AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene65508

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene65508.t1 MTR_1g043450 98.058 103 2 0 1 103 50 152 4.60e-68 201
MS.gene65508.t1 MTR_1g074040 71.845 103 29 0 1 103 49 151 9.30e-52 159
MS.gene65508.t1 MTR_1g073950 69.903 103 31 0 1 103 50 152 4.83e-50 155
MS.gene65508.t1 MTR_4g021340 54.808 104 45 1 1 102 51 154 6.09e-34 114
MS.gene65508.t1 MTR_4g058950 39.604 101 60 1 2 102 85 184 2.97e-19 78.2
MS.gene65508.t1 MTR_4g113590 63.043 46 17 0 1 46 9 54 1.31e-14 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene65508.t1 AT3G23200 67.647 102 33 0 1 102 23 124 4.73e-46 144
MS.gene65508.t1 AT3G23200 67.647 102 33 0 1 102 50 151 6.12e-46 145
MS.gene65508.t1 AT3G53850 52.885 104 47 1 1 102 50 153 8.89e-34 114
MS.gene65508.t1 AT3G53850 52.885 104 47 1 1 102 50 153 8.89e-34 114
MS.gene65508.t1 AT3G53850 52.885 104 47 1 1 102 37 140 9.51e-34 114
MS.gene65508.t1 AT5G02060 50.000 102 49 1 1 100 50 151 3.03e-25 92.8
MS.gene65508.t1 AT2G28370 44.000 100 55 1 3 102 80 178 7.28e-21 82.4
MS.gene65508.t1 AT2G37200 42.045 88 49 2 14 101 93 178 5.57e-19 77.4
MS.gene65508.t1 AT2G37200 42.045 88 49 2 14 101 122 207 1.03e-18 77.4

Find 21 sgRNAs with CRISPR-Local

Find 37 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTATTAACCAAAGCATTATT+AGG 0.170267 1.3:+26300376 None:intergenic
GATATGGGACATTGCCATTT+TGG 0.170837 1.3:-26300471 MS.gene65508:CDS
GCCTCTTTGTTGTTGGTGAT+TGG 0.275327 1.3:-26300925 MS.gene65508:CDS
CAATGGCTTTACAAATCATT+TGG 0.304130 1.3:-26301021 MS.gene65508:CDS
TTTGACACTCCTCTCCAAAA+TGG 0.331427 1.3:+26300457 None:intergenic
GCTGCAGCTTCTGCCTCGGC+TGG 0.369586 1.3:-26300516 MS.gene65508:CDS
CCTCTTTGTTGTTGGTGATT+GGG 0.376698 1.3:-26300924 MS.gene65508:intron
TATTAACCAAAGCATTATTA+GGG 0.389148 1.3:+26300377 None:intergenic
TTGATTAGCCTCTTTGTTGT+TGG 0.412424 1.3:-26300932 MS.gene65508:CDS
TATCATCCCTAATAATGCTT+TGG 0.418492 1.3:-26300383 MS.gene65508:CDS
TTCGTTGGATGCTTATGCTT+TGG 0.430874 1.3:-26300984 MS.gene65508:CDS
ATGCTTTGGTTAATAGCAGC+AGG 0.438809 1.3:-26300369 MS.gene65508:CDS
AGGCAAAAGCAACAGAAATC+TGG 0.443728 1.3:+26300430 None:intergenic
ACAAAGAGGCTAATCAATAC+AGG 0.449483 1.3:+26300938 None:intergenic
AATGGCAATGTCCCATATCA+TGG 0.478377 1.3:+26300475 None:intergenic
TCTAGCTGCAGCTTCTGCCT+CGG 0.535675 1.3:-26300520 MS.gene65508:CDS
CCCAATCACCAACAACAAAG+AGG 0.590501 1.3:+26300924 None:intergenic
CAAAGAGGCTAATCAATACA+GGG 0.608265 1.3:+26300939 None:intergenic
AATTGAGATCCAGCTCATGA+AGG 0.614269 1.3:+26300410 None:intergenic
TGCTTTGGTTAATAGCAGCA+GGG 0.625504 1.3:-26300368 MS.gene65508:CDS
CAAAACTGTAAGTCCAGCCG+AGG 0.662942 1.3:+26300503 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAGTTATAAGTTGTTTTCAT+AGG + chr1.3:26300712-26300731 None:intergenic 20.0%
!!! TATTAACCAAAGCATTATTA+GGG + chr1.3:26301010-26301029 None:intergenic 20.0%
! AAACAGTTTCACAAATTCTA+AGG + chr1.3:26300613-26300632 None:intergenic 25.0%
! TTGCTTCAAACAAATTAGTT+AGG + chr1.3:26300514-26300533 None:intergenic 25.0%
!! CTATTAACCAAAGCATTATT+AGG + chr1.3:26301011-26301030 None:intergenic 25.0%
!! TAGAATTTGTGAAACTGTTT+TGG - chr1.3:26300613-26300632 MS.gene65508:intron 25.0%
!!! TAACAAATGCTTGTTTTGAT+TGG - chr1.3:26300565-26300584 MS.gene65508:intron 25.0%
ATCCAAACAAGACTTAAGTT+TGG - chr1.3:26300811-26300830 MS.gene65508:intron 30.0%
TATCATCCCTAATAATGCTT+TGG - chr1.3:26301001-26301020 MS.gene65508:CDS 30.0%
TTATGCTTTGGTGAAAAAGA+AGG - chr1.3:26300412-26300431 MS.gene65508:CDS 30.0%
! GTTTTGTACTTCCATGATAT+GGG - chr1.3:26300898-26300917 MS.gene65508:intron 30.0%
!! AACCAAACTTAAGTCTTGTT+TGG + chr1.3:26300816-26300835 None:intergenic 30.0%
!! AGGTAATTTTGAAGAGCTTA+TGG + chr1.3:26300692-26300711 None:intergenic 30.0%
!! AGTTTTGTACTTCCATGATA+TGG - chr1.3:26300897-26300916 MS.gene65508:intron 30.0%
ACAAAGAGGCTAATCAATAC+AGG + chr1.3:26300449-26300468 None:intergenic 35.0%
CAAAGAGGCTAATCAATACA+GGG + chr1.3:26300448-26300467 None:intergenic 35.0%
!! TTCACAAATTCTAAGGCAAG+TGG + chr1.3:26300606-26300625 None:intergenic 35.0%
!! TTGATTAGCCTCTTTGTTGT+TGG - chr1.3:26300452-26300471 MS.gene65508:CDS 35.0%
AATGGCAATGTCCCATATCA+TGG + chr1.3:26300912-26300931 None:intergenic 40.0%
AATTGAGATCCAGCTCATGA+AGG + chr1.3:26300977-26300996 None:intergenic 40.0%
AGGCAAAAGCAACAGAAATC+TGG + chr1.3:26300957-26300976 None:intergenic 40.0%
ATGCTTTGGTTAATAGCAGC+AGG - chr1.3:26301015-26301034 MS.gene65508:CDS 40.0%
TGCTTTGGTTAATAGCAGCA+GGG - chr1.3:26301016-26301035 MS.gene65508:CDS 40.0%
TTCGTTGGATGCTTATGCTT+TGG - chr1.3:26300400-26300419 MS.gene65508:CDS 40.0%
TTTGACACTCCTCTCCAAAA+TGG + chr1.3:26300930-26300949 None:intergenic 40.0%
! GATATTGTTGCTGTTACCTG+TGG + chr1.3:26300844-26300863 None:intergenic 40.0%
!! CCTCTTTGTTGTTGGTGATT+GGG - chr1.3:26300460-26300479 MS.gene65508:CDS 40.0%
!! GATATGGGACATTGCCATTT+TGG - chr1.3:26300913-26300932 MS.gene65508:intron 40.0%
!! TAAGTTTGGTTCTTGACCAC+AGG - chr1.3:26300825-26300844 MS.gene65508:intron 40.0%
CCCAATCACCAACAACAAAG+AGG + chr1.3:26300463-26300482 None:intergenic 45.0%
!! GAGTTTTGTGCTTGCTTCGT+TGG - chr1.3:26300385-26300404 MS.gene65508:CDS 45.0%
!! GCCTCTTTGTTGTTGGTGAT+TGG - chr1.3:26300459-26300478 MS.gene65508:CDS 45.0%
!! TTGCTTTTGCCTTCATGAGC+TGG - chr1.3:26300965-26300984 MS.gene65508:CDS 45.0%
CAAAACTGTAAGTCCAGCCG+AGG + chr1.3:26300884-26300903 None:intergenic 50.0%
!!! GGGACATTGCCATTTTGGAG+AGG - chr1.3:26300918-26300937 MS.gene65508:intron 50.0%
TCTAGCTGCAGCTTCTGCCT+CGG - chr1.3:26300864-26300883 MS.gene65508:intron 55.0%
GCTGCAGCTTCTGCCTCGGC+TGG - chr1.3:26300868-26300887 MS.gene65508:intron 70.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 26300365 26301041 26300365 ID=MS.gene65508
chr1.3 mRNA 26300365 26301041 26300365 ID=MS.gene65508.t1;Parent=MS.gene65508
chr1.3 exon 26300925 26301041 26300925 ID=MS.gene65508.t1.exon1;Parent=MS.gene65508.t1
chr1.3 CDS 26300925 26301041 26300925 ID=cds.MS.gene65508.t1;Parent=MS.gene65508.t1
chr1.3 exon 26300365 26300559 26300365 ID=MS.gene65508.t1.exon2;Parent=MS.gene65508.t1
chr1.3 CDS 26300365 26300559 26300365 ID=cds.MS.gene65508.t1;Parent=MS.gene65508.t1
Gene Sequence

>MS.gene65508

ATGGCTTTACAAATCATTTGGAGTTTTGTGCTTGCTTCGTTGGATGCTTATGCTTTGGTGAAAAAGAAGGTTCTGCTTAACCCTGTATTGATTAGCCTCTTTGTTGTTGGTGATTGGGTTAGTCTCTTGAGTAAATCTATACTTTTCCTAACTAATTTGTTTGAAGCAATAAGACATGTTGATTATGATGCTTATCGTTTTAACAAATGCTTGTTTTGATTGGTTTATTTGAGCTTCTCCACTTGCCTTAGAATTTGTGAAACTGTTTTGGAGAGATTATTGAAACAACTTATGACATGTACATAAGCTGTTTTTAGCTTATTTCCATAAGCTCTTCAAAATTACCTATGAAAACAACTTATAACTTATATGAAAATAGTTTATAGTTATACATAAGCACTTTATATCATACTTGCTTGTGCTATAAGCACTTAATTAAGTTGTTTATCCAAACAAGACTTAAGTTTGGTTCTTGACCACAGGTAACAGCAACAATATCTCTAGCTGCAGCTTCTGCCTCGGCTGGACTTACAGTTTTGTACTTCCATGATATGGGACATTGCCATTTTGGAGAGGAGTGTCAAAAGTACCAGATTTCTGTTGCTTTTGCCTTCATGAGCTGGATCTCAATTTCAATATCATCCCTAATAATGCTTTGGTTAATAGCAGCAGGGTAG
Protein sequence

>MS.gene65508.t1

MALQIIWSFVLASLDAYALVKKKVLLNPVLISLFVVGDWVTATISLAAASASAGLTVLYFHDMGHCHFGEECQKYQISVAFAFMSWISISISSLIMLWLIAAG