AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0178510


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0178510 MtrunA17_Chr1g0150771 100.000 93 0 0 1 93 378 470 3.95e-63 199
Msa0178510 MtrunA17_Chr4g0070891 70.000 90 26 1 3 92 331 419 4.20e-41 140
Msa0178510 MtrunA17_Chr2g0299761 81.356 59 11 0 36 94 1 59 1.14e-33 112
Msa0178510 MtrunA17_Chr1g0212591 36.275 102 49 2 3 88 232 333 3.83e-13 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0178510 AT5G12010.1 79.570 93 19 0 1 93 345 437 2.42e-51 168
Msa0178510 AT4G29780.1 68.478 92 29 0 1 92 383 474 7.38e-41 140

Find 18 sgRNAs with CRISPR-Local

Find 22 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTTGGATTGTTGGTAGTTC+AGG 0.230857 1_4:+65855160 Msa0178510:CDS
TAGTTCAGGGTATCCTTTAA+TGG 0.269828 1_4:+65855174 Msa0178510:CDS
CTCAAAGGTGTTTGGATTGT+TGG 0.301353 1_4:+65855151 Msa0178510:CDS
AGGGTATCCTTTAATGGATT+GGG 0.331257 1_4:+65855180 Msa0178510:CDS
ACTAAAACCCAATCCATTAA+AGG 0.331503 1_4:-65855187 None:intergenic
GAGGACTTCTCAAAGGTGTT+TGG 0.343408 1_4:+65855143 Msa0178510:CDS
CAGGGTATCCTTTAATGGAT+TGG 0.376667 1_4:+65855179 Msa0178510:CDS
GGTGGTCTTGTTTGCAGAAA+AGG 0.390719 1_4:+65855314 Msa0178510:CDS
TTTGGATTGTTGGTAGTTCA+GGG 0.411269 1_4:+65855161 Msa0178510:CDS
ATACTCAACAAAATCTTACT+TGG 0.425165 1_4:+65855215 Msa0178510:CDS
CATGGTTTCAATGAGAAGAT+TGG 0.432259 1_4:+65855244 Msa0178510:CDS
GATGCATTTGCTAGATTGAA+AGG 0.474433 1_4:+65855289 Msa0178510:CDS
TCTCACAAATGTTAAGCTAC+TGG 0.493745 1_4:-65855361 None:intergenic
CATTTGCTAGATTGAAAGGT+AGG 0.539789 1_4:+65855293 Msa0178510:CDS
TTTCAAAGGGCTAATAATGG+AGG 0.561620 1_4:+65855124 Msa0178510:CDS
AATCTTACTTGGACACAACA+TGG 0.563523 1_4:+65855226 Msa0178510:CDS
AATAATGGAGGACTTCTCAA+AGG 0.617005 1_4:+65855136 Msa0178510:CDS
TTGCTAGATTGAAAGGTAGG+TGG 0.638704 1_4:+65855296 Msa0178510:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GTAAGATTTTGTTGAGTATA+AGG - chr1_4:65855214-65855233 None:intergenic 25.0%
! ATACTCAACAAAATCTTACT+TGG + chr1_4:65855215-65855234 Msa0178510:CDS 25.0%
! TTTTCTAACACTTGATCATC+AGG - chr1_4:65855094-65855113 None:intergenic 30.0%
!!! AAAAATCAGCGCTTTTTCAA+AGG + chr1_4:65855110-65855129 Msa0178510:CDS 30.0%
!!! AAAATCAGCGCTTTTTCAAA+GGG + chr1_4:65855111-65855130 Msa0178510:CDS 30.0%
!!! CTTTTTCAAAGGGCTAATAA+TGG + chr1_4:65855121-65855140 Msa0178510:CDS 30.0%
ACTAAAACCCAATCCATTAA+AGG - chr1_4:65855190-65855209 None:intergenic 30.0%
TTTCAAAGGGCTAATAATGG+AGG + chr1_4:65855124-65855143 Msa0178510:CDS 35.0%
! AATAATGGAGGACTTCTCAA+AGG + chr1_4:65855136-65855155 Msa0178510:CDS 35.0%
!! TTTGGATTGTTGGTAGTTCA+GGG + chr1_4:65855161-65855180 Msa0178510:CDS 35.0%
! TAGTTCAGGGTATCCTTTAA+TGG + chr1_4:65855174-65855193 Msa0178510:CDS 35.0%
!! AGGGTATCCTTTAATGGATT+GGG + chr1_4:65855180-65855199 Msa0178510:CDS 35.0%
AATCTTACTTGGACACAACA+TGG + chr1_4:65855226-65855245 Msa0178510:CDS 35.0%
CATGGTTTCAATGAGAAGAT+TGG + chr1_4:65855244-65855263 Msa0178510:CDS 35.0%
! GATGCATTTGCTAGATTGAA+AGG + chr1_4:65855289-65855308 Msa0178510:CDS 35.0%
! CATTTGCTAGATTGAAAGGT+AGG + chr1_4:65855293-65855312 Msa0178510:CDS 35.0%
!! CTCAAAGGTGTTTGGATTGT+TGG + chr1_4:65855151-65855170 Msa0178510:CDS 40.0%
!! GTTTGGATTGTTGGTAGTTC+AGG + chr1_4:65855160-65855179 Msa0178510:CDS 40.0%
! CAGGGTATCCTTTAATGGAT+TGG + chr1_4:65855179-65855198 Msa0178510:CDS 40.0%
TTGCTAGATTGAAAGGTAGG+TGG + chr1_4:65855296-65855315 Msa0178510:CDS 40.0%
!! GAGGACTTCTCAAAGGTGTT+TGG + chr1_4:65855143-65855162 Msa0178510:CDS 45.0%
!! GGTGGTCTTGTTTGCAGAAA+AGG + chr1_4:65855314-65855333 Msa0178510:CDS 45.0%
Chromosome Type Strat End Strand Name
chr1_4 gene 65855088 65855372 65855088 ID=Msa0178510;Name=Msa0178510
chr1_4 mRNA 65855088 65855372 65855088 ID=Msa0178510-mRNA-1;Parent=Msa0178510;Name=Msa0178510-mRNA-1;_AED=0.14;_eAED=0.14;_QI=0|-1|0|1|-1|1|1|0|94
chr1_4 exon 65855088 65855372 65855088 ID=Msa0178510-mRNA-1:exon:21457;Parent=Msa0178510-mRNA-1
chr1_4 CDS 65855088 65855372 65855088 ID=Msa0178510-mRNA-1:cds;Parent=Msa0178510-mRNA-1
Gene Sequence

>Msa0178510

ATGCCTGATGATCAAGTGTTAGAAAAATCAGCGCTTTTTCAAAGGGCTAATAATGGAGGACTTCTCAAAGGTGTTTGGATTGTTGGTAGTTCAGGGTATCCTTTAATGGATTGGGTTTTAGTACCTTATACTCAACAAAATCTTACTTGGACACAACATGGTTTCAATGAGAAGATTGGTGAGATACAAAAAGTTGCTAAAGATGCATTTGCTAGATTGAAAGGTAGGTGGTCTTGTTTGCAGAAAAGGACTGAAGTTAAGCTACAAGATTTGCCAGTAGCTTAA

Protein sequence

>Msa0178510

MPDDQVLEKSALFQRANNGGLLKGVWIVGSSGYPLMDWVLVPYTQQNLTWTQHGFNEKIGEIQKVAKDAFARLKGRWSCLQKRTEVKLQDLPVA*