AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180004868.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180004868.01.T01 MTR_1g088670 99.412 170 1 0 1 170 1 170 1.00e-122 343
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180004868.01.T01 AT1G02870 56.477 193 60 4 1 169 1 193 6.17e-68 205

Find 38 sgRNAs with CRISPR-Local

Find 77 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGCGGGTTTCAGAACTTT+AGG 0.241847 1:+83765619 None:intergenic
CCCTTGCAGAAGATCCTAAA+TGG 0.241943 1:-83765570 MsG0180004868.01.T01:CDS
GAGCCTTTATCGTCCCATTT+AGG 0.265744 1:+83765556 None:intergenic
TGAAATCGGCGTTGGGTAAA+AGG 0.283106 1:-83765304 MsG0180004868.01.T01:CDS
GCAAGGGATTGTAACAGTTT+TGG 0.284108 1:+83765586 None:intergenic
CGCCGAAAGAGGAATAGTTT+TGG 0.317209 1:+83765527 None:intergenic
AGAACTTTAGGGTTCTTCTT+TGG 0.324436 1:+83765631 None:intergenic
ACCCAAAACTATTCCTCTTT+CGG 0.353542 1:-83765529 MsG0180004868.01.T01:CDS
GGAAGACCAACACGTACCTT+TGG 0.363935 1:+83765652 None:intergenic
AGAGAATCAGTAAGGGAGTT+AGG 0.373552 1:+83765493 None:intergenic
GACAAGAATCCGCTCATTGT+TGG 0.413347 1:-83764407 MsG0180004868.01.T01:CDS
AAGCGGGTTTCAGAACTTTA+GGG 0.416206 1:+83765620 None:intergenic
GAAGACCAACACGTACCTTT+GGG 0.427653 1:+83765653 None:intergenic
GATCCTAAATGGGACGATAA+AGG 0.428418 1:-83765559 MsG0180004868.01.T01:CDS
TTGTGGTGTAGATTTGAAAT+CGG 0.469021 1:-83765318 MsG0180004868.01.T01:intron
GAATTTGAAGAGAATCAGTA+AGG 0.477015 1:+83765485 None:intergenic
GTCTTCTTCAAGATCACTGC+CGG 0.487579 1:+83765438 None:intergenic
GTAGATTTGAAATCGGCGTT+GGG 0.505626 1:-83765311 MsG0180004868.01.T01:intron
TGAATTGAAGTCAAAGGTTG+AGG 0.526816 1:+83765257 None:intergenic
TGTAGATTTGAAATCGGCGT+TGG 0.527237 1:-83765312 MsG0180004868.01.T01:intron
ATCAGAAACAACGCCGAAAG+AGG 0.531608 1:+83765516 None:intergenic
GTTGCAACTGAATGCTGCAT+AGG 0.533068 1:+83764467 None:intergenic
TTGCAACTGAATGCTGCATA+GGG 0.539277 1:+83764468 None:intergenic
CCTTGCAGAAGATCCTAAAT+GGG 0.546570 1:-83765569 MsG0180004868.01.T01:CDS
CCATTTAGGATCTTCTGCAA+GGG 0.547386 1:+83765570 None:intergenic
CCCATTTAGGATCTTCTGCA+AGG 0.554925 1:+83765569 None:intergenic
GTTGCCGATGATAACGATCC+CGG 0.559862 1:-83765457 MsG0180004868.01.T01:CDS
TTTGGAGGAATAGTGAAAGC+GGG 0.577554 1:+83765604 None:intergenic
TCTTCTTCAAGATCACTGCC+GGG 0.597126 1:+83765439 None:intergenic
TCGTTATCATCGGCAACAGA+AGG 0.598477 1:+83765463 None:intergenic
AGACGCTGAATTGAAGTCAA+AGG 0.608242 1:+83765251 None:intergenic
AATTTGAAGAGAATCAGTAA+GGG 0.613175 1:+83765486 None:intergenic
TTGGGTAAAAGGAGAAGAGA+TGG 0.616129 1:-83765293 MsG0180004868.01.T01:CDS
TTTCATTTACCAACAATGAG+CGG 0.625317 1:+83764398 None:intergenic
GGCAGTGATCTTGAAGAAGA+CGG 0.629513 1:-83765436 MsG0180004868.01.T01:intron
TCTCGCCCAAAGGTACGTGT+TGG 0.632503 1:-83765658 MsG0180004868.01.T01:CDS
GTATAAGCAATCTCGCCCAA+AGG 0.632811 1:-83765668 MsG0180004868.01.T01:CDS
ACTGCCGGGATCGTTATCAT+CGG 0.664050 1:+83765453 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTATTGTTTTGTTTTTATTT+TGG - Chr1:83765568-83765587 MsG0180004868.01.T01:CDS 10.0%
!! AACTAATTTATTTGCATAAA+CGG + Chr1:83765230-83765249 None:intergenic 15.0%
!!! TTAAAACTTTTGAAAATGAA+CGG - Chr1:83765106-83765125 MsG0180004868.01.T01:intron 15.0%
!! GTTGAAATTAGTATTAATCT+TGG - Chr1:83764711-83764730 MsG0180004868.01.T01:intron 20.0%
! AATTTGAAGAGAATCAGTAA+GGG + Chr1:83764605-83764624 None:intergenic 25.0%
! AGTCGTTTAGTTGAAAAATA+TGG - Chr1:83764867-83764886 MsG0180004868.01.T01:intron 25.0%
! GAATGTAAATAATTTGAGCA+TGG - Chr1:83764745-83764764 MsG0180004868.01.T01:intron 25.0%
! GTATCATAATCTTGAAACAT+CGG - Chr1:83765416-83765435 MsG0180004868.01.T01:intron 25.0%
! TAACAATTTACGATGAATTG+AGG + Chr1:83764684-83764703 None:intergenic 25.0%
!! AAAATATGGAGATGATTTTC+AGG - Chr1:83764881-83764900 MsG0180004868.01.T01:intron 25.0%
!! ATTAATCTTGGTAATTCTGA+AGG - Chr1:83764723-83764742 MsG0180004868.01.T01:intron 25.0%
!! CATTTTACTCATATACTACA+TGG - Chr1:83765360-83765379 MsG0180004868.01.T01:intron 25.0%
!!! ATAAGTTTTGTGAGATTGTT+TGG + Chr1:83765161-83765180 None:intergenic 25.0%
!!! GATAATTTGTTTATCCAAAC+AGG + Chr1:83764979-83764998 None:intergenic 25.0%
!!! TAAGTTTTGTGAGATTGTTT+GGG + Chr1:83765160-83765179 None:intergenic 25.0%
!!! TGTTTTTTCGTAAATTACCT+TGG + Chr1:83765276-83765295 None:intergenic 25.0%
!!! TTTATCTTTTGCTATAGAAG+TGG + Chr1:83765046-83765065 None:intergenic 25.0%
GAATTTGAAGAGAATCAGTA+AGG + Chr1:83764606-83764625 None:intergenic 30.0%
TACGAAAAAACAGCTTATGA+AGG - Chr1:83765284-83765303 MsG0180004868.01.T01:CDS 30.0%
TACTCATATACTACATGGTT+AGG - Chr1:83765365-83765384 MsG0180004868.01.T01:intron 30.0%
TATTATTCATAAGCTTGCCA+AGG - Chr1:83765256-83765275 MsG0180004868.01.T01:CDS 30.0%
! CAAATGTTACTCTGTTTTCT+TGG - Chr1:83765519-83765538 MsG0180004868.01.T01:CDS 30.0%
! TCTAAAGTAACACAAATGAG+TGG - Chr1:83765455-83765474 MsG0180004868.01.T01:CDS 30.0%
! TTGTGGTGTAGATTTGAAAT+CGG - Chr1:83764770-83764789 MsG0180004868.01.T01:intron 30.0%
!! ATAATTTGAGCATGGTTTTG+TGG - Chr1:83764753-83764772 MsG0180004868.01.T01:intron 30.0%
!! ATTTTGGCAGAAAATGATGA+TGG - Chr1:83765584-83765603 MsG0180004868.01.T01:CDS 30.0%
!! TACTCTGTTTTCTTGGTTTT+AGG - Chr1:83765526-83765545 MsG0180004868.01.T01:CDS 30.0%
!! TATGAAGGTACAATTTTCGT+CGG - Chr1:83765299-83765318 MsG0180004868.01.T01:CDS 30.0%
!!! GTTTTAGGACTTCATTTATG+TGG - Chr1:83765541-83765560 MsG0180004868.01.T01:CDS 30.0%
ACCCAAAACTATTCCTCTTT+CGG - Chr1:83764559-83764578 MsG0180004868.01.T01:intron 35.0%
TCTCACAAAACTTATGTCAG+TGG - Chr1:83765166-83765185 MsG0180004868.01.T01:intron 35.0%
TGAATTGAAGTCAAAGGTTG+AGG + Chr1:83764834-83764853 None:intergenic 35.0%
! AGCTTTGATAGTTCACTTCT+AGG - Chr1:83764952-83764971 MsG0180004868.01.T01:intron 35.0%
!! AGAACTTTAGGGTTCTTCTT+TGG + Chr1:83764460-83764479 None:intergenic 35.0%
!! TTTTGGAGGAATAGTGAAAG+CGG + Chr1:83764488-83764507 None:intergenic 35.0%
!!! TCGTTTTTTCACTGTTGCTT+TGG - Chr1:83764905-83764924 MsG0180004868.01.T01:intron 35.0%
AAACGGCCCTAAAGGTTTAT+TGG + Chr1:83765213-83765232 None:intergenic 40.0%
AACGGCCCTAAAGGTTTATT+GGG + Chr1:83765212-83765231 None:intergenic 40.0%
AGACGCTGAATTGAAGTCAA+AGG + Chr1:83764840-83764859 None:intergenic 40.0%
AGAGAATCAGTAAGGGAGTT+AGG + Chr1:83764598-83764617 None:intergenic 40.0%
ATTTGCATAAACGGCCCTAA+AGG + Chr1:83765221-83765240 None:intergenic 40.0%
CCTGTCCCAATAAACCTTTA+GGG - Chr1:83765204-83765223 MsG0180004868.01.T01:intron 40.0%
CCTTGCAGAAGATCCTAAAT+GGG - Chr1:83764519-83764538 MsG0180004868.01.T01:intron 40.0%
GATCCTAAATGGGACGATAA+AGG - Chr1:83764529-83764548 MsG0180004868.01.T01:intron 40.0%
TTGCAACTGAATGCTGCATA+GGG + Chr1:83765623-83765642 None:intergenic 40.0%
TTGGGTAAAAGGAGAAGAGA+TGG - Chr1:83764795-83764814 MsG0180004868.01.T01:intron 40.0%
TTTGGAGGAATAGTGAAAGC+GGG + Chr1:83764487-83764506 None:intergenic 40.0%
! AAAGCGGGTTTCAGAACTTT+AGG + Chr1:83764472-83764491 None:intergenic 40.0%
! AAGCGGGTTTCAGAACTTTA+GGG + Chr1:83764471-83764490 None:intergenic 40.0%
! CCATTTAGGATCTTCTGCAA+GGG + Chr1:83764521-83764540 None:intergenic 40.0%
! GCAAGGGATTGTAACAGTTT+TGG + Chr1:83764505-83764524 None:intergenic 40.0%
! GCCGAAAGAGGAATAGTTTT+GGG + Chr1:83764563-83764582 None:intergenic 40.0%
! GTAGATTTGAAATCGGCGTT+GGG - Chr1:83764777-83764796 MsG0180004868.01.T01:intron 40.0%
! TGTAGATTTGAAATCGGCGT+TGG - Chr1:83764776-83764795 MsG0180004868.01.T01:intron 40.0%
!! AGGGATTGTAACAGTTTTGG+AGG + Chr1:83764502-83764521 None:intergenic 40.0%
!! TGAGTGGTTGTGATTTGTTG+AGG - Chr1:83765471-83765490 MsG0180004868.01.T01:CDS 40.0%
ATCAGAAACAACGCCGAAAG+AGG + Chr1:83764575-83764594 None:intergenic 45.0%
CCCTAAAGGTTTATTGGGAC+AGG + Chr1:83765207-83765226 None:intergenic 45.0%
CCCTTGCAGAAGATCCTAAA+TGG - Chr1:83764518-83764537 MsG0180004868.01.T01:intron 45.0%
GAAGACCAACACGTACCTTT+GGG + Chr1:83764438-83764457 None:intergenic 45.0%
GACAAGAATCCGCTCATTGT+TGG - Chr1:83765681-83765700 MsG0180004868.01.T01:CDS 45.0%
GAGCCTTTATCGTCCCATTT+AGG + Chr1:83764535-83764554 None:intergenic 45.0%
GCCTGTCCCAATAAACCTTT+AGG - Chr1:83765203-83765222 MsG0180004868.01.T01:intron 45.0%
GGCAGTGATCTTGAAGAAGA+CGG - Chr1:83764652-83764671 MsG0180004868.01.T01:intron 45.0%
GTATAAGCAATCTCGCCCAA+AGG - Chr1:83764420-83764439 MsG0180004868.01.T01:CDS 45.0%
GTCTTCTTCAAGATCACTGC+CGG + Chr1:83764653-83764672 None:intergenic 45.0%
GTTCACTTCTAGGTCCTGTT+TGG - Chr1:83764962-83764981 MsG0180004868.01.T01:intron 45.0%
GTTGCAACTGAATGCTGCAT+AGG + Chr1:83765624-83765643 None:intergenic 45.0%
TCGTTATCATCGGCAACAGA+AGG + Chr1:83764628-83764647 None:intergenic 45.0%
TCTTCTTCAAGATCACTGCC+GGG + Chr1:83764652-83764671 None:intergenic 45.0%
! CCCATTTAGGATCTTCTGCA+AGG + Chr1:83764522-83764541 None:intergenic 45.0%
! CGCCGAAAGAGGAATAGTTT+TGG + Chr1:83764564-83764583 None:intergenic 45.0%
! TGAAATCGGCGTTGGGTAAA+AGG - Chr1:83764784-83764803 MsG0180004868.01.T01:intron 45.0%
ACTGCCGGGATCGTTATCAT+CGG + Chr1:83764638-83764657 None:intergenic 50.0%
GGAAGACCAACACGTACCTT+TGG + Chr1:83764439-83764458 None:intergenic 50.0%
! GTTGCCGATGATAACGATCC+CGG - Chr1:83764631-83764650 MsG0180004868.01.T01:intron 50.0%
! TCTCGCCCAAAGGTACGTGT+TGG - Chr1:83764430-83764449 MsG0180004868.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr1 gene 83764400 83765710 83764400 ID=MsG0180004868.01;Name=MsG0180004868.01
Chr1 mRNA 83764400 83765710 83764400 ID=MsG0180004868.01.T01;Parent=MsG0180004868.01;Name=MsG0180004868.01.T01;_AED=0.50;_eAED=0.50;_QI=0|0|0|1|1|1|3|0|170
Chr1 exon 83765437 83765710 83765437 ID=MsG0180004868.01.T01:exon:27739;Parent=MsG0180004868.01.T01
Chr1 exon 83765208 83765329 83765208 ID=MsG0180004868.01.T01:exon:27738;Parent=MsG0180004868.01.T01
Chr1 exon 83764400 83764516 83764400 ID=MsG0180004868.01.T01:exon:27737;Parent=MsG0180004868.01.T01
Chr1 CDS 83765437 83765710 83765437 ID=MsG0180004868.01.T01:cds;Parent=MsG0180004868.01.T01
Chr1 CDS 83765208 83765329 83765208 ID=MsG0180004868.01.T01:cds;Parent=MsG0180004868.01.T01
Chr1 CDS 83764400 83764516 83764400 ID=MsG0180004868.01.T01:cds;Parent=MsG0180004868.01.T01
Gene Sequence

>MsG0180004868.01.T01

ATGGGAAGATCACGAAGAAAGTATAAGCAATCTCGCCCAAAGGTACGTGTTGGTCTTCCAAAGAAGAACCCTAAAGTTCTGAAACCCGCTTTCACTATTCCTCCAAAACTGTTACAATCCCTTGCAGAAGATCCTAAATGGGACGATAAAGGCTCTGTCACCCAAAACTATTCCTCTTTCGGCGTTGTTTCTGATCCTAACTCCCTTACTGATTCTCTTCAAATTCCTTCTGTTGCCGATGATAACGATCCCGGCAGTGATCTTGAAGAAGACGATTTGAAATCGGCGTTGGGTAAAAGGAGAAGAGATGGTAAAAGCTCACTTCCTCAACCTTTGACTTCAATTCAGCGTCTTCATATTAGTCGTTTAGTTGAAAAATATGGAGATGATTTTCAGAAAATGATGATGGATATAAAGCTAAACCCTATGCAGCATTCAGTTGCAACTTTAGAGAAATTGTGCTTCAGCTATTACTTATATAAAGACAAGAATCCGCTCATTGTTGGTAAATGA
Protein sequence

>MsG0180004868.01.T01

MGRSRRKYKQSRPKVRVGLPKKNPKVLKPAFTIPPKLLQSLAEDPKWDDKGSVTQNYSSFGVVSDPNSLTDSLQIPSVADDNDPGSDLEEDDLKSALGKRRRDGKSSLPQPLTSIQRLHISRLVEKYGDDFQKMMMDIKLNPMQHSVATLEKLCFSYYLYKDKNPLIVGK*