>MS.gene94534.t1

MEQQQRNIRSPINVERDYVMILDAVDLNLAHRRHTHGTNRSTRFTLLRPSIVRHHNLINEVRITIRNTETIQRHSNRNLPKIRVEEGKESEAMMCSICLAELLVGSQATRLPCSHLYHEGCIMKWL