AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene59936

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 26 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAACATGTCCATCAAAGTT+TGG 0.287284 8.3:-12082390 None:intergenic
TACTCTCAACCAAACTTTGA+TGG 0.301864 8.3:+12082381 MS.gene59936:CDS
ATCAAGACAAAGAAGGTGAT+TGG 0.388129 8.3:+12082570 MS.gene59936:CDS
TTCTTCCTCCTACAATTAAC+CGG 0.390508 8.3:-12082214 None:intergenic
TTCTTGCTCAAGATATTTCA+TGG 0.399762 8.3:+12082594 MS.gene59936:CDS
GATGGCCTCCGGTTAATTGT+AGG 0.427386 8.3:+12082206 MS.gene59936:CDS
GATCACGTGGTCCCCATTGA+TGG 0.439591 8.3:+12082265 MS.gene59936:CDS
GATGATGAAGAAGCTCTTGT+TGG 0.454535 8.3:+12082184 None:intergenic
ATGGTTCTCATGATAATCAT+AGG 0.480012 8.3:+12082284 MS.gene59936:CDS
ATTATCATGAGAACCATCAA+TGG 0.488136 8.3:-12082278 None:intergenic
AGCTCTTGTTGGATGGCCTC+CGG 0.493311 8.3:+12082195 MS.gene59936:CDS
TGATCAACAACAGTATGAAC+TGG 0.501567 8.3:+12082544 MS.gene59936:CDS
GAATTACGTGAAGGTGAAGA+TGG 0.506755 8.3:+12082306 MS.gene59936:CDS
TTATCATGAGAACCATCAAT+GGG 0.508335 8.3:-12082277 None:intergenic
CTGGTTTATCAAGACAAAGA+AGG 0.557412 8.3:+12082563 MS.gene59936:CDS
GGTTGAGAGTATGAAATGAA+TGG 0.558722 8.3:-12082369 None:intergenic
TACGTGAAGGTGAAGATGGA+AGG 0.560134 8.3:+12082310 MS.gene59936:CDS
ATGAAGAAGCTCTTGTTGGA+TGG 0.580018 8.3:+12082188 MS.gene59936:CDS
GGCCTCCGGTTAATTGTAGG+AGG 0.613414 8.3:+12082209 MS.gene59936:CDS
AGGTGTAGGAATAGCTCGAA+AGG 0.621460 8.3:+12082330 MS.gene59936:CDS
AAGGTGAAGATGGAAGGTGT+AGG 0.649720 8.3:+12082316 MS.gene59936:CDS
TTCCTCCTACAATTAACCGG+AGG 0.665193 8.3:-12082211 None:intergenic
TAATCATAGGAATTACGTGA+AGG 0.675805 8.3:+12082297 MS.gene59936:CDS
TTGCTCAAGATATTTCATGG+AGG 0.720826 8.3:+12082597 MS.gene59936:CDS
AAATGATGTTGAAGATCACG+TGG 0.746908 8.3:+12082252 MS.gene59936:CDS
TATCATGAGAACCATCAATG+GGG 0.763816 8.3:-12082276 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTAGTAGTACTAATTATTT+TGG - chr8.3:12082457-12082476 None:intergenic 15.0%
! GTATATATAGTGTATATGCA+CGG + chr8.3:12082485-12082504 MS.gene59936:intron 25.0%
! TTAGTACTACTAATTAGTTG+AGG + chr8.3:12082463-12082482 MS.gene59936:intron 25.0%
ATGGTTCTCATGATAATCAT+AGG + chr8.3:12082284-12082303 MS.gene59936:CDS 30.0%
ATTATCATGAGAACCATCAA+TGG - chr8.3:12082281-12082300 None:intergenic 30.0%
TAATCATAGGAATTACGTGA+AGG + chr8.3:12082297-12082316 MS.gene59936:CDS 30.0%
TCATGTAGTTGGAAATTAAC+AGG + chr8.3:12082515-12082534 MS.gene59936:intron 30.0%
TTATCATGAGAACCATCAAT+GGG - chr8.3:12082280-12082299 None:intergenic 30.0%
TTCTTGCTCAAGATATTTCA+TGG + chr8.3:12082594-12082613 MS.gene59936:CDS 30.0%
AAATGATGTTGAAGATCACG+TGG + chr8.3:12082252-12082271 MS.gene59936:CDS 35.0%
ACGGCATTAATTCATGTAGT+TGG + chr8.3:12082504-12082523 MS.gene59936:intron 35.0%
ATCAAGACAAAGAAGGTGAT+TGG + chr8.3:12082570-12082589 MS.gene59936:CDS 35.0%
CAAACATGTCCATCAAAGTT+TGG - chr8.3:12082393-12082412 None:intergenic 35.0%
CTGGTTTATCAAGACAAAGA+AGG + chr8.3:12082563-12082582 MS.gene59936:CDS 35.0%
TACTCTCAACCAAACTTTGA+TGG + chr8.3:12082381-12082400 MS.gene59936:CDS 35.0%
TATCATGAGAACCATCAATG+GGG - chr8.3:12082279-12082298 None:intergenic 35.0%
TGATCAACAACAGTATGAAC+TGG + chr8.3:12082544-12082563 MS.gene59936:CDS 35.0%
TTCTTCCTCCTACAATTAAC+CGG - chr8.3:12082217-12082236 None:intergenic 35.0%
! GGTTGAGAGTATGAAATGAA+TGG - chr8.3:12082372-12082391 None:intergenic 35.0%
ATGAAGAAGCTCTTGTTGGA+TGG + chr8.3:12082188-12082207 MS.gene59936:CDS 40.0%
GAATTACGTGAAGGTGAAGA+TGG + chr8.3:12082306-12082325 MS.gene59936:CDS 40.0%
AGGTGTAGGAATAGCTCGAA+AGG + chr8.3:12082330-12082349 MS.gene59936:CDS 45.0%
TACGTGAAGGTGAAGATGGA+AGG + chr8.3:12082310-12082329 MS.gene59936:CDS 45.0%
TTCCTCCTACAATTAACCGG+AGG - chr8.3:12082214-12082233 None:intergenic 45.0%
! AAGGTGAAGATGGAAGGTGT+AGG + chr8.3:12082316-12082335 MS.gene59936:CDS 45.0%
GATGGCCTCCGGTTAATTGT+AGG + chr8.3:12082206-12082225 MS.gene59936:CDS 50.0%
AGCTCTTGTTGGATGGCCTC+CGG + chr8.3:12082195-12082214 MS.gene59936:CDS 55.0%
GATCACGTGGTCCCCATTGA+TGG + chr8.3:12082265-12082284 MS.gene59936:CDS 55.0%
GGCCTCCGGTTAATTGTAGG+AGG + chr8.3:12082209-12082228 MS.gene59936:CDS 55.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 12082185 12082618 12082185 ID=MS.gene59936
chr8.3 mRNA 12082185 12082618 12082185 ID=MS.gene59936.t1;Parent=MS.gene59936
chr8.3 exon 12082185 12082418 12082185 ID=MS.gene59936.t1.exon1;Parent=MS.gene59936.t1
chr8.3 CDS 12082185 12082418 12082185 ID=cds.MS.gene59936.t1;Parent=MS.gene59936.t1
chr8.3 exon 12082537 12082618 12082537 ID=MS.gene59936.t1.exon2;Parent=MS.gene59936.t1
chr8.3 CDS 12082537 12082618 12082537 ID=cds.MS.gene59936.t1;Parent=MS.gene59936.t1
Gene Sequence

>MS.gene59936

ATGATGAAGAAGCTCTTGTTGGATGGCCTCCGGTTAATTGTAGGAGGAAGAAAATTCGTTCTAATGAAAATGATGTTGAAGATCACGTGGTCCCCATTGATGGTTCTCATGATAATCATAGGAATTACGTGAAGGTGAAGATGGAAGGTGTAGGAATAGCTCGAAAGGTTAATCTTAGCATGCACCATTCATTTCATACTCTCAACCAAACTTTGATGGACATGTTTGAAAAATGTACGTCTTCTTTATTCAAATTTCTAATTAAATTTCCAAAATAATTAGTACTACTAATTAGTTGAGGTATATATAGTGTATATGCACGGCATTAATTCATGTAGTTGGAAATTAACAGGTGATCATGATCAACAACAGTATGAACTGGTTTATCAAGACAAAGAAGGTGATTGGCTTCTTGCTCAAGATATTTCATGGAG
Protein sequence

>MS.gene59936.t1

MMKKLLLDGLRLIVGGRKFVLMKMMLKITWSPLMVLMIIIGITURURWKVUEULERLILACTIHFILSTKLUWTCLKNVIMINNSMNWFIKTKKVIGFLLKIFHG