AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480023599.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480023599.01.T01 MTR_8g096730 95.455 88 3 1 20 106 1 88 7.24e-55 168
MsG0480023599.01.T01 MTR_7g028415 80.645 31 6 0 76 106 81 111 3.58e-13 62.4
MsG0480023599.01.T01 MTR_7g028710 80.645 31 6 0 76 106 81 111 3.58e-13 62.4
MsG0480023599.01.T01 MTR_3g104750 68.571 35 11 0 69 103 85 119 1.28e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480023599.01.T01 AT5G13080 75.758 33 8 0 74 106 53 85 8.49e-14 63.5
MsG0480023599.01.T01 AT3G01970 75.000 32 8 0 75 106 52 83 1.15e-12 60.8

Find 22 sgRNAs with CRISPR-Local

Find 23 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTATTTCTTTGCCTCCTTTC+TGG 0.072162 4:-87481484 None:intergenic
TTAGTTGGTTTAACATTAAA+AGG 0.235904 4:-87481401 None:intergenic
GGTTTCCGGTGGAGAAAGTA+TGG 0.301787 4:+87481560 MsG0480023599.01.T01:CDS
ATATACTAGATGATGGTTTC+CGG 0.316230 4:+87481546 MsG0480023599.01.T01:CDS
GCATATGGTGAAGATGAGAT+AGG 0.329659 4:-87481374 None:intergenic
TTTAATGTTAAACCAACTAA+TGG 0.357254 4:+87481404 MsG0480023599.01.T01:CDS
TGAATATTAGAGCCATTAGT+TGG 0.435523 4:-87481416 None:intergenic
ACATTAAAAGGTGAAGCATA+TGG 0.441902 4:-87481389 None:intergenic
AACACTTCATGTTTCTCCAT+TGG 0.474081 4:-87481347 None:intergenic
CATATGGTGAAGATGAGATA+GGG 0.480605 4:-87481373 None:intergenic
GTGAAAGACAACAAATTCCT+AGG 0.482757 4:+87481593 MsG0480023599.01.T01:CDS
CAGATTGATATACTAGATGA+TGG 0.495665 4:+87481539 MsG0480023599.01.T01:CDS
TCTTATTACTTCAAAACCAA+TGG 0.501778 4:+87481331 MsG0480023599.01.T01:CDS
TTTCCCCATACTTTCTCCAC+CGG 0.530517 4:-87481565 None:intergenic
AAGGAGACTTCAAGCCAGAA+AGG 0.533731 4:+87481470 MsG0480023599.01.T01:CDS
GAGAAAGTATGGGGAAAAGA+TGG 0.549845 4:+87481571 MsG0480023599.01.T01:CDS
ATTAATAATGAGACGAACCT+AGG 0.566683 4:-87481610 None:intergenic
GTTTCCGGTGGAGAAAGTAT+GGG 0.605222 4:+87481561 MsG0480023599.01.T01:CDS
TACTAGATGATGGTTTCCGG+TGG 0.631774 4:+87481549 MsG0480023599.01.T01:CDS
GAGACTTCAAGCCAGAAAGG+AGG 0.650325 4:+87481473 MsG0480023599.01.T01:CDS
TTTCCGGTGGAGAAAGTATG+GGG 0.671158 4:+87481562 MsG0480023599.01.T01:CDS
ACAAATATGTATTTCAAACG+AGG 0.693150 4:+87481513 MsG0480023599.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGAATATCTAAAAACTAAAA+AGG + Chr4:87481451-87481470 MsG0480023599.01.T01:CDS 15.0%
!! TTTAATGTTAAACCAACTAA+TGG + Chr4:87481404-87481423 MsG0480023599.01.T01:CDS 20.0%
!!! TTAGTTGGTTTAACATTAAA+AGG - Chr4:87481404-87481423 None:intergenic 20.0%
! ACAAATATGTATTTCAAACG+AGG + Chr4:87481513-87481532 MsG0480023599.01.T01:CDS 25.0%
! TCTTATTACTTCAAAACCAA+TGG + Chr4:87481331-87481350 MsG0480023599.01.T01:CDS 25.0%
!!! TGGTTTTGAAGTAATAAGAA+AGG - Chr4:87481330-87481349 None:intergenic 25.0%
ACATTAAAAGGTGAAGCATA+TGG - Chr4:87481392-87481411 None:intergenic 30.0%
CAGATTGATATACTAGATGA+TGG + Chr4:87481539-87481558 MsG0480023599.01.T01:CDS 30.0%
TGAATATTAGAGCCATTAGT+TGG - Chr4:87481419-87481438 None:intergenic 30.0%
! ATATACTAGATGATGGTTTC+CGG + Chr4:87481546-87481565 MsG0480023599.01.T01:CDS 30.0%
AACACTTCATGTTTCTCCAT+TGG - Chr4:87481350-87481369 None:intergenic 35.0%
CATATGGTGAAGATGAGATA+GGG - Chr4:87481376-87481395 None:intergenic 35.0%
GTGAAAGACAACAAATTCCT+AGG + Chr4:87481593-87481612 MsG0480023599.01.T01:CDS 35.0%
! TTATTTCTTTGCCTCCTTTC+TGG - Chr4:87481487-87481506 None:intergenic 35.0%
GCATATGGTGAAGATGAGAT+AGG - Chr4:87481377-87481396 None:intergenic 40.0%
! GAGAAAGTATGGGGAAAAGA+TGG + Chr4:87481571-87481590 MsG0480023599.01.T01:CDS 40.0%
AAGGAGACTTCAAGCCAGAA+AGG + Chr4:87481470-87481489 MsG0480023599.01.T01:CDS 45.0%
TTTCCCCATACTTTCTCCAC+CGG - Chr4:87481568-87481587 None:intergenic 45.0%
! GTTTCCGGTGGAGAAAGTAT+GGG + Chr4:87481561-87481580 MsG0480023599.01.T01:CDS 45.0%
! TACTAGATGATGGTTTCCGG+TGG + Chr4:87481549-87481568 MsG0480023599.01.T01:CDS 45.0%
! TTTCCGGTGGAGAAAGTATG+GGG + Chr4:87481562-87481581 MsG0480023599.01.T01:CDS 45.0%
GAGACTTCAAGCCAGAAAGG+AGG + Chr4:87481473-87481492 MsG0480023599.01.T01:CDS 50.0%
GGTTTCCGGTGGAGAAAGTA+TGG + Chr4:87481560-87481579 MsG0480023599.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr4 gene 87481293 87481631 87481293 ID=MsG0480023599.01;Name=MsG0480023599.01
Chr4 mRNA 87481293 87481631 87481293 ID=MsG0480023599.01.T01;Parent=MsG0480023599.01;Name=MsG0480023599.01.T01;_AED=0.58;_eAED=0.58;_QI=0|-1|0|1|-1|1|1|0|112
Chr4 exon 87481293 87481631 87481293 ID=MsG0480023599.01.T01:exon:6560;Parent=MsG0480023599.01.T01
Chr4 CDS 87481293 87481631 87481293 ID=MsG0480023599.01.T01:cds;Parent=MsG0480023599.01.T01
Gene Sequence

>MsG0480023599.01.T01

ATGCATAATTTTTGGTGTAGTCTTTTACGTACTACCTTTCTTATTACTTCAAAACCAATGGAGAAACATGAAGTGTTACTCCCTATCTCATCTTCACCATATGCTTCACCTTTTAATGTTAAACCAACTAATGGCTCTAATATTCATGTTAAAAAAGCAGAATATCTAAAAACTAAAAAGGAGACTTCAAGCCAGAAAGGAGGCAAAGAAATAATGAAGCACAAATATGTATTTCAAACGAGGAGTCAGATTGATATACTAGATGATGGTTTCCGGTGGAGAAAGTATGGGGAAAAGATGGTGAAAGACAACAAATTCCTAGGTTCGTCTCATTATTAA
Protein sequence

>MsG0480023599.01.T01

MHNFWCSLLRTTFLITSKPMEKHEVLLPISSSPYASPFNVKPTNGSNIHVKKAEYLKTKKETSSQKGGKEIMKHKYVFQTRSQIDILDDGFRWRKYGEKMVKDNKFLGSSHY*