AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580026786.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580026786.01.T01 MTR_4g124640 94.220 173 5 1 20 192 1 168 3.46e-117 333
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580026786.01.T01 AT4G33250 79.874 159 30 1 34 192 6 162 6.84e-91 266

Find 38 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTATCATCACATTGAAAATT+AGG 0.220004 5:+44805682 None:intergenic
CTGGAAGGTTTCGTCAGTTC+TGG 0.234923 5:-44805276 MsG0580026786.01.T01:CDS
CACATTGAAAATTAGGAATA+TGG 0.260139 5:+44805689 None:intergenic
TCAAGATCTTGAAGAATATC+AGG 0.277926 5:+44805541 None:intergenic
ACCTCAGCAAGCACAGTTCT+AGG 0.298434 5:+44805148 None:intergenic
GCACAGTTCTAGGAATCTTT+TGG 0.326432 5:+44805158 None:intergenic
TCCTCCATTTGCACACGTTC+CGG 0.335385 5:+44805340 None:intergenic
CCCAACCAGAGTTGGCTACT+TGG 0.386040 5:+44805099 None:intergenic
TGAAAATTATGTCAATGATC+AGG 0.402045 5:-44805521 MsG0580026786.01.T01:CDS
TGGATTGCCTGCTCAAATCC+TGG 0.411523 5:+44805214 None:intergenic
CGTTGCTCGCATATTGGTTA+AGG 0.419052 5:-44805413 MsG0580026786.01.T01:CDS
AAGAGACACAGGCTGAAGTC+TGG 0.427245 5:+44805370 None:intergenic
CATATAGTTGAAGCCGTGCC+AGG 0.433378 5:-44805232 MsG0580026786.01.T01:CDS
TGGAAGGTTTCGTCAGTTCT+GGG 0.441956 5:-44805275 MsG0580026786.01.T01:CDS
GATTCCGGAACGTGTGCAAA+TGG 0.456092 5:-44805344 MsG0580026786.01.T01:CDS
TGCTTGCTGAGGTTTATCCT+TGG 0.466350 5:-44805138 MsG0580026786.01.T01:CDS
TCAGATCGTTGCTCGCATAT+TGG 0.484728 5:-44805419 MsG0580026786.01.T01:CDS
CTGTCTCACTATTTAGAGAC+TGG 0.488200 5:-44805295 MsG0580026786.01.T01:CDS
TCCTTGCTGTTGTACTTGTA+CGG 0.492803 5:+44805618 None:intergenic
TCTCAGGTTCAAACTGGTAG+AGG 0.496339 5:+44805452 None:intergenic
GAACATGAATCGCATAGCCT+TGG 0.508528 5:+44805194 None:intergenic
ACAAGTACAACAGCAAGGAC+AGG 0.520513 5:-44805614 MsG0580026786.01.T01:CDS
CAAACTGGTAGAGGCGAAGA+AGG 0.520837 5:+44805461 None:intergenic
CTCACTATTTAGAGACTGGA+AGG 0.523087 5:-44805291 MsG0580026786.01.T01:CDS
CATATTGGTTAAGGCCCTCA+TGG 0.529992 5:-44805404 MsG0580026786.01.T01:CDS
CACAGGCTGAAGTCTGGAGC+TGG 0.532716 5:+44805376 None:intergenic
AGCCGTGCCAGGATTTGAGC+AGG 0.543997 5:-44805221 MsG0580026786.01.T01:CDS
GAAGGCATAGATTTGATTCG+AGG 0.557097 5:+44805479 None:intergenic
TCCTAGAACTGTGCTTGCTG+AGG 0.561352 5:-44805149 MsG0580026786.01.T01:CDS
GGATTTGAGCAGGCAATCCA+AGG 0.567214 5:-44805211 MsG0580026786.01.T01:CDS
TGGAGCTGGCATAGCCATGA+GGG 0.570416 5:+44805390 None:intergenic
GAGCTGTTCGACAGTGTAAG+CGG 0.592715 5:+44805585 None:intergenic
CAAGTACAACAGCAAGGACA+GGG 0.623697 5:-44805613 MsG0580026786.01.T01:CDS
TGCCTGCTCAAATCCTGGCA+CGG 0.624671 5:+44805219 None:intergenic
TCCGGAACGTGTGCAAATGG+AGG 0.627671 5:-44805341 MsG0580026786.01.T01:CDS
CTGGAGCTGGCATAGCCATG+AGG 0.661849 5:+44805389 None:intergenic
GCCGTACAAGTACAACAGCA+AGG 0.674180 5:-44805619 MsG0580026786.01.T01:CDS
GTACAACAGCAAGGACAGGG+AGG 0.722492 5:-44805610 MsG0580026786.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATCATCACATTGAAAATT+AGG + Chr5:44805138-44805157 None:intergenic 20.0%
! CACATTGAAAATTAGGAATA+TGG + Chr5:44805131-44805150 None:intergenic 25.0%
! TGAAAATTATGTCAATGATC+AGG - Chr5:44805296-44805315 MsG0580026786.01.T01:CDS 25.0%
!!! GATAACTTGATTTTGATCAT+GGG - Chr5:44805153-44805172 MsG0580026786.01.T01:CDS 25.0%
!!! TGATAACTTGATTTTGATCA+TGG - Chr5:44805152-44805171 MsG0580026786.01.T01:CDS 25.0%
TCAAGATCTTGAAGAATATC+AGG + Chr5:44805279-44805298 None:intergenic 30.0%
! AGGAATCTTTTGGTAAGTCA+AGG + Chr5:44805652-44805671 None:intergenic 35.0%
! ATCTGAGAACTCATTTTCTC+AGG + Chr5:44805384-44805403 None:intergenic 35.0%
! TCATTTTCTCAGGTTCAAAC+TGG + Chr5:44805374-44805393 None:intergenic 35.0%
!! GTTTTCAAGGAATTTGTCCA+AGG + Chr5:44805699-44805718 None:intergenic 35.0%
CTCACTATTTAGAGACTGGA+AGG - Chr5:44805526-44805545 MsG0580026786.01.T01:CDS 40.0%
CTGTCTCACTATTTAGAGAC+TGG - Chr5:44805522-44805541 MsG0580026786.01.T01:CDS 40.0%
! GAAGGCATAGATTTGATTCG+AGG + Chr5:44805341-44805360 None:intergenic 40.0%
!! CCTGTGTCTCTTTTTGATTC+CGG - Chr5:44805458-44805477 MsG0580026786.01.T01:CDS 40.0%
!! TCCTTGCTGTTGTACTTGTA+CGG + Chr5:44805202-44805221 None:intergenic 40.0%
!!! GCACAGTTCTAGGAATCTTT+TGG + Chr5:44805662-44805681 None:intergenic 40.0%
ACAAGTACAACAGCAAGGAC+AGG - Chr5:44805203-44805222 MsG0580026786.01.T01:CDS 45.0%
CAAGTACAACAGCAAGGACA+GGG - Chr5:44805204-44805223 MsG0580026786.01.T01:CDS 45.0%
CCGGAATCAAAAAGAGACAC+AGG + Chr5:44805461-44805480 None:intergenic 45.0%
GAACATGAATCGCATAGCCT+TGG + Chr5:44805626-44805645 None:intergenic 45.0%
TCAGATCGTTGCTCGCATAT+TGG - Chr5:44805398-44805417 MsG0580026786.01.T01:CDS 45.0%
TCTCAGGTTCAAACTGGTAG+AGG + Chr5:44805368-44805387 None:intergenic 45.0%
TGGAAGGTTTCGTCAGTTCT+GGG - Chr5:44805542-44805561 MsG0580026786.01.T01:CDS 45.0%
! CATATTGGTTAAGGCCCTCA+TGG - Chr5:44805413-44805432 MsG0580026786.01.T01:CDS 45.0%
! CGTTGCTCGCATATTGGTTA+AGG - Chr5:44805404-44805423 MsG0580026786.01.T01:CDS 45.0%
! TGCTTGCTGAGGTTTATCCT+TGG - Chr5:44805679-44805698 MsG0580026786.01.T01:CDS 45.0%
AAGAGACACAGGCTGAAGTC+TGG + Chr5:44805450-44805469 None:intergenic 50.0%
ACCTCAGCAAGCACAGTTCT+AGG + Chr5:44805672-44805691 None:intergenic 50.0%
CAAACTGGTAGAGGCGAAGA+AGG + Chr5:44805359-44805378 None:intergenic 50.0%
CATATAGTTGAAGCCGTGCC+AGG - Chr5:44805585-44805604 MsG0580026786.01.T01:CDS 50.0%
CTGGAAGGTTTCGTCAGTTC+TGG - Chr5:44805541-44805560 MsG0580026786.01.T01:CDS 50.0%
GAGCTGTTCGACAGTGTAAG+CGG + Chr5:44805235-44805254 None:intergenic 50.0%
GATTCCGGAACGTGTGCAAA+TGG - Chr5:44805473-44805492 MsG0580026786.01.T01:CDS 50.0%
GCCGTACAAGTACAACAGCA+AGG - Chr5:44805198-44805217 MsG0580026786.01.T01:CDS 50.0%
GGATTTGAGCAGGCAATCCA+AGG - Chr5:44805606-44805625 MsG0580026786.01.T01:CDS 50.0%
TCCTCCATTTGCACACGTTC+CGG + Chr5:44805480-44805499 None:intergenic 50.0%
TGGATTGCCTGCTCAAATCC+TGG + Chr5:44805606-44805625 None:intergenic 50.0%
! TCCTAGAACTGTGCTTGCTG+AGG - Chr5:44805668-44805687 MsG0580026786.01.T01:CDS 50.0%
GTACAACAGCAAGGACAGGG+AGG - Chr5:44805207-44805226 MsG0580026786.01.T01:CDS 55.0%
TCCGGAACGTGTGCAAATGG+AGG - Chr5:44805476-44805495 MsG0580026786.01.T01:CDS 55.0%
TGCCTGCTCAAATCCTGGCA+CGG + Chr5:44805601-44805620 None:intergenic 55.0%
TGGAGCTGGCATAGCCATGA+GGG + Chr5:44805430-44805449 None:intergenic 55.0%
AGCCGTGCCAGGATTTGAGC+AGG - Chr5:44805596-44805615 MsG0580026786.01.T01:CDS 60.0%
CTGGAGCTGGCATAGCCATG+AGG + Chr5:44805431-44805450 None:intergenic 60.0%
! CACAGGCTGAAGTCTGGAGC+TGG + Chr5:44805444-44805463 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr5 gene 44805114 44805725 44805114 ID=MsG0580026786.01;Name=MsG0580026786.01
Chr5 mRNA 44805114 44805725 44805114 ID=MsG0580026786.01.T01;Parent=MsG0580026786.01;Name=MsG0580026786.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|203
Chr5 exon 44805114 44805725 44805114 ID=MsG0580026786.01.T01:exon:13954;Parent=MsG0580026786.01.T01
Chr5 CDS 44805114 44805725 44805114 ID=MsG0580026786.01.T01:cds;Parent=MsG0580026786.01.T01
Gene Sequence

>MsG0580026786.01.T01

ATGTTGCAAAACATCCATATTCCTAATTTTCAATGTGATGATAACTTGATTTTGATCATGGGAAGAGAAGCAGCAGCAGCAGCAGCCGTACAAGTACAACAGCAAGGACAGGGAGGAACCGCTTACACTGTCGAACAGCTCGTTGCATTCAATCGTTACAATCCTGATATTCTTCAAGATCTTGAAAATTATGTCAATGATCAGGTTTCATCGCAAACTTACAGCCTCGAATCAAATCTATGCCTTCTTCGCCTCTACCAGTTTGAACCTGAGAAAATGAGTTCTCAGATCGTTGCTCGCATATTGGTTAAGGCCCTCATGGCTATGCCAGCTCCAGACTTCAGCCTGTGTCTCTTTTTGATTCCGGAACGTGTGCAAATGGAGGAGCAGTTCAAGACTCTGATTGTTCTGTCTCACTATTTAGAGACTGGAAGGTTTCGTCAGTTCTGGGATGAATCATCGAAAAGTCGTCATATAGTTGAAGCCGTGCCAGGATTTGAGCAGGCAATCCAAGGCTATGCGATTCATGTTCTATCCTTGACTTACCAAAAGATTCCTAGAACTGTGCTTGCTGAGGTTTATCCTTGGACAAATTCCTTGAAAACCAAGTAG
Protein sequence

>MsG0580026786.01.T01

MLQNIHIPNFQCDDNLILIMGREAAAAAAVQVQQQGQGGTAYTVEQLVAFNRYNPDILQDLENYVNDQVSSQTYSLESNLCLLRLYQFEPEKMSSQIVARILVKALMAMPAPDFSLCLFLIPERVQMEEQFKTLIVLSHYLETGRFRQFWDESSKSRHIVEAVPGFEQAIQGYAIHVLSLTYQKIPRTVLAEVYPWTNSLKTK*