AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1400600


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1400600 MtrunA17_Chr4g0058451 98.601 143 2 0 1 143 1 143 2.74e-104 293
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1400600 AT4G24700.1 40.945 127 60 5 16 134 24 143 2.60e-18 76.3

Find 24 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCAAATCAGTTCAACTAAA+AGG 0.265894 tig0022468:+24573 Msa1400600:CDS
TGTTCAATAACATGTCTTCT+AGG 0.280833 tig0022468:+24628 Msa1400600:CDS
CTTTCAACACTTCTAAATCT+TGG 0.352567 tig0022468:-24287 None:intergenic
GTTTCAAGAAGGATTGAAAC+AGG 0.360068 tig0022468:+24513 Msa1400600:CDS
GGGAGAGTAAGAATAGTCTT+AGG 0.363348 tig0022468:+24601 Msa1400600:CDS
GTTTCAAGCTTGAACCTTGA+AGG 0.364845 tig0022468:-24396 None:intergenic
ACACTTCTAAATCTTGGTTA+TGG 0.368826 tig0022468:-24281 None:intergenic
GAAACTGTTACAAGCTCATA+AGG 0.391839 tig0022468:-24495 None:intergenic
TGACTTTCAACACTCACTTT+GGG 0.415015 tig0022468:+24470 Msa1400600:CDS
ATTTCAGAGGTAAGCCTTCA+AGG 0.422597 tig0022468:+24382 Msa1400600:CDS
GTGACTTTCAACACTCACTT+TGG 0.455830 tig0022468:+24469 Msa1400600:CDS
CAGTTCAACTAAAAGGTAAG+AGG 0.483766 tig0022468:+24580 Msa1400600:CDS
TTCCCTAGTTGATGATGACT+TGG 0.515303 tig0022468:-24424 None:intergenic
AGCTTGTAACAGTTTCAAGA+AGG 0.526241 tig0022468:+24502 Msa1400600:CDS
TAACCAAGTCATCATCAACT+AGG 0.529261 tig0022468:+24421 Msa1400600:CDS
AAACTGTTACAAGCTCATAA+GGG 0.547351 tig0022468:-24494 None:intergenic
ACTCAAAGGCTTTACACTGC+CGG 0.552991 tig0022468:-24337 None:intergenic
AACCAAGTCATCATCAACTA+GGG 0.574505 tig0022468:+24422 Msa1400600:CDS
AGTTCAACTAAAAGGTAAGA+GGG 0.579214 tig0022468:+24581 Msa1400600:CDS
TGAAAGCTGTTGCACAAGCT+TGG 0.604295 tig0022468:+24304 Msa1400600:CDS
CGCGCGTCGAATTCACTCAA+AGG 0.612095 tig0022468:-24351 None:intergenic
TTTCAAGAAGGATTGAAACA+GGG 0.651798 tig0022468:+24514 Msa1400600:CDS
GCGCGTCGAAGAAATTTCAG+AGG 0.671191 tig0022468:+24369 Msa1400600:CDS
CAAGCTTGGTACAATCACTC+CGG 0.679934 tig0022468:+24318 Msa1400600:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTTTTCAGTGGATAATTTA+GGG - tig0022468:24665-24684 None:intergenic 20.0%
! AGACACAAAAATCATCAAAT+GGG - tig0022468:24554-24573 None:intergenic 25.0%
!!! CATTTTTCAGTGGATAATTT+AGG - tig0022468:24666-24685 None:intergenic 25.0%
ACACTTCTAAATCTTGGTTA+TGG - tig0022468:24284-24303 None:intergenic 30.0%
CTTTCAACACTTCTAAATCT+TGG - tig0022468:24290-24309 None:intergenic 30.0%
AAACTGTTACAAGCTCATAA+GGG - tig0022468:24497-24516 None:intergenic 30.0%
TTTCAAGAAGGATTGAAACA+GGG + tig0022468:24514-24533 Msa1400600:CDS 30.0%
GAGACACAAAAATCATCAAA+TGG - tig0022468:24555-24574 None:intergenic 30.0%
TCCAAATCAGTTCAACTAAA+AGG + tig0022468:24573-24592 Msa1400600:CDS 30.0%
!! ACCTTTTAGTTGAACTGATT+TGG - tig0022468:24577-24596 None:intergenic 30.0%
AGTTCAACTAAAAGGTAAGA+GGG + tig0022468:24581-24600 Msa1400600:CDS 30.0%
TGTTCAATAACATGTCTTCT+AGG + tig0022468:24628-24647 Msa1400600:CDS 30.0%
TAACCAAGTCATCATCAACT+AGG + tig0022468:24421-24440 Msa1400600:CDS 35.0%
AACCAAGTCATCATCAACTA+GGG + tig0022468:24422-24441 Msa1400600:CDS 35.0%
TGACTTTCAACACTCACTTT+GGG + tig0022468:24470-24489 Msa1400600:CDS 35.0%
GAAACTGTTACAAGCTCATA+AGG - tig0022468:24498-24517 None:intergenic 35.0%
AGCTTGTAACAGTTTCAAGA+AGG + tig0022468:24502-24521 Msa1400600:CDS 35.0%
GTTTCAAGAAGGATTGAAAC+AGG + tig0022468:24513-24532 Msa1400600:CDS 35.0%
CAGTTCAACTAAAAGGTAAG+AGG + tig0022468:24580-24599 Msa1400600:CDS 35.0%
ATTTCAGAGGTAAGCCTTCA+AGG + tig0022468:24382-24401 Msa1400600:CDS 40.0%
GTTTCAAGCTTGAACCTTGA+AGG - tig0022468:24399-24418 None:intergenic 40.0%
!! TTCCCTAGTTGATGATGACT+TGG - tig0022468:24427-24446 None:intergenic 40.0%
GTGACTTTCAACACTCACTT+TGG + tig0022468:24469-24488 Msa1400600:CDS 40.0%
GGGAGAGTAAGAATAGTCTT+AGG + tig0022468:24601-24620 Msa1400600:CDS 40.0%
TGAAAGCTGTTGCACAAGCT+TGG + tig0022468:24304-24323 Msa1400600:CDS 45.0%
CAAGCTTGGTACAATCACTC+CGG + tig0022468:24318-24337 Msa1400600:CDS 45.0%
ACTCAAAGGCTTTACACTGC+CGG - tig0022468:24340-24359 None:intergenic 45.0%
GCGCGTCGAAGAAATTTCAG+AGG + tig0022468:24369-24388 Msa1400600:CDS 50.0%
CGCGCGTCGAATTCACTCAA+AGG - tig0022468:24354-24373 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
tig0022468 gene 24255 24686 24255 ID=Msa1400600;Name=Msa1400600
tig0022468 mRNA 24255 24686 24255 ID=Msa1400600-mRNA-1;Parent=Msa1400600;Name=Msa1400600-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|143
tig0022468 exon 24255 24686 24255 ID=Msa1400600-mRNA-1:exon:17752;Parent=Msa1400600-mRNA-1
tig0022468 CDS 24255 24686 24255 ID=Msa1400600-mRNA-1:cds;Parent=Msa1400600-mRNA-1
Gene Sequence

>Msa1400600

ATGAAGAAGAAGCAACATCATGAAAACCATAACCAAGATTTAGAAGTGTTGAAAGCTGTTGCACAAGCTTGGTACAATCACTCCGGCAGTGTAAAGCCTTTGAGTGAATTCGACGCGCGTCGAAGAAATTTCAGAGGTAAGCCTTCAAGGTTCAAGCTTGAAACATTAACCAAGTCATCATCAACTAGGGAAACAAACTCTTCAACTTATTATTGTGACTTTCAACACTCACTTTGGGACCCTTATGAGCTTGTAACAGTTTCAAGAAGGATTGAAACAGGGTTAGCTTTAGATAACCCATTTGATGATTTTTGTGTCTCCAAATCAGTTCAACTAAAAGGTAAGAGGGAGAGTAAGAATAGTCTTAGGAATCTGTTCAATAACATGTCTTCTAGGCGATTTAATCTCCCTAAATTATCCACTGAAAAATGA

Protein sequence

>Msa1400600

MKKKQHHENHNQDLEVLKAVAQAWYNHSGSVKPLSEFDARRRNFRGKPSRFKLETLTKSSSTRETNSSTYYCDFQHSLWDPYELVTVSRRIETGLALDNPFDDFCVSKSVQLKGKRESKNSLRNLFNNMSSRRFNLPKLSTEK*