AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280007575.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007575.01.T01 MTR_2g028000 63.855 83 4 1 8 90 170 226 5.12e-28 101
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007575.01.T01 AT3G52155 43.373 83 21 1 8 90 109 165 6.64e-15 66.2
MsG0280007575.01.T01 AT3G52155 43.373 83 21 1 8 90 158 214 8.54e-15 66.6
MsG0280007575.01.T01 AT3G52155 43.373 83 21 1 8 90 158 214 8.54e-15 66.6
MsG0280007575.01.T01 AT3G52155 68.421 38 12 0 8 45 158 195 1.17e-11 58.2

Find 39 sgRNAs with CRISPR-Local

Find 119 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTTGGTGGGTGGAAGCTTC+AGG 0.157844 2:-17497594 MsG0280007575.01.T01:CDS
CAATCAGATTCTGTTTAATT+TGG 0.217235 2:-17497369 MsG0280007575.01.T01:three_prime_UTR
CATTGCTGAGAGTAAATTGT+TGG 0.408833 2:-17497309 MsG0280007575.01.T01:three_prime_UTR
TTTGATATTGGGTGGTCTAC+AGG 0.411864 2:-17499047 None:intergenic
CTGACCAAACTGATGCGGTT+TGG 0.415237 2:+17497464 None:intergenic
TTTGGTGGGTGGAAGCTTCA+GGG 0.416035 2:-17497593 MsG0280007575.01.T01:CDS
GCATTTGTAGCAGCAGGGTT+TGG 0.423367 2:-17497611 MsG0280007575.01.T01:CDS
CTGTTTAATTTGGCAGCAAT+GGG 0.425821 2:-17497359 MsG0280007575.01.T01:three_prime_UTR
TTGAAACTGCTGGGAAATCT+TGG 0.430976 2:-17498937 MsG0280007575.01.T01:CDS
ATCTTGACTAGCTAGCTACT+TGG 0.434900 2:+17497560 None:intergenic
ACAGGTGCATGGGACACAAC+AGG 0.436041 2:-17499029 MsG0280007575.01.T01:CDS
TTACAGGCATTTGTAGCAGC+AGG 0.439671 2:-17497617 MsG0280007575.01.T01:intron
TCTGTTTAATTTGGCAGCAA+TGG 0.443589 2:-17497360 MsG0280007575.01.T01:three_prime_UTR
GAATCCAAACCGCATCAGTT+TGG 0.456158 2:-17497468 MsG0280007575.01.T01:three_prime_UTR
ACTAGGGAAAGCATACTAGA+TGG 0.463512 2:-17497418 MsG0280007575.01.T01:three_prime_UTR
TTTGTAGCAGCAGGGTTTGG+TGG 0.463635 2:-17497608 MsG0280007575.01.T01:CDS
TTGTAGCAGCAGGGTTTGGT+GGG 0.472254 2:-17497607 MsG0280007575.01.T01:CDS
GCTGCACTGCTTGAAACTGC+TGG 0.482315 2:-17498947 MsG0280007575.01.T01:CDS
TAGCAGCAGGGTTTGGTGGG+TGG 0.487228 2:-17497604 MsG0280007575.01.T01:CDS
CAAACCGCATCAGTTTGGTC+AGG 0.494958 2:-17497463 MsG0280007575.01.T01:three_prime_UTR
GACACAACAGGGGTGGGAAG+AGG 0.495655 2:-17499017 MsG0280007575.01.T01:CDS
CTTTACATTCTATACTAAGC+AGG 0.501853 2:+17497277 None:intergenic
AGATGCTCAAAAGATAAAGT+TGG 0.502518 2:-17497512 MsG0280007575.01.T01:three_prime_UTR
TGCTGGGAAATCTTGGAATG+AGG 0.511570 2:-17498930 MsG0280007575.01.T01:CDS
AAAGCATACTAGATGGAAGA+TGG 0.515770 2:-17497411 MsG0280007575.01.T01:three_prime_UTR
GCATGGGACACAACAGGGGT+GGG 0.540338 2:-17499023 MsG0280007575.01.T01:CDS
TGCATGGGACACAACAGGGG+TGG 0.553933 2:-17499024 MsG0280007575.01.T01:CDS
ATTGCTCAGAGCTCATGACT+AGG 0.557619 2:-17497435 MsG0280007575.01.T01:three_prime_UTR
CTGCACTGCTTGAAACTGCT+GGG 0.562340 2:-17498946 MsG0280007575.01.T01:CDS
TTGGGTGGTCTACAGGTGCA+TGG 0.562923 2:-17499040 MsG0280007575.01.T01:CDS
CAGGTGCATGGGACACAACA+GGG 0.571515 2:-17499028 MsG0280007575.01.T01:CDS
GATGGATATTTGATATTGGG+TGG 0.581679 2:-17499055 None:intergenic
TGGGTGGTCTACAGGTGCAT+GGG 0.587485 2:-17499039 MsG0280007575.01.T01:CDS
TACAGGCATTTGTAGCAGCA+GGG 0.598227 2:-17497616 MsG0280007575.01.T01:intron
TTGCTCAGAGCTCATGACTA+GGG 0.604327 2:-17497434 MsG0280007575.01.T01:three_prime_UTR
AAACCGCATCAGTTTGGTCA+GGG 0.611343 2:-17497462 MsG0280007575.01.T01:three_prime_UTR
TTAATGTACACAATTGTGCA+AGG 0.633441 2:+17498894 None:intergenic
ACGCCCTGACCAAACTGATG+CGG 0.673309 2:+17497459 None:intergenic
AGGTGCATGGGACACAACAG+GGG 0.677108 2:-17499027 MsG0280007575.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAAATTAACTTCTAATTAT+AGG - Chr2:17497459-17497478 MsG0280007575.01.T01:three_prime_UTR 10.0%
!! CAAAAATAAATTTATAATCT+CGG + Chr2:17497503-17497522 None:intergenic 10.0%
!! TAAAATATTAATCAATCAAA+AGG + Chr2:17498431-17498450 None:intergenic 10.0%
!!! TTGATTGATTAATATTTTAA+GGG - Chr2:17498432-17498451 MsG0280007575.01.T01:intron 10.0%
!!! TTTGATTGATTAATATTTTA+AGG - Chr2:17498431-17498450 MsG0280007575.01.T01:intron 10.0%
!! AAAGATGATAAAATGATAAT+AGG - Chr2:17497775-17497794 MsG0280007575.01.T01:intron 15.0%
!!! ATTCTTATTGATTAATGAAT+TGG - Chr2:17497961-17497980 MsG0280007575.01.T01:intron 15.0%
!!! CGAGATTATAAATTTATTTT+TGG - Chr2:17497501-17497520 MsG0280007575.01.T01:three_prime_UTR 15.0%
!!! TGATTGATTAATATTTTAAG+GGG - Chr2:17498433-17498452 MsG0280007575.01.T01:intron 15.0%
!! AACCATTATAACATTTATGA+TGG + Chr2:17498011-17498030 None:intergenic 20.0%
!! CATAAATGTTATAATGGTTT+AGG - Chr2:17498012-17498031 MsG0280007575.01.T01:intron 20.0%
!! TCAAATCTTATTATCATGAT+AGG + Chr2:17498382-17498401 None:intergenic 20.0%
!! TGATTAATGAATTGGAAAAT+TGG - Chr2:17497969-17497988 MsG0280007575.01.T01:intron 20.0%
!! TTCCATCATAAATGTTATAA+TGG - Chr2:17498006-17498025 MsG0280007575.01.T01:intron 20.0%
!!! CACTAATAAGGTTTTATTTT+AGG + Chr2:17498258-17498277 None:intergenic 20.0%
!!! TATTTTTGGAATGTTTTTTG+TGG - Chr2:17497515-17497534 MsG0280007575.01.T01:three_prime_UTR 20.0%
! AAAAATATTAGAAACCGTGA+AGG + Chr2:17497920-17497939 None:intergenic 25.0%
! AAGTTGAAACAGTTATGTAT+AGG + Chr2:17497883-17497902 None:intergenic 25.0%
! ATATTATGTAAGCTTCCAAA+AGG - Chr2:17498495-17498514 MsG0280007575.01.T01:intron 25.0%
! ATTGTGATGTATGAAATTTG+AGG + Chr2:17497741-17497760 None:intergenic 25.0%
! CAAATTTCATACATCACAAT+TGG - Chr2:17497741-17497760 MsG0280007575.01.T01:intron 25.0%
! CAATCAGATTCTGTTTAATT+TGG - Chr2:17498817-17498836 MsG0280007575.01.T01:intron 25.0%
! GCTTAAAAGGTAAAATATCA+AGG + Chr2:17498236-17498255 None:intergenic 25.0%
! TAAAACCTTATTAGTGTAAC+TGG - Chr2:17498262-17498281 MsG0280007575.01.T01:intron 25.0%
! TTAGAATGTTCAAGGTTTAT+GGG + Chr2:17497714-17497733 None:intergenic 25.0%
!! AAATCGAATACTTTTCCTTT+TGG + Chr2:17498513-17498532 None:intergenic 25.0%
!! ACATAACTGTTTCAACTTTT+AGG - Chr2:17497885-17497904 MsG0280007575.01.T01:intron 25.0%
!! CTTCATAAAAGTATAAACTG+AGG + Chr2:17497371-17497390 None:intergenic 25.0%
!! TATTAGCAAGATTTTCAGTA+TGG + Chr2:17498655-17498674 None:intergenic 25.0%
!!! CGGTTTCTAATATTTTTACA+TGG - Chr2:17497923-17497942 MsG0280007575.01.T01:intron 25.0%
!!! GGTTTTATTTTAGGCTTAAA+AGG + Chr2:17498249-17498268 None:intergenic 25.0%
!!! TTAGATACACAACTTTTTCT+CGG + Chr2:17498540-17498559 None:intergenic 25.0%
AAAGGTAAAATATCAAGGCT+TGG + Chr2:17498231-17498250 None:intergenic 30.0%
AAGGTAAAATATCAAGGCTT+GGG + Chr2:17498230-17498249 None:intergenic 30.0%
AAGTTCCAGTTACACTAATA+AGG + Chr2:17498270-17498289 None:intergenic 30.0%
AGATGCTCAAAAGATAAAGT+TGG - Chr2:17498674-17498693 MsG0280007575.01.T01:intron 30.0%
AGTCAACCAATATTTACCAT+TGG - Chr2:17497644-17497663 MsG0280007575.01.T01:intron 30.0%
AGTTATGTATAGGTCATGAA+TGG + Chr2:17497873-17497892 None:intergenic 30.0%
AGTTCCAGTAACTTCAATTA+CGG - Chr2:17498136-17498155 MsG0280007575.01.T01:intron 30.0%
ATCTCATTGATATCCTTTCT+TGG + Chr2:17498325-17498344 None:intergenic 30.0%
CTTTACATTCTATACTAAGC+AGG + Chr2:17498912-17498931 None:intergenic 30.0%
GTCAACCAATATTTACCATT+GGG - Chr2:17497645-17497664 MsG0280007575.01.T01:intron 30.0%
GTTAGAATGTTCAAGGTTTA+TGG + Chr2:17497715-17497734 None:intergenic 30.0%
TATCTAACATTGCATCTTAC+AGG - Chr2:17498553-17498572 MsG0280007575.01.T01:intron 30.0%
TCAACCAATATTTACCATTG+GGG - Chr2:17497646-17497665 MsG0280007575.01.T01:intron 30.0%
TCTCATTGATATCCTTTCTT+GGG + Chr2:17498324-17498343 None:intergenic 30.0%
TTAATGTACACAATTGTGCA+AGG + Chr2:17497295-17497314 None:intergenic 30.0%
! TGCATTTATTGTGTCTTTTG+TGG - Chr2:17497329-17497348 MsG0280007575.01.T01:three_prime_UTR 30.0%
!! GAAGCATCATTGCTTATTTT+AGG - Chr2:17498696-17498715 MsG0280007575.01.T01:intron 30.0%
!!! GTGTATTCTTGTTCCTTTTT+TGG - Chr2:17497617-17497636 MsG0280007575.01.T01:intron 30.0%
AAAGCATACTAGATGGAAGA+TGG - Chr2:17498775-17498794 MsG0280007575.01.T01:intron 35.0%
AAGATCGCACAGAAATTGTA+TGG - Chr2:17497407-17497426 MsG0280007575.01.T01:three_prime_UTR 35.0%
ACATCCCCAATGGTAAATAT+TGG + Chr2:17497653-17497672 None:intergenic 35.0%
ACATGTGGGTACTAACAAAT+AGG + Chr2:17498070-17498089 None:intergenic 35.0%
AGATCGCACAGAAATTGTAT+GGG - Chr2:17497408-17497427 MsG0280007575.01.T01:three_prime_UTR 35.0%
AGGTAAAATATCAAGGCTTG+GGG + Chr2:17498229-17498248 None:intergenic 35.0%
CATGTGGGTACTAACAAATA+GGG + Chr2:17498069-17498088 None:intergenic 35.0%
CATTGCTGAGAGTAAATTGT+TGG - Chr2:17498877-17498896 MsG0280007575.01.T01:intron 35.0%
CTCATTGATATCCTTTCTTG+GGG + Chr2:17498323-17498342 None:intergenic 35.0%
CTTGGGGACTAATCATATAA+GGG + Chr2:17498213-17498232 None:intergenic 35.0%
GAGGTAAGTTAGAATGTTCA+AGG + Chr2:17497722-17497741 None:intergenic 35.0%
TTGTGGAACATGTGTTTGAA+GGG - Chr2:17497532-17497551 MsG0280007575.01.T01:three_prime_UTR 35.0%
TTTGTGGAACATGTGTTTGA+AGG - Chr2:17497531-17497550 MsG0280007575.01.T01:three_prime_UTR 35.0%
!! ACTCCTAACACAGTTTTGTA+GGG + Chr2:17497595-17497614 None:intergenic 35.0%
!! CTGTTTAATTTGGCAGCAAT+GGG - Chr2:17498827-17498846 MsG0280007575.01.T01:intron 35.0%
!! TCTGTTTAATTTGGCAGCAA+TGG - Chr2:17498826-17498845 MsG0280007575.01.T01:intron 35.0%
ACATGAAGCTAGAGGTCATA+AGG + Chr2:17498043-17498062 None:intergenic 40.0%
CAGTAACTTCAATTACGGCA+GGG - Chr2:17498141-17498160 MsG0280007575.01.T01:intron 40.0%
GCTTGGGGACTAATCATATA+AGG + Chr2:17498214-17498233 None:intergenic 40.0%
GTGTCAAGCATAATAGCTAC+TGG + Chr2:17498297-17498316 None:intergenic 40.0%
TCTCCCTACAAAACTGTGTT+AGG - Chr2:17497589-17497608 MsG0280007575.01.T01:CDS 40.0%
TGTCTTACTAGCATGATGGT+AGG - Chr2:17497670-17497689 MsG0280007575.01.T01:intron 40.0%
TTAGGAGAGTTAGTCCTTCA+CGG - Chr2:17497903-17497922 MsG0280007575.01.T01:intron 40.0%
TTGAAACTGCTGGGAAATCT+TGG - Chr2:17497249-17497268 MsG0280007575.01.T01:three_prime_UTR 40.0%
TTGATATCCTTTCTTGGGGT+AGG + Chr2:17498319-17498338 None:intergenic 40.0%
! ACTAGGGAAAGCATACTAGA+TGG - Chr2:17498768-17498787 MsG0280007575.01.T01:intron 40.0%
! AGGCAGCTTCAATGTTTTGT+GGG - Chr2:17497189-17497208 MsG0280007575.01.T01:three_prime_UTR 40.0%
! ATCTTGACTAGCTAGCTACT+TGG + Chr2:17498629-17498648 None:intergenic 40.0%
! TGGTTGACTCTAGCCAAAAA+AGG + Chr2:17497633-17497652 None:intergenic 40.0%
!! CACTCCTAACACAGTTTTGT+AGG + Chr2:17497596-17497615 None:intergenic 40.0%
AAACCGCATCAGTTTGGTCA+GGG - Chr2:17498724-17498743 MsG0280007575.01.T01:intron 45.0%
AACATAGTCGCACACCACTA+CGG - Chr2:17498402-17498421 MsG0280007575.01.T01:intron 45.0%
ATTGCTCAGAGCTCATGACT+AGG - Chr2:17498751-17498770 MsG0280007575.01.T01:intron 45.0%
CAATCAAAAGGTGACCGTAG+TGG + Chr2:17498419-17498438 None:intergenic 45.0%
CCAGTAACTTCAATTACGGC+AGG - Chr2:17498140-17498159 MsG0280007575.01.T01:intron 45.0%
CCTGCCGTAATTGAAGTTAC+TGG + Chr2:17498143-17498162 None:intergenic 45.0%
GAATCCAAACCGCATCAGTT+TGG - Chr2:17498718-17498737 MsG0280007575.01.T01:intron 45.0%
GAATGTTGTGTGCGACATGT+GGG + Chr2:17498084-17498103 None:intergenic 45.0%
GGGATGTCTTACTAGCATGA+TGG - Chr2:17497666-17497685 MsG0280007575.01.T01:intron 45.0%
TACAGGCATTTGTAGCAGCA+GGG - Chr2:17498570-17498589 MsG0280007575.01.T01:intron 45.0%
TGCTAGTAAGACATCCCCAA+TGG + Chr2:17497663-17497682 None:intergenic 45.0%
TGCTGGGAAATCTTGGAATG+AGG - Chr2:17497256-17497275 MsG0280007575.01.T01:three_prime_UTR 45.0%
TTACAGGCATTTGTAGCAGC+AGG - Chr2:17498569-17498588 MsG0280007575.01.T01:intron 45.0%
TTGCTCAGAGCTCATGACTA+GGG - Chr2:17498752-17498771 MsG0280007575.01.T01:intron 45.0%
! GAGGCAGCTTCAATGTTTTG+TGG - Chr2:17497188-17497207 MsG0280007575.01.T01:three_prime_UTR 45.0%
! GGCAGCTTCAATGTTTTGTG+GGG - Chr2:17497190-17497209 MsG0280007575.01.T01:three_prime_UTR 45.0%
! TAGGGAGTACATGAAGCTAG+AGG + Chr2:17498051-17498070 None:intergenic 45.0%
CAAACCGCATCAGTTTGGTC+AGG - Chr2:17498723-17498742 MsG0280007575.01.T01:intron 50.0%
CGAATGTTGTGTGCGACATG+TGG + Chr2:17498085-17498104 None:intergenic 50.0%
CTGACCAAACTGATGCGGTT+TGG + Chr2:17498725-17498744 None:intergenic 50.0%
CTGCACTGCTTGAAACTGCT+GGG - Chr2:17497240-17497259 MsG0280007575.01.T01:three_prime_UTR 50.0%
CTTGACACCTACCCCAAGAA+AGG - Chr2:17498309-17498328 MsG0280007575.01.T01:intron 50.0%
GCATTTGTAGCAGCAGGGTT+TGG - Chr2:17498575-17498594 MsG0280007575.01.T01:intron 50.0%
TTTGTAGCAGCAGGGTTTGG+TGG - Chr2:17498578-17498597 MsG0280007575.01.T01:intron 50.0%
! CAGGGAATGTCTTTTGCTCG+TGG - Chr2:17498159-17498178 MsG0280007575.01.T01:intron 50.0%
! TTGTAGCAGCAGGGTTTGGT+GGG - Chr2:17498579-17498598 MsG0280007575.01.T01:intron 50.0%
! TTTGGTGGGTGGAAGCTTCA+GGG - Chr2:17498593-17498612 MsG0280007575.01.T01:intron 50.0%
ACAGGTGCATGGGACACAAC+AGG - Chr2:17497157-17497176 MsG0280007575.01.T01:three_prime_UTR 55.0%
ACGCCCTGACCAAACTGATG+CGG + Chr2:17498730-17498749 None:intergenic 55.0%
AGGTGCATGGGACACAACAG+GGG - Chr2:17497159-17497178 MsG0280007575.01.T01:three_prime_UTR 55.0%
CAGGTGCATGGGACACAACA+GGG - Chr2:17497158-17497177 MsG0280007575.01.T01:three_prime_UTR 55.0%
GCTGCACTGCTTGAAACTGC+TGG - Chr2:17497239-17497258 MsG0280007575.01.T01:three_prime_UTR 55.0%
TGGGTGGTCTACAGGTGCAT+GGG - Chr2:17497147-17497166 MsG0280007575.01.T01:three_prime_UTR 55.0%
TTGGGTGGTCTACAGGTGCA+TGG - Chr2:17497146-17497165 MsG0280007575.01.T01:three_prime_UTR 55.0%
! GTTTGGTGGGTGGAAGCTTC+AGG - Chr2:17498592-17498611 MsG0280007575.01.T01:intron 55.0%
GACACAACAGGGGTGGGAAG+AGG - Chr2:17497169-17497188 MsG0280007575.01.T01:three_prime_UTR 60.0%
GCATGGGACACAACAGGGGT+GGG - Chr2:17497163-17497182 MsG0280007575.01.T01:three_prime_UTR 60.0%
TGCATGGGACACAACAGGGG+TGG - Chr2:17497162-17497181 MsG0280007575.01.T01:three_prime_UTR 60.0%
!! TAGCAGCAGGGTTTGGTGGG+TGG - Chr2:17498582-17498601 MsG0280007575.01.T01:intron 60.0%
Chromosome Type Strat End Strand Name
Chr2 gene 17497146 17499062 17497146 ID=MsG0280007575.01;Name=MsG0280007575.01
Chr2 mRNA 17497146 17499062 17497146 ID=MsG0280007575.01.T01;Parent=MsG0280007575.01;Name=MsG0280007575.01.T01;_AED=0.49;_eAED=0.55;_QI=0|0|0.33|1|0|0|3|425|90
Chr2 exon 17497146 17497633 17497146 ID=MsG0280007575.01.T01:exon:10566;Parent=MsG0280007575.01.T01
Chr2 exon 17498785 17498834 17498785 ID=MsG0280007575.01.T01:exon:10565;Parent=MsG0280007575.01.T01
Chr2 exon 17498903 17499062 17498903 ID=MsG0280007575.01.T01:exon:10564;Parent=MsG0280007575.01.T01
Chr2 CDS 17498903 17499062 17498903 ID=MsG0280007575.01.T01:cds;Parent=MsG0280007575.01.T01
Chr2 CDS 17498785 17498834 17498785 ID=MsG0280007575.01.T01:cds;Parent=MsG0280007575.01.T01
Chr2 CDS 17497571 17497633 17497571 ID=MsG0280007575.01.T01:cds;Parent=MsG0280007575.01.T01
Chr2 three_prime_UTR 17497146 17497570 17497146 ID=MsG0280007575.01.T01:three_prime_utr;Parent=MsG0280007575.01.T01
Gene Sequence

>MsG0280007575.01.T01

TTGGGTGGTCTACAGGTGCATGGGACACAACAGGGGTGGGAAGAGGCAGCTTCAATGTTTTGTGGGGCATCTGTAGAATTAAAGACATGCAATGCTGCACTGCTTGAAACTGCTGGGAAATCTTGGAATGAGGTTTTACTTTATTACCTTGCACAATTGTTTTATACTTTTATGAAGTTTAGTTTCTCTACTAAAGATCGCACAGAAATTGCATTTGTAGCAGCAGGGTTTGGTGGGTGGAAGCTTCAGGGCATATTAAAACCAAGTAGCTAG

Protein sequence

>MsG0280007575.01.T01

LGGLQVHGTQQGWEEAASMFCGASVELKTCNAALLETAGKSWNEVLLYYLAQLFYTFMKFSFSTKDRTEIAFVAAGFGGWKLQGILKPSS*