AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680030881.01


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 40 sgRNAs with CRISPR-Local

Find 46 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCGTCAAATATTTACCTTTA+AGG 0.051897 6:-11095381 None:intergenic
TTACGTCACTTGGCTGGAAC+TGG 0.345492 6:+11094989 MsG0680030881.01.T01:CDS
GTTAAGTTGAAGGGAAGCTT+TGG 0.367072 6:+11095409 MsG0680030881.01.T01:CDS
TTGGTTTCAAGACATGGATT+AGG 0.372024 6:+11095334 MsG0680030881.01.T01:CDS
AGTCATGAGGAAGGGTGTGT+TGG 0.428618 6:+11095097 MsG0680030881.01.T01:CDS
GTTCTAGAGATGATTTGAAA+AGG 0.436323 6:+11095161 MsG0680030881.01.T01:CDS
AAGGGAATGAAGTGGCTGTT+GGG 0.455501 6:+11095137 MsG0680030881.01.T01:CDS
GACGGAAGAAGTTAAGTTGA+AGG 0.460889 6:+11095399 MsG0680030881.01.T01:CDS
CCTTTAAGGTCATCAAAAGA+AGG 0.475758 6:-11095367 None:intergenic
TGAGGTGAGAGAGGAAATGC+TGG 0.485652 6:+11095051 MsG0680030881.01.T01:CDS
AAAGGGAATGAAGTGGCTGT+TGG 0.490439 6:+11095136 MsG0680030881.01.T01:CDS
CCTTAAAGGTAAATATTTGA+CGG 0.503436 6:+11095381 MsG0680030881.01.T01:CDS
CTAGAGATGATTTGAAAAGG+AGG 0.505092 6:+11095164 MsG0680030881.01.T01:CDS
GATTTGAAAAGGAGGAGAGT+TGG 0.505908 6:+11095172 MsG0680030881.01.T01:CDS
GTGATGACTACTTGTCTCGC+GGG 0.522896 6:+11094954 MsG0680030881.01.T01:CDS
ACGGAAGAAGTTAAGTTGAA+GGG 0.527662 6:+11095400 MsG0680030881.01.T01:CDS
GTTGAAGTTTGTGAGGGTGT+TGG 0.532860 6:+11095025 MsG0680030881.01.T01:CDS
AAGCTTCTCGAGCGGTTGCA+AGG 0.538858 6:+11095245 MsG0680030881.01.T01:CDS
TTGTGAGGGTGTTGGTGATG+AGG 0.542544 6:+11095033 MsG0680030881.01.T01:CDS
GAGGAAGGGTGTGTTGGAGT+TGG 0.555127 6:+11095103 MsG0680030881.01.T01:CDS
TGTGAGTTGGTTTCAAGACA+TGG 0.572437 6:+11095328 MsG0680030881.01.T01:CDS
GTTTATTACTATGTGTGAGT+TGG 0.574917 6:+11095315 MsG0680030881.01.T01:CDS
TGTTGGTGATGAGGTGAGAG+AGG 0.579278 6:+11095042 MsG0680030881.01.T01:CDS
TGTGATGACTACTTGTCTCG+CGG 0.591359 6:+11094953 MsG0680030881.01.T01:CDS
ATGGTTAAGAAGACTTTGAG+AGG 0.598226 6:+11095220 MsG0680030881.01.T01:CDS
TTGCAAGAGAGTCATGAGGA+AGG 0.602697 6:+11095088 MsG0680030881.01.T01:CDS
TGCAAGAGAGTCATGAGGAA+GGG 0.607581 6:+11095089 MsG0680030881.01.T01:CDS
AGCTATTGCTGTCAATAACA+TGG 0.628294 6:+11095201 MsG0680030881.01.T01:CDS
TGGTTAAGAAGACTTTGAGA+GGG 0.629677 6:+11095221 MsG0680030881.01.T01:CDS
AGGTGAGAGAGGAAATGCTG+GGG 0.642079 6:+11095053 MsG0680030881.01.T01:CDS
CAATGACATACCGCTCGATG+CGG 0.642376 6:+11095279 MsG0680030881.01.T01:CDS
GAGGTGAGAGAGGAAATGCT+GGG 0.644686 6:+11095052 MsG0680030881.01.T01:CDS
AAATGATGTTGAAGTTTGTG+AGG 0.647447 6:+11095018 MsG0680030881.01.T01:CDS
GAGAGGGGAAGCTTCTCGAG+CGG 0.650063 6:+11095237 MsG0680030881.01.T01:CDS
TGATTTGCAAGAGAGTCATG+AGG 0.653227 6:+11095084 MsG0680030881.01.T01:CDS
AATGATGTTGAAGTTTGTGA+GGG 0.658615 6:+11095019 MsG0680030881.01.T01:CDS
TGATGACTACTTGTCTCGCG+GGG 0.665196 6:+11094955 MsG0680030881.01.T01:CDS
TCACTCTTTACCGCATCGAG+CGG 0.667186 6:-11095289 None:intergenic
GGTTAAGAAGACTTTGAGAG+GGG 0.667282 6:+11095222 MsG0680030881.01.T01:CDS
TTAAGGTCATCAAAAGAAGG+TGG 0.677208 6:-11095364 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! CCTTAAAGGTAAATATTTGA+CGG + Chr6:11095381-11095400 MsG0680030881.01.T01:CDS 25.0%
AAAAAGAAAAGGGAATGAAG+TGG + Chr6:11095129-11095148 MsG0680030881.01.T01:CDS 30.0%
AAATGATGTTGAAGTTTGTG+AGG + Chr6:11095018-11095037 MsG0680030881.01.T01:CDS 30.0%
AATGATGTTGAAGTTTGTGA+GGG + Chr6:11095019-11095038 MsG0680030881.01.T01:CDS 30.0%
CCGTCAAATATTTACCTTTA+AGG - Chr6:11095384-11095403 None:intergenic 30.0%
GTTTATTACTATGTGTGAGT+TGG + Chr6:11095315-11095334 MsG0680030881.01.T01:CDS 30.0%
!! GAGTTGGTGAAAAAAGAAAA+GGG + Chr6:11095119-11095138 MsG0680030881.01.T01:CDS 30.0%
!! GTTCTAGAGATGATTTGAAA+AGG + Chr6:11095161-11095180 MsG0680030881.01.T01:CDS 30.0%
AGCTATTGCTGTCAATAACA+TGG + Chr6:11095201-11095220 MsG0680030881.01.T01:CDS 35.0%
ATGGTTAAGAAGACTTTGAG+AGG + Chr6:11095220-11095239 MsG0680030881.01.T01:CDS 35.0%
CTAGAGATGATTTGAAAAGG+AGG + Chr6:11095164-11095183 MsG0680030881.01.T01:CDS 35.0%
TTAAGGTCATCAAAAGAAGG+TGG - Chr6:11095367-11095386 None:intergenic 35.0%
TTGGTTTCAAGACATGGATT+AGG + Chr6:11095334-11095353 MsG0680030881.01.T01:CDS 35.0%
! TGGTTAAGAAGACTTTGAGA+GGG + Chr6:11095221-11095240 MsG0680030881.01.T01:CDS 35.0%
! TTTTGCGTTTTTACGTCACT+TGG + Chr6:11094979-11094998 MsG0680030881.01.T01:CDS 35.0%
!! ACGGAAGAAGTTAAGTTGAA+GGG + Chr6:11095400-11095419 MsG0680030881.01.T01:CDS 35.0%
!! CCTTCTTTTGATGACCTTAA+AGG + Chr6:11095367-11095386 MsG0680030881.01.T01:CDS 35.0%
!! CCTTTAAGGTCATCAAAAGA+AGG - Chr6:11095370-11095389 None:intergenic 35.0%
!! GGAGTTGGTGAAAAAAGAAA+AGG + Chr6:11095118-11095137 MsG0680030881.01.T01:CDS 35.0%
GATTTGAAAAGGAGGAGAGT+TGG + Chr6:11095172-11095191 MsG0680030881.01.T01:CDS 40.0%
! GGTTAAGAAGACTTTGAGAG+GGG + Chr6:11095222-11095241 MsG0680030881.01.T01:CDS 40.0%
! TGATTTGCAAGAGAGTCATG+AGG + Chr6:11095084-11095103 MsG0680030881.01.T01:CDS 40.0%
!! GACGGAAGAAGTTAAGTTGA+AGG + Chr6:11095399-11095418 MsG0680030881.01.T01:CDS 40.0%
!! GTTAAGTTGAAGGGAAGCTT+TGG + Chr6:11095409-11095428 MsG0680030881.01.T01:CDS 40.0%
!! TGTGAGTTGGTTTCAAGACA+TGG + Chr6:11095328-11095347 MsG0680030881.01.T01:CDS 40.0%
AAAGGGAATGAAGTGGCTGT+TGG + Chr6:11095136-11095155 MsG0680030881.01.T01:CDS 45.0%
AAGGGAATGAAGTGGCTGTT+GGG + Chr6:11095137-11095156 MsG0680030881.01.T01:CDS 45.0%
TGCAAGAGAGTCATGAGGAA+GGG + Chr6:11095089-11095108 MsG0680030881.01.T01:CDS 45.0%
TGTGATGACTACTTGTCTCG+CGG + Chr6:11094953-11094972 MsG0680030881.01.T01:CDS 45.0%
TTGCAAGAGAGTCATGAGGA+AGG + Chr6:11095088-11095107 MsG0680030881.01.T01:CDS 45.0%
! GTTGAAGTTTGTGAGGGTGT+TGG + Chr6:11095025-11095044 MsG0680030881.01.T01:CDS 45.0%
AGGTGAGAGAGGAAATGCTG+GGG + Chr6:11095053-11095072 MsG0680030881.01.T01:CDS 50.0%
CAATGACATACCGCTCGATG+CGG + Chr6:11095279-11095298 MsG0680030881.01.T01:CDS 50.0%
GAGGTGAGAGAGGAAATGCT+GGG + Chr6:11095052-11095071 MsG0680030881.01.T01:CDS 50.0%
GTGATGACTACTTGTCTCGC+GGG + Chr6:11094954-11094973 MsG0680030881.01.T01:CDS 50.0%
TCACTCTTTACCGCATCGAG+CGG - Chr6:11095292-11095311 None:intergenic 50.0%
TGAGGTGAGAGAGGAAATGC+TGG + Chr6:11095051-11095070 MsG0680030881.01.T01:CDS 50.0%
TGATGACTACTTGTCTCGCG+GGG + Chr6:11094955-11094974 MsG0680030881.01.T01:CDS 50.0%
TTACGTCACTTGGCTGGAAC+TGG + Chr6:11094989-11095008 MsG0680030881.01.T01:CDS 50.0%
! AGTCATGAGGAAGGGTGTGT+TGG + Chr6:11095097-11095116 MsG0680030881.01.T01:CDS 50.0%
! GCGTTTTTACGTCACTTGGC+TGG + Chr6:11094983-11095002 MsG0680030881.01.T01:CDS 50.0%
!! TGTTGGTGATGAGGTGAGAG+AGG + Chr6:11095042-11095061 MsG0680030881.01.T01:CDS 50.0%
!! TTGTGAGGGTGTTGGTGATG+AGG + Chr6:11095033-11095052 MsG0680030881.01.T01:CDS 50.0%
AAGCTTCTCGAGCGGTTGCA+AGG + Chr6:11095245-11095264 MsG0680030881.01.T01:CDS 55.0%
! GAGGAAGGGTGTGTTGGAGT+TGG + Chr6:11095103-11095122 MsG0680030881.01.T01:CDS 55.0%
GAGAGGGGAAGCTTCTCGAG+CGG + Chr6:11095237-11095256 MsG0680030881.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr6 gene 11094935 11095441 11094935 ID=MsG0680030881.01;Name=MsG0680030881.01
Chr6 mRNA 11094935 11095441 11094935 ID=MsG0680030881.01.T01;Parent=MsG0680030881.01;Name=MsG0680030881.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|168
Chr6 exon 11094935 11095441 11094935 ID=MsG0680030881.01.T01:exon:8201;Parent=MsG0680030881.01.T01
Chr6 CDS 11094935 11095441 11094935 ID=MsG0680030881.01.T01:cds;Parent=MsG0680030881.01.T01
Gene Sequence

>MsG0680030881.01.T01

ATGATAAGTTGTAGATATTGTGATGACTACTTGTCTCGCGGGGTTTTTGCGTTTTTACGTCACTTGGCTGGAACTGGAACTGAAAATGATGTTGAAGTTTGTGAGGGTGTTGGTGATGAGGTGAGAGAGGAAATGCTGGGGATTTTTAGTGATTTGCAAGAGAGTCATGAGGAAGGGTGTGTTGGAGTTGGTGAAAAAAGAAAAGGGAATGAAGTGGCTGTTGGGAGTTCTAGAGATGATTTGAAAAGGAGGAGAGTTGGCTCGCAAGCTATTGCTGTCAATAACATGGTTAAGAAGACTTTGAGAGGGGAAGCTTCTCGAGCGGTTGCAAGGTTTTTCTACAACAATGACATACCGCTCGATGCGGTAAAGAGTGATGAGTTTATTACTATGTGTGAGTTGGTTTCAAGACATGGATTAGGATTTGTGCCACCTTCTTTTGATGACCTTAAAGGTAAATATTTGACGGAAGAAGTTAAGTTGAAGGGAAGCTTTGGAAGAACATAG

Protein sequence

>MsG0680030881.01.T01

MISCRYCDDYLSRGVFAFLRHLAGTGTENDVEVCEGVGDEVREEMLGIFSDLQESHEEGCVGVGEKRKGNEVAVGSSRDDLKRRRVGSQAIAVNNMVKKTLRGEASRAVARFFYNNDIPLDAVKSDEFITMCELVSRHGLGFVPPSFDDLKGKYLTEEVKLKGSFGRT*