AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180005280.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180005280.01.T01 MTR_1g096290 95.745 141 6 0 1 141 16 156 3.45e-90 259
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 25 sgRNAs with CRISPR-Local

Find 31 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATTAGAGTATTCTTCTTCT+TGG 0.271665 1:-89579635 None:intergenic
TGAAGAAAATTTGGTCTCTA+AGG 0.272080 1:+89579373 MsG0180005280.01.T01:CDS
TCATTGATTCACCTCCTCTT+TGG 0.306386 1:+89579282 MsG0180005280.01.T01:CDS
GTTGGTATTGTCAATTGTTA+AGG 0.344378 1:-89579519 None:intergenic
AGATTGCTATGAAGAAAATT+TGG 0.347198 1:+89579364 MsG0180005280.01.T01:CDS
CAACATACTAGGCTTGTTCT+TGG 0.347316 1:-89579558 None:intergenic
TTTACCATGGGAATTGTTGA+TGG 0.422136 1:-89579612 None:intergenic
GGTTTGAATAAGAGCATTGT+TGG 0.435641 1:-89579537 None:intergenic
TCTTCTTCTTGGTTTACCAT+GGG 0.472232 1:-89579624 None:intergenic
AAGAGAATTAGAAGATGAAG+AGG 0.486670 1:+89579442 MsG0180005280.01.T01:CDS
TTCAACATCACCAACATACT+AGG 0.487556 1:-89579569 None:intergenic
TTCTTCTTCTTGGTTTACCA+TGG 0.505588 1:-89579625 None:intergenic
TAGTATGTTGGTGATGTTGA+AGG 0.521701 1:+89579571 MsG0180005280.01.T01:CDS
TTGGTAGGAGTTATTAGAAG+AGG 0.526182 1:-89579321 None:intergenic
GAAGAAAATTTGGTCTCTAA+GGG 0.529495 1:+89579374 MsG0180005280.01.T01:CDS
TCCAATGGATTTACTGTGGG+AGG 0.534859 1:+89579466 MsG0180005280.01.T01:CDS
ATCTCTTAGGACTTGTTGGT+AGG 0.539953 1:-89579336 None:intergenic
ACCTCCCACAGTAAATCCAT+TGG 0.541852 1:-89579467 None:intergenic
ATTTGGTCTCTAAGGGTCAA+AGG 0.552557 1:+89579381 MsG0180005280.01.T01:CDS
CAAGAACAAGCCTAGTATGT+TGG 0.574663 1:+89579559 MsG0180005280.01.T01:CDS
AGAAGATGAAGAGGTTCCAA+TGG 0.580814 1:+89579451 MsG0180005280.01.T01:CDS
GGTTCCAATGGATTTACTGT+GGG 0.593514 1:+89579463 MsG0180005280.01.T01:CDS
AGGTTCCAATGGATTTACTG+TGG 0.621331 1:+89579462 MsG0180005280.01.T01:CDS
GTTGATGATGAATTCCAAAG+AGG 0.646160 1:-89579296 None:intergenic
GATGATGAATTCCAAAGAGG+AGG 0.691192 1:-89579293 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATAAGTGTCATTAATTTTT+GGG - Chr1:89579256-89579275 None:intergenic 15.0%
!!! GAATAAGTGTCATTAATTTT+TGG - Chr1:89579257-89579276 None:intergenic 20.0%
! AGATTGCTATGAAGAAAATT+TGG + Chr1:89579364-89579383 MsG0180005280.01.T01:CDS 25.0%
!!! AGCAATCTTTTTTATCTCTT+AGG - Chr1:89579352-89579371 None:intergenic 25.0%
AAGAGAATTAGAAGATGAAG+AGG + Chr1:89579442-89579461 MsG0180005280.01.T01:CDS 30.0%
GAAGAAAATTTGGTCTCTAA+GGG + Chr1:89579374-89579393 MsG0180005280.01.T01:CDS 30.0%
GTTGGTATTGTCAATTGTTA+AGG - Chr1:89579522-89579541 None:intergenic 30.0%
TGAAGAAAATTTGGTCTCTA+AGG + Chr1:89579373-89579392 MsG0180005280.01.T01:CDS 30.0%
! AGCTTTTCAGCTATACAAAA+TGG + Chr1:89579407-89579426 MsG0180005280.01.T01:CDS 30.0%
! TTTTATCTCTTAGGACTTGT+TGG - Chr1:89579343-89579362 None:intergenic 30.0%
TCTTCTTCTTGGTTTACCAT+GGG - Chr1:89579627-89579646 None:intergenic 35.0%
TTCAACATCACCAACATACT+AGG - Chr1:89579572-89579591 None:intergenic 35.0%
TTCTTCTTCTTGGTTTACCA+TGG - Chr1:89579628-89579647 None:intergenic 35.0%
TTGGTAGGAGTTATTAGAAG+AGG - Chr1:89579324-89579343 None:intergenic 35.0%
TTTACCATGGGAATTGTTGA+TGG - Chr1:89579615-89579634 None:intergenic 35.0%
! TTTTCCATCAACAATTCCCA+TGG + Chr1:89579608-89579627 MsG0180005280.01.T01:CDS 35.0%
!! GGTTTGAATAAGAGCATTGT+TGG - Chr1:89579540-89579559 None:intergenic 35.0%
!! GTTGATGATGAATTCCAAAG+AGG - Chr1:89579299-89579318 None:intergenic 35.0%
!! TAGTATGTTGGTGATGTTGA+AGG + Chr1:89579571-89579590 MsG0180005280.01.T01:CDS 35.0%
AGAAGATGAAGAGGTTCCAA+TGG + Chr1:89579451-89579470 MsG0180005280.01.T01:CDS 40.0%
CAAGAACAAGCCTAGTATGT+TGG + Chr1:89579559-89579578 MsG0180005280.01.T01:CDS 40.0%
GATGATGAATTCCAAAGAGG+AGG - Chr1:89579296-89579315 None:intergenic 40.0%
! AGGTTCCAATGGATTTACTG+TGG + Chr1:89579462-89579481 MsG0180005280.01.T01:CDS 40.0%
! ATTTGGTCTCTAAGGGTCAA+AGG + Chr1:89579381-89579400 MsG0180005280.01.T01:CDS 40.0%
! CAACATACTAGGCTTGTTCT+TGG - Chr1:89579561-89579580 None:intergenic 40.0%
! GGTTCCAATGGATTTACTGT+GGG + Chr1:89579463-89579482 MsG0180005280.01.T01:CDS 40.0%
!! ATCTCTTAGGACTTGTTGGT+AGG - Chr1:89579339-89579358 None:intergenic 40.0%
!! TCATTGATTCACCTCCTCTT+TGG + Chr1:89579282-89579301 MsG0180005280.01.T01:CDS 40.0%
ACCTCCCACAGTAAATCCAT+TGG - Chr1:89579470-89579489 None:intergenic 45.0%
! ACTGTGGGAGGTTTTCAATG+AGG + Chr1:89579478-89579497 MsG0180005280.01.T01:CDS 45.0%
! TCCAATGGATTTACTGTGGG+AGG + Chr1:89579466-89579485 MsG0180005280.01.T01:CDS 45.0%
Chromosome Type Strat End Strand Name
Chr1 gene 89579230 89579655 89579230 ID=MsG0180005280.01;Name=MsG0180005280.01
Chr1 mRNA 89579230 89579655 89579230 ID=MsG0180005280.01.T01;Parent=MsG0180005280.01;Name=MsG0180005280.01.T01;_AED=0.18;_eAED=0.18;_QI=0|-1|0|1|-1|0|1|0|141
Chr1 exon 89579230 89579655 89579230 ID=MsG0180005280.01.T01:exon:17262;Parent=MsG0180005280.01.T01
Chr1 CDS 89579230 89579655 89579230 ID=MsG0180005280.01.T01:cds;Parent=MsG0180005280.01.T01
Gene Sequence

>MsG0180005280.01.T01

ATGGGAACAGAAGACTTCAGCTTCCCAAAAATTAATGACACTTATTCATATATCATTGATTCACCTCCTCTTTGGAATTCATCATCAACATCCTCTTCTAATAACTCCTACCAACAAGTCCTAAGAGATAAAAAAGATTGCTATGAAGAAAATTTGGTCTCTAAGGGTCAAAGGAAGAGCTTTTCAGCTATACAAAATGGAAAGAAAACAAGAAGAGAATTAGAAGATGAAGAGGTTCCAATGGATTTACTGTGGGAGGTTTTCAATGAGGATGTTGTTGAGTATAGATCCTTAACAATTGACAATACCAACAATGCTCTTATTCAAACCAAGAACAAGCCTAGTATGTTGGTGATGTTGAAGGTTTTAAAGAAACTTTTTTCCATCAACAATTCCCATGGTAAACCAAGAAGAAGAATACTCTAA
Protein sequence

>MsG0180005280.01.T01

MGTEDFSFPKINDTYSYIIDSPPLWNSSSTSSSNNSYQQVLRDKKDCYEENLVSKGQRKSFSAIQNGKKTRRELEDEEVPMDLLWEVFNEDVVEYRSLTIDNTNNALIQTKNKPSMLVMLKVLKKLFSINNSHGKPRRRIL*