AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene45175

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene45175.t1 MTR_5g036820 92.593 81 6 0 1 81 6 86 7.47e-52 157
MS.gene45175.t1 MTR_5g036790 62.195 82 29 1 1 82 6 85 9.77e-32 106
MS.gene45175.t1 MTR_7g013525 40.964 83 46 2 1 82 1 81 5.65e-16 66.2
MS.gene45175.t1 MTR_6g008995 46.377 69 35 1 11 79 117 183 4.05e-14 65.9
MS.gene45175.t1 MTR_6g008995 46.377 69 35 1 11 79 60 126 4.34e-14 65.9
MS.gene45175.t1 MTR_6g008970 43.056 72 39 1 8 79 142 211 2.05e-13 63.9
MS.gene45175.t1 MTR_5g036670 42.029 69 38 1 11 79 125 191 7.09e-11 56.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene45175.t1 AT3G01320 48.387 62 30 1 18 79 60 119 1.05e-11 58.9
MS.gene45175.t1 AT3G01320 38.889 72 42 1 8 79 135 204 2.48e-11 58.2
MS.gene45175.t1 AT3G01320 48.387 62 30 1 18 79 60 119 1.07e-11 58.9
MS.gene45175.t1 AT3G01320 38.889 72 42 1 8 79 135 204 2.44e-11 58.2
MS.gene45175.t1 AT5G15020 40.278 72 41 1 8 79 129 198 1.85e-11 58.5
MS.gene45175.t1 AT5G15020 40.278 72 41 1 8 79 129 198 1.98e-11 58.2

Find 15 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAGCTATGTGCGCGAGGTGA+AGG 0.474033 5.1:+27332004 MS.gene45175:CDS
GGCCATGATGACCTCATTGA+TGG 0.490730 5.1:+27332563 MS.gene45175:CDS
TGAAAAGAATTTACGCTGAC+CGG 0.518590 5.1:+27331955 MS.gene45175:CDS
ACCCATCAATGAGGTCATCA+TGG 0.540419 5.1:-27332565 None:intergenic
TTACGCTGACCGGCCAGTGG+TGG 0.569040 5.1:+27331965 MS.gene45175:CDS
TGTTGGTAATGTTATTAGTG+AGG 0.580980 5.1:+27332204 MS.gene45175:CDS
ATAGAAAGAGAAAAGACTGT+TGG 0.583807 5.1:+27332187 MS.gene45175:CDS
GCCATGATGACCTCATTGAT+GGG 0.591592 5.1:+27332564 MS.gene45175:CDS
ACTGATAATCCACCACTGGC+CGG 0.602964 5.1:-27331974 None:intergenic
ATATACTGATAATCCACCAC+TGG 0.603993 5.1:-27331978 None:intergenic
AATTTACGCTGACCGGCCAG+TGG 0.644697 5.1:+27331962 MS.gene45175:CDS
ACAAATTTCATTCCTCTACG+TGG 0.649296 5.1:+27332590 MS.gene45175:CDS
CATATACACTAGCCACGTAG+AGG 0.658315 5.1:-27332602 None:intergenic
AATTTGTAAACCCATCAATG+AGG 0.691671 5.1:-27332574 None:intergenic
TATTTCGAGCTATGTGCGCG+AGG 0.697429 5.1:+27331998 MS.gene45175:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTAAAATAATATTTTTAT+TGG + chr5.1:27332311-27332330 MS.gene45175:intron 0.0%
!! CATGAAAAAAAATATCTATT+AGG - chr5.1:27332098-27332117 None:intergenic 15.0%
!! AAAAAACAATAGTGTGAAAT+AGG + chr5.1:27332336-27332355 MS.gene45175:intron 20.0%
!! AAAAACAATAGTGTGAAATA+GGG + chr5.1:27332337-27332356 MS.gene45175:intron 20.0%
!! AAGAGGAAAGAAAAATAAAA+AGG - chr5.1:27332487-27332506 None:intergenic 20.0%
!! TAAAAATTGTTTATGTCATG+TGG + chr5.1:27332385-27332404 MS.gene45175:intron 20.0%
!! TATATGTAATTGTAGTTTAG+AGG - chr5.1:27332462-27332481 None:intergenic 20.0%
!!! AATTATGATTTTACTTCTTC+AGG + chr5.1:27332523-27332542 MS.gene45175:intron 20.0%
!!! TGATAGCAATAGTATTTTTA+TGG - chr5.1:27332431-27332450 None:intergenic 20.0%
!! TGTTGTTTAATTATGTCATG+TGG + chr5.1:27332231-27332250 MS.gene45175:intron 25.0%
AATTTGTAAACCCATCAATG+AGG - chr5.1:27332577-27332596 None:intergenic 30.0%
ATAGAAAGAGAAAAGACTGT+TGG + chr5.1:27332187-27332206 MS.gene45175:CDS 30.0%
GGTGAAGGTAAGTTATATTA+TGG + chr5.1:27332019-27332038 MS.gene45175:intron 30.0%
TAAAATGAGTATTACGCAAG+AGG - chr5.1:27332504-27332523 None:intergenic 30.0%
TGTGGTCACAATTATAATTG+AGG + chr5.1:27332249-27332268 MS.gene45175:intron 30.0%
!! TGTTGGTAATGTTATTAGTG+AGG + chr5.1:27332204-27332223 MS.gene45175:CDS 30.0%
ACAAATTTCATTCCTCTACG+TGG + chr5.1:27332590-27332609 MS.gene45175:CDS 35.0%
ATATACTGATAATCCACCAC+TGG - chr5.1:27331981-27332000 None:intergenic 35.0%
GAGGCATAGTGAAATGATAT+TGG + chr5.1:27332268-27332287 MS.gene45175:intron 35.0%
TGAAAAGAATTTACGCTGAC+CGG + chr5.1:27331955-27331974 MS.gene45175:CDS 35.0%
ACCCATCAATGAGGTCATCA+TGG - chr5.1:27332568-27332587 None:intergenic 45.0%
GCCATGATGACCTCATTGAT+GGG + chr5.1:27332564-27332583 MS.gene45175:CDS 45.0%
! CAGGTTGCTGAGCTTTTTGA+AGG + chr5.1:27332542-27332561 MS.gene45175:intron 45.0%
ACTGATAATCCACCACTGGC+CGG - chr5.1:27331977-27331996 None:intergenic 50.0%
GGCCATGATGACCTCATTGA+TGG + chr5.1:27332563-27332582 MS.gene45175:CDS 50.0%
TATTTCGAGCTATGTGCGCG+AGG + chr5.1:27331998-27332017 MS.gene45175:CDS 50.0%
AATTTACGCTGACCGGCCAG+TGG + chr5.1:27331962-27331981 MS.gene45175:CDS 55.0%
GAGCTATGTGCGCGAGGTGA+AGG + chr5.1:27332004-27332023 MS.gene45175:CDS 60.0%
TTACGCTGACCGGCCAGTGG+TGG + chr5.1:27331965-27331984 MS.gene45175:CDS 65.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 27331954 27332616 27331954 ID=MS.gene45175
chr5.1 mRNA 27331954 27332616 27331954 ID=MS.gene45175.t1;Parent=MS.gene45175
chr5.1 exon 27331954 27332025 27331954 ID=MS.gene45175.t1.exon1;Parent=MS.gene45175.t1
chr5.1 CDS 27331954 27332025 27331954 ID=cds.MS.gene45175.t1;Parent=MS.gene45175.t1
chr5.1 exon 27332121 27332225 27332121 ID=MS.gene45175.t1.exon2;Parent=MS.gene45175.t1
chr5.1 CDS 27332121 27332225 27332121 ID=cds.MS.gene45175.t1;Parent=MS.gene45175.t1
chr5.1 exon 27332545 27332616 27332545 ID=MS.gene45175.t1.exon3;Parent=MS.gene45175.t1
chr5.1 CDS 27332545 27332616 27332545 ID=cds.MS.gene45175.t1;Parent=MS.gene45175.t1
Gene Sequence

>MS.gene45175

ATGAAAAGAATTTACGCTGACCGGCCAGTGGTGGATTATCAGTATATTTCGAGCTATGTGCGCGAGGTGAAGGTAAGTTATATTATGGATTCTTTCACACATATATGTTTTGAATGTAGAATTATCAATAGTTTTGATGAGCCTAATAGATATTTTTTTTCATGCAGAATCGATTTCAACATGCTGATCAACGTCATATATATTTATCGTTTCTAGAGATGCTGTCAAAGTATATAGAAAGAGAAAAGACTGTTGGTAATGTTATTAGTGAGGTATGTGTTGTTTAATTATGTCATGTGGTCACAATTATAATTGAGGCATAGTGAAATGATATTGGTAAAAACATTTTGAAACAACTTTTAAAATAATATTTTTATTGGAAAAAAAACAATAGTGTGAAATAGGGACAGAGAGAAAGAAAGAAAAAAAAGTAAAAATTGTTTATGTCATGTGGTCAAAATTACAATTGAGATACCATAAAAATACTATTGCTATCATAATTGCACCTCTAAACTACAATTACATATATGCCTTTTTATTTTTCTTTCCTCTTGCGTAATACTCATTTTAATTATGATTTTACTTCTTCAGGTTGCTGAGCTTTTTGAAGGCCATGATGACCTCATTGATGGGTTTACAAATTTCATTCCTCTACGTGGCTAG
Protein sequence

>MS.gene45175.t1

MKRIYADRPVVDYQYISSYVREVKNRFQHADQRHIYLSFLEMLSKYIEREKTVGNVISEVAELFEGHDDLIDGFTNFIPLRG