AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780040685.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780040685.01.T01 MTR_7g095930 92.265 181 12 1 1 179 1 181 3.18e-107 304
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780040685.01.T01 AT3G51510 66.165 133 39 2 47 179 54 180 6.45e-53 167

Find 44 sgRNAs with CRISPR-Local

Find 95 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGATTCACATACTCAAATA+TGG 0.236469 7:-81210797 None:intergenic
TCACAACCCACAACCTTTCT+AGG 0.242009 7:+81210412 MsG0780040685.01.T01:CDS
AAGAAGAAGTGGGTTTGTTT+TGG 0.258797 7:-81210603 None:intergenic
AACAAACCCACTTCTTCTTC+TGG 0.278305 7:+81210607 MsG0780040685.01.T01:CDS
ACTTGACTCTGCTGAGCCTT+TGG 0.330126 7:-81210506 None:intergenic
TGTAGATTGTAACACAAGTT+TGG 0.354866 7:-81210313 None:intergenic
GGAGGAGGTTCTTCTGAGTC+AGG 0.395874 7:-81210562 None:intergenic
TTGTTCCTCAGCTTCCTTGT+TGG 0.401097 7:-81211487 None:intergenic
GTGAATCAAAAGCCAGTGTT+TGG 0.428557 7:+81210811 MsG0780040685.01.T01:CDS
CTTTGTCCGCGTAAGTCATA+CGG 0.468893 7:+81211556 MsG0780040685.01.T01:three_prime_UTR
GCAAGTAAATAAACATAAAA+CGG 0.478470 7:-81210646 None:intergenic
GGGAATGCCTAGAAAGGTTG+TGG 0.484085 7:-81210419 None:intergenic
CCCACTTCTTCTTCTGGACA+AGG 0.489189 7:+81210613 MsG0780040685.01.T01:CDS
ACTCAGAAGAACCTCCTCCA+TGG 0.530018 7:+81210566 MsG0780040685.01.T01:CDS
CTTCACCGGTGTTCCCACTT+CGG 0.535339 7:+81210885 MsG0780040685.01.T01:CDS
ACATAGGGGAATGCCTAGAA+AGG 0.551745 7:-81210425 None:intergenic
AGTTGACAGTGATGAGGAGA+AGG 0.557021 7:-81210362 None:intergenic
CTCAGAAGAACCTCCTCCAT+GGG 0.557982 7:+81210567 MsG0780040685.01.T01:CDS
TGTAGGAGATAAGATTTCAC+TGG 0.562086 7:+81210290 None:intergenic
GTCTGTTCAAGCAGCCAACA+AGG 0.565704 7:+81211473 MsG0780040685.01.T01:CDS
CGAAGTGGGAACACCGGTGA+AGG 0.578885 7:-81210884 None:intergenic
CAATCTACAAACACCATCCA+TGG 0.578967 7:+81210327 MsG0780040685.01.T01:exon
GGAATGCCTAGAAAGGTTGT+GGG 0.583378 7:-81210418 None:intergenic
GATGAAAGTAATTACCGAAG+TGG 0.584458 7:-81210899 None:intergenic
ATGAAAGTAATTACCGAAGT+GGG 0.587934 7:-81210898 None:intergenic
TTAACAGTGGCAGTGACCAA+AGG 0.589461 7:+81210490 MsG0780040685.01.T01:CDS
GAGTCAGGCTTAGCCCATGA+AGG 0.590685 7:-81210547 None:intergenic
CTTGAACAGACTTGAACCAC+AGG 0.591556 7:-81211461 None:intergenic
GTAGCAGCTACTGCCATGGA+TGG 0.596282 7:-81210340 None:intergenic
ATTCAATTCAGGCCTTCCTG+TGG 0.597191 7:+81211445 MsG0780040685.01.T01:intron
TCCTTGTCCAGAAGAAGAAG+TGG 0.598183 7:-81210614 None:intergenic
AGCTGAGGAACAAGACAAGA+GGG 0.603125 7:+81211497 MsG0780040685.01.T01:CDS
GAAGGTAGCAGCTACTGCCA+TGG 0.605058 7:-81210344 None:intergenic
AGCAGCCAACAAGGAAGCTG+AGG 0.612169 7:+81211482 MsG0780040685.01.T01:CDS
CCTTGTCCAGAAGAAGAAGT+GGG 0.612408 7:-81210613 None:intergenic
TTGTGGGTTGTGATGCATGT+CGG 0.613731 7:-81210402 None:intergenic
CAATTTCCGTATGACTTACG+CGG 0.615627 7:-81211562 None:intergenic
GAGCTCAAAACTCCAAACAC+TGG 0.621937 7:-81210823 None:intergenic
AACAGACTTGAACCACAGGA+AGG 0.628717 7:-81211457 None:intergenic
AAGCTGAGGAACAAGACAAG+AGG 0.642384 7:+81211496 MsG0780040685.01.T01:CDS
GGCAATTGCAGTGATAGCAG+AGG 0.656195 7:-81210668 None:intergenic
GAGGAACAAGACAAGAGGGA+TGG 0.660419 7:+81211501 MsG0780040685.01.T01:CDS
AATTACCGAAGTGGGAACAC+CGG 0.661017 7:-81210890 None:intergenic
ACATACAGTTGACAGTGATG+AGG 0.672865 7:-81210368 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATAAGTTGAAAATATTTTA+TGG + Chr7:81211087-81211106 MsG0780040685.01.T01:intron 10.0%
!! AAATAGTAGAATGAAGAATA+TGG - Chr7:81211289-81211308 None:intergenic 20.0%
!! AATCAGTTTATACACTTTAT+AGG + Chr7:81210994-81211013 MsG0780040685.01.T01:intron 20.0%
!! GATAACGAATAATCATAAAA+TGG - Chr7:81210926-81210945 None:intergenic 20.0%
!! GCAAGTAAATAAACATAAAA+CGG - Chr7:81210649-81210668 None:intergenic 20.0%
!!! ATTTGTTATGTTAGTTAACT+TGG + Chr7:81211223-81211242 MsG0780040685.01.T01:intron 20.0%
!!! TTTGTTATGTTAGTTAACTT+GGG + Chr7:81211224-81211243 MsG0780040685.01.T01:intron 20.0%
!!! TTTTTTCATAAGCTATTATG+CGG + Chr7:81211055-81211074 MsG0780040685.01.T01:intron 20.0%
! ATGAAGAATATGGTTCAATT+AGG - Chr7:81211279-81211298 None:intergenic 25.0%
! ATTCAACCTTAACAAACATA+TGG - Chr7:81210948-81210967 None:intergenic 25.0%
! ATTCATTTACACGAATTGAA+TGG + Chr7:81211382-81211401 MsG0780040685.01.T01:intron 25.0%
! CATTAATTGTTAGATATGCT+AGG + Chr7:81211149-81211168 MsG0780040685.01.T01:intron 25.0%
! GAGTTAATGTTATTCAATTC+AGG + Chr7:81211434-81211453 MsG0780040685.01.T01:intron 25.0%
! GTTAGAAGTTAGTTATGATT+AGG + Chr7:81211195-81211214 MsG0780040685.01.T01:intron 25.0%
! TGAAGAATATGGTTCAATTA+GGG - Chr7:81211278-81211297 None:intergenic 25.0%
! TTGAATTTGATGTTACAGAT+TGG + Chr7:81210772-81210791 MsG0780040685.01.T01:intron 25.0%
! TTGATTCACATACTCAAATA+TGG - Chr7:81210800-81210819 None:intergenic 25.0%
!! AAGAGATTAGTTATTTACAG+CGG - Chr7:81210692-81210711 None:intergenic 25.0%
!! CTCAATTTATTTCTCTTAGT+CGG + Chr7:81211319-81211338 MsG0780040685.01.T01:intron 25.0%
!! TCAATTTATTTCTCTTAGTC+GGG + Chr7:81211320-81211339 MsG0780040685.01.T01:intron 25.0%
ACTAACTTCTAACTACCTTA+AGG - Chr7:81211188-81211207 None:intergenic 30.0%
AGAAGTTAGTTATGATTAGG+TGG + Chr7:81211198-81211217 MsG0780040685.01.T01:intron 30.0%
ATGAAAGTAATTACCGAAGT+GGG - Chr7:81210901-81210920 None:intergenic 30.0%
CGATGAAAAAATACCTTCAT+GGG + Chr7:81210534-81210553 MsG0780040685.01.T01:CDS 30.0%
TCAACAATGTTGATATGAGA+TGG + Chr7:81211357-81211376 MsG0780040685.01.T01:intron 30.0%
TGTAGATTGTAACACAAGTT+TGG - Chr7:81210316-81210335 None:intergenic 30.0%
! CGTTATCCATATGTTTGTTA+AGG + Chr7:81210939-81210958 MsG0780040685.01.T01:intron 30.0%
!!! CCATGAAGGTATTTTTTCAT+CGG - Chr7:81210536-81210555 None:intergenic 30.0%
!!! TGGTGATTTTTTGTTACTGA+GGG - Chr7:81210461-81210480 None:intergenic 30.0%
AACTTGGGATCACTGTATAA+AGG + Chr7:81211239-81211258 MsG0780040685.01.T01:intron 35.0%
AATGCAGTTTGCATGAACTA+TGG - Chr7:81211133-81211152 None:intergenic 35.0%
ATCAACATTGTTGAGAAGCA+TGG - Chr7:81211351-81211370 None:intergenic 35.0%
CCGATGAAAAAATACCTTCA+TGG + Chr7:81210533-81210552 MsG0780040685.01.T01:CDS 35.0%
GAATATGGTTCAATTAGGGT+AGG - Chr7:81211274-81211293 None:intergenic 35.0%
GATGAAAGTAATTACCGAAG+TGG - Chr7:81210902-81210921 None:intergenic 35.0%
GTAACAAAAAATCACCACAC+AGG + Chr7:81210464-81210483 MsG0780040685.01.T01:CDS 35.0%
GTTTATACACTTTATAGGCC+TGG + Chr7:81210999-81211018 MsG0780040685.01.T01:intron 35.0%
! GGAGATTTGTTTAAGCCTTA+AGG + Chr7:81211170-81211189 MsG0780040685.01.T01:intron 35.0%
!! AAGAAGAAGTGGGTTTGTTT+TGG - Chr7:81210606-81210625 None:intergenic 35.0%
!! AGAAGAAGTGGGTTTGTTTT+GGG - Chr7:81210605-81210624 None:intergenic 35.0%
!!! GTGGTGATTTTTTGTTACTG+AGG - Chr7:81210462-81210481 None:intergenic 35.0%
AACAAACCCACTTCTTCTTC+TGG + Chr7:81210607-81210626 MsG0780040685.01.T01:CDS 40.0%
AAGGCGAAAAAACCAAGCAA+AGG - Chr7:81210868-81210887 None:intergenic 40.0%
ACACTTTATAGGCCTGGTTT+GGG + Chr7:81211005-81211024 MsG0780040685.01.T01:intron 40.0%
ACATACAGTTGACAGTGATG+AGG - Chr7:81210371-81210390 None:intergenic 40.0%
ATGGTTCAATTAGGGTAGGT+AGG - Chr7:81211270-81211289 None:intergenic 40.0%
CAATCTACAAACACCATCCA+TGG + Chr7:81210327-81210346 MsG0780040685.01.T01:exon 40.0%
CAATTTCCGTATGACTTACG+CGG - Chr7:81211565-81211584 None:intergenic 40.0%
GTGAATCAAAAGCCAGTGTT+TGG + Chr7:81210811-81210830 MsG0780040685.01.T01:CDS 40.0%
TACACTTTATAGGCCTGGTT+TGG + Chr7:81211004-81211023 MsG0780040685.01.T01:intron 40.0%
! ACCACACAGGTTTTTAACAG+TGG + Chr7:81210477-81210496 MsG0780040685.01.T01:CDS 40.0%
! GTTTTCTATGCTCCTTTGCT+TGG + Chr7:81210853-81210872 MsG0780040685.01.T01:CDS 40.0%
AACAGACTTGAACCACAGGA+AGG - Chr7:81211460-81211479 None:intergenic 45.0%
AAGCTGAGGAACAAGACAAG+AGG + Chr7:81211496-81211515 MsG0780040685.01.T01:CDS 45.0%
AATTACCGAAGTGGGAACAC+CGG - Chr7:81210893-81210912 None:intergenic 45.0%
ACATAGGGGAATGCCTAGAA+AGG - Chr7:81210428-81210447 None:intergenic 45.0%
AGCTGAGGAACAAGACAAGA+GGG + Chr7:81211497-81211516 MsG0780040685.01.T01:CDS 45.0%
AGTTGACAGTGATGAGGAGA+AGG - Chr7:81210365-81210384 None:intergenic 45.0%
ATTCAATTCAGGCCTTCCTG+TGG + Chr7:81211445-81211464 MsG0780040685.01.T01:intron 45.0%
CCTTGTCCAGAAGAAGAAGT+GGG - Chr7:81210616-81210635 None:intergenic 45.0%
CGCGGACAAAGCAACAAAAA+AGG - Chr7:81211547-81211566 None:intergenic 45.0%
CTTGAACAGACTTGAACCAC+AGG - Chr7:81211464-81211483 None:intergenic 45.0%
CTTTGTCCGCGTAAGTCATA+CGG + Chr7:81211556-81211575 MsG0780040685.01.T01:three_prime_UTR 45.0%
GAGCTCAAAACTCCAAACAC+TGG - Chr7:81210826-81210845 None:intergenic 45.0%
GCCACTGTTAAAAACCTGTG+TGG - Chr7:81210481-81210500 None:intergenic 45.0%
GGAATGCCTAGAAAGGTTGT+GGG - Chr7:81210421-81210440 None:intergenic 45.0%
TCACAACCCACAACCTTTCT+AGG + Chr7:81210412-81210431 MsG0780040685.01.T01:CDS 45.0%
TCCTTGTCCAGAAGAAGAAG+TGG - Chr7:81210617-81210636 None:intergenic 45.0%
TTAACAGTGGCAGTGACCAA+AGG + Chr7:81210490-81210509 MsG0780040685.01.T01:CDS 45.0%
TTGTTCCTCAGCTTCCTTGT+TGG - Chr7:81211490-81211509 None:intergenic 45.0%
TTTATCTCACCACCCAAACC+AGG - Chr7:81211020-81211039 None:intergenic 45.0%
! AGGGACGTTTTCTGACATAG+GGG - Chr7:81210442-81210461 None:intergenic 45.0%
! GAGGGACGTTTTCTGACATA+GGG - Chr7:81210443-81210462 None:intergenic 45.0%
! TGAGGGACGTTTTCTGACAT+AGG - Chr7:81210444-81210463 None:intergenic 45.0%
! TTGTGGGTTGTGATGCATGT+CGG - Chr7:81210405-81210424 None:intergenic 45.0%
!!! CTTGGTTTTTTCGCCTTCAC+CGG + Chr7:81210871-81210890 MsG0780040685.01.T01:CDS 45.0%
ACTCAGAAGAACCTCCTCCA+TGG + Chr7:81210566-81210585 MsG0780040685.01.T01:CDS 50.0%
ACTTGACTCTGCTGAGCCTT+TGG - Chr7:81210509-81210528 None:intergenic 50.0%
CCCACTTCTTCTTCTGGACA+AGG + Chr7:81210613-81210632 MsG0780040685.01.T01:CDS 50.0%
CTCAGAAGAACCTCCTCCAT+GGG + Chr7:81210567-81210586 MsG0780040685.01.T01:CDS 50.0%
GAGGAACAAGACAAGAGGGA+TGG + Chr7:81211501-81211520 MsG0780040685.01.T01:CDS 50.0%
GGCAATTGCAGTGATAGCAG+AGG - Chr7:81210671-81210690 None:intergenic 50.0%
GGGAATGCCTAGAAAGGTTG+TGG - Chr7:81210422-81210441 None:intergenic 50.0%
GTCTGTTCAAGCAGCCAACA+AGG + Chr7:81211473-81211492 MsG0780040685.01.T01:CDS 50.0%
! GCTTCATTTTGAGCCCATGG+AGG - Chr7:81210583-81210602 None:intergenic 50.0%
! TCATTTTGAGCCCATGGAGG+AGG - Chr7:81210580-81210599 None:intergenic 50.0%
! TGGGCTTCATTTTGAGCCCA+TGG - Chr7:81210586-81210605 None:intergenic 50.0%
!! CTTTATAGGCCTGGTTTGGG+TGG + Chr7:81211008-81211027 MsG0780040685.01.T01:intron 50.0%
AGCAGCCAACAAGGAAGCTG+AGG + Chr7:81211482-81211501 MsG0780040685.01.T01:CDS 55.0%
CTTCACCGGTGTTCCCACTT+CGG + Chr7:81210885-81210904 MsG0780040685.01.T01:CDS 55.0%
GAAGGTAGCAGCTACTGCCA+TGG - Chr7:81210347-81210366 None:intergenic 55.0%
GAGTCAGGCTTAGCCCATGA+AGG - Chr7:81210550-81210569 None:intergenic 55.0%
GGAGGAGGTTCTTCTGAGTC+AGG - Chr7:81210565-81210584 None:intergenic 55.0%
GTAGCAGCTACTGCCATGGA+TGG - Chr7:81210343-81210362 None:intergenic 55.0%
CGAAGTGGGAACACCGGTGA+AGG - Chr7:81210887-81210906 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr7 gene 81210300 81211675 81210300 ID=MsG0780040685.01;Name=MsG0780040685.01
Chr7 mRNA 81210300 81211675 81210300 ID=MsG0780040685.01.T01;Parent=MsG0780040685.01;Name=MsG0780040685.01.T01;_AED=0.49;_eAED=0.49;_QI=46|1|1|1|1|1|3|145|179
Chr7 exon 81210300 81210693 81210300 ID=MsG0780040685.01.T01:exon:18823;Parent=MsG0780040685.01.T01
Chr7 exon 81210790 81210906 81210790 ID=MsG0780040685.01.T01:exon:18824;Parent=MsG0780040685.01.T01
Chr7 exon 81211456 81211675 81211456 ID=MsG0780040685.01.T01:exon:18825;Parent=MsG0780040685.01.T01
Chr7 five_prime_UTR 81210300 81210345 81210300 ID=MsG0780040685.01.T01:five_prime_utr;Parent=MsG0780040685.01.T01
Chr7 CDS 81210346 81210693 81210346 ID=MsG0780040685.01.T01:cds;Parent=MsG0780040685.01.T01
Chr7 CDS 81210790 81210906 81210790 ID=MsG0780040685.01.T01:cds;Parent=MsG0780040685.01.T01
Chr7 CDS 81211456 81211530 81211456 ID=MsG0780040685.01.T01:cds;Parent=MsG0780040685.01.T01
Chr7 three_prime_UTR 81211531 81211675 81211531 ID=MsG0780040685.01.T01:three_prime_utr;Parent=MsG0780040685.01.T01
Gene Sequence

>MsG0780040685.01.T01

ATGGCAGTAGCTGCTACCTTCTCCTCATCACTGTCAACTGTATGTTTGTTACAAAACCGACATGCATCACAACCCACAACCTTTCTAGGCATTCCCCTATGTCAGAAAACGTCCCTCAGTAACAAAAAATCACCACACAGGTTTTTAACAGTGGCAGTGACCAAAGGCTCAGCAGAGTCAAGTAAATCCGATGAAAAAATACCTTCATGGGCTAAGCCTGACTCAGAAGAACCTCCTCCATGGGCTCAAAATGAAGCCCAAAACAAACCCACTTCTTCTTCTGGACAAGGATTTGTTATTCCGTTTTATGTTTATTTACTTGCCTCTGCTATCACTGCAATTGCCGCTATTGGTTCCATATTTGAGTATGTGAATCAAAAGCCAGTGTTTGGAGTTTTGAGCTCTGATAGTGTTTTCTATGCTCCTTTGCTTGGTTTTTTCGCCTTCACCGGTGTTCCCACTTCGGCCTTCCTGTGGTTCAAGTCTGTTCAAGCAGCCAACAAGGAAGCTGAGGAACAAGACAAGAGGGATGGTTATTAA

Protein sequence

>MsG0780040685.01.T01

MAVAATFSSSLSTVCLLQNRHASQPTTFLGIPLCQKTSLSNKKSPHRFLTVAVTKGSAESSKSDEKIPSWAKPDSEEPPPWAQNEAQNKPTSSSGQGFVIPFYVYLLASAITAIAAIGSIFEYVNQKPVFGVLSSDSVFYAPLLGFFAFTGVPTSAFLWFKSVQAANKEAEEQDKRDGY*