AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880045997.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880045997.01.T01 MTR_4g097180 100.000 91 0 0 1 91 1 91 3.86e-56 168
MsG0880045997.01.T01 MTR_4g097180 84.615 91 14 0 1 91 1 91 1.74e-45 142
MsG0880045997.01.T01 MTR_4g097180 78.022 91 0 1 1 91 1 71 3.19e-39 125
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880045997.01.T01 AT2G41420 90.000 40 3 1 16 55 18 56 1.91e-12 58.2

Find 55 sgRNAs with CRISPR-Local

Find 96 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGACTCATCACTGTGATTC+TGG 0.122912 8:-67389114 MsG0880045997.01.T01:three_prime_UTR
TCGATTCCTTAGTCGGTTTC+AGG 0.212164 8:-67390428 None:intergenic
GAAATTCAAGTGAATGAAAT+TGG 0.246504 8:-67388953 MsG0880045997.01.T01:three_prime_UTR
TTGTGATGTGAGAGGGGAAT+AGG 0.253190 8:+67390348 None:intergenic
TGTGATGTGAGAGGGGAATA+GGG 0.312471 8:+67390349 None:intergenic
AATGATGTTAGGATTTCTTT+AGG 0.318056 8:-67389087 MsG0880045997.01.T01:three_prime_UTR
GGTGGAGGATAAGCATCTTT+TGG 0.329864 8:+67390066 None:intergenic
ATATGTGAGGGGAAGTTTCT+TGG 0.352642 8:+67390391 None:intergenic
ATACAGAATCATAGAGAAAC+TGG 0.369533 8:+67389016 None:intergenic
TGACTCATCACTGTGATTCT+GGG 0.399117 8:-67389113 MsG0880045997.01.T01:three_prime_UTR
AAAGAAGTTGGGTTTCTTGA+AGG 0.411575 8:-67389925 MsG0880045997.01.T01:CDS
GTTGAGGGTAACCTTGTTGA+GGG 0.426801 8:+67390037 None:intergenic
AATAAAATTCATGAATTCAC+TGG 0.431072 8:+67388988 None:intergenic
CTCAGCAGAACAAAGAAGTT+GGG 0.464502 8:-67389936 MsG0880045997.01.T01:CDS
ATTCTGGGAGAAATGATGTT+AGG 0.466533 8:-67389098 MsG0880045997.01.T01:three_prime_UTR
CCTCAGCAGAACAAAGAAGT+TGG 0.467145 8:-67389937 MsG0880045997.01.T01:CDS
GAGGAGGGTACCCTTGTTGA+GGG 0.472377 8:+67390022 None:intergenic
AAGTTGGGTTTCTTGAAGGA+TGG 0.500969 8:-67389921 MsG0880045997.01.T01:intron
AAGTGGGTAACTTACCTTGT+GGG 0.504655 8:+67390206 None:intergenic
GTGAATATTTGTGATGTGAG+AGG 0.507391 8:+67390340 None:intergenic
TGTTGAGGGTAACCTTGTTG+AGG 0.507742 8:+67390036 None:intergenic
CCAACTTCTTTGTTCTGCTG+AGG 0.519163 8:+67389937 None:intergenic
GTGGTGGGTAACCTTGTTGA+GGG 0.538021 8:+67389977 None:intergenic
AGAAGGAGAAGAATATGTGA+GGG 0.540281 8:+67390379 None:intergenic
TGAGGAGGGTACCCTTGTTG+AGG 0.545434 8:+67390021 None:intergenic
ACTCTGCTGCTGTTGTATGT+TGG 0.545937 8:-67389171 MsG0880045997.01.T01:CDS
TGTTGAGCATACTGTTGTGG+TGG 0.557505 8:+67389961 None:intergenic
TGTTGAGGGTACCCTTGTTG+AGG 0.562760 8:+67389991 None:intergenic
TAACCTTGTTGAGGGTACCC+TGG 0.565192 8:+67390045 None:intergenic
CCTCAAGGTTATCCTCAACA+AGG 0.567313 8:-67390003 MsG0880045997.01.T01:CDS
TGTGGTGGGTAACCTTGTTG+AGG 0.567440 8:+67389976 None:intergenic
TGTTGAGGGTACCCTGGTGG+AGG 0.570432 8:+67390051 None:intergenic
TGAATATTTGTGATGTGAGA+GGG 0.571406 8:+67390341 None:intergenic
AAAGATGCTTATCCTCCACC+AGG 0.572538 8:-67390063 MsG0880045997.01.T01:CDS
GTTGAGCATACTGTTGTGGT+GGG 0.575588 8:+67389962 None:intergenic
GGTTGTTGAGCATACTGTTG+TGG 0.582415 8:+67389958 None:intergenic
AGTGGGTAACTTACCTTGTG+GGG 0.595079 8:+67390207 None:intergenic
CAACAAGGTTACCCTCAACA+AGG 0.595366 8:-67390033 MsG0880045997.01.T01:CDS
TAGAAGGAGAAGAATATGTG+AGG 0.598752 8:+67390378 None:intergenic
CAACAAGGGTACCCTCCTCA+AGG 0.602251 8:-67390018 MsG0880045997.01.T01:CDS
ATGATCGTAGTAGCTCATGA+TGG 0.603553 8:+67390258 None:intergenic
GAATATTTGTGATGTGAGAG+GGG 0.605786 8:+67390342 None:intergenic
CCTTGTTGAGGGTACCCTGG+TGG 0.618704 8:+67390048 None:intergenic
GAAGGAGAAGAATATGTGAG+GGG 0.621250 8:+67390380 None:intergenic
TGTTGAGGATAACCTTGAGG+AGG 0.621533 8:+67390006 None:intergenic
GTTGAGGATAACCTTGAGGA+GGG 0.623005 8:+67390007 None:intergenic
CAACAAGGGTACCCTCAACA+AGG 0.630009 8:-67389988 MsG0880045997.01.T01:CDS
CCACCAGGGTACCCTCAACA+AGG 0.630009 8:-67390048 MsG0880045997.01.T01:CDS
CATCAACAACAACCTCCTGT+TGG 0.640812 8:-67390238 MsG0880045997.01.T01:CDS
CCTTGTTGAGGATAACCTTG+AGG 0.661578 8:+67390003 None:intergenic
CAGAATCATAGAGAAACTGG+AGG 0.670587 8:+67389019 None:intergenic
AACAAGGTTACCCTCAACAA+GGG 0.691413 8:-67390032 MsG0880045997.01.T01:CDS
CTCAAGGTTATCCTCAACAA+GGG 0.694740 8:-67390002 MsG0880045997.01.T01:CDS
GTGGGTAACTTACCTTGTGG+GGG 0.700460 8:+67390208 None:intergenic
AAGATGCTTATCCTCCACCA+GGG 0.737144 8:-67390062 MsG0880045997.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAAAATATAATTTTTTTTTT+TGG + Chr8:67389611-67389630 None:intergenic 0.0%
!! TTAATTATGGATATGTTTAA+TGG - Chr8:67389769-67389788 MsG0880045997.01.T01:intron 15.0%
!!! ATATATGATTTTGTTGAATT+AGG - Chr8:67389850-67389869 MsG0880045997.01.T01:intron 15.0%
!!! TTGGAATTGATTTTTAATTA+TGG - Chr8:67389756-67389775 MsG0880045997.01.T01:intron 15.0%
!! AATAAAATTCATGAATTCAC+TGG + Chr8:67390380-67390399 None:intergenic 20.0%
!! ACGAAAATCTTAATAATCTT+AGG - Chr8:67389807-67389826 MsG0880045997.01.T01:intron 20.0%
!! ATCTTCGAATAAAACAAAAA+AGG + Chr8:67389533-67389552 None:intergenic 20.0%
!! TGTTTATAGAAGAAAAGTAA+TGG - Chr8:67390140-67390159 MsG0880045997.01.T01:intron 20.0%
!!! AACATGATTTTTGTTGAATT+AGG - Chr8:67389708-67389727 MsG0880045997.01.T01:intron 20.0%
!!! AAGGAAATTCTAATGATTTT+TGG - Chr8:67389977-67389996 MsG0880045997.01.T01:CDS 20.0%
!!! AATCTTGTGTTTTTGATTAA+AGG - Chr8:67389269-67389288 MsG0880045997.01.T01:intron 20.0%
!!! ATCTTGTGTTTTTGATTAAA+GGG - Chr8:67389270-67389289 MsG0880045997.01.T01:intron 20.0%
!!! GATATATGACAAATTGATTT+AGG - Chr8:67389999-67390018 MsG0880045997.01.T01:CDS 20.0%
!!! TTTTCTTGTTTTTGTTTCAT+GGG - Chr8:67389207-67389226 MsG0880045997.01.T01:intron 20.0%
! AATGATGTTAGGATTTCTTT+AGG - Chr8:67390278-67390297 MsG0880045997.01.T01:five_prime_UTR 25.0%
! ATTGATTGATGTGGAAAATA+AGG - Chr8:67389648-67389667 MsG0880045997.01.T01:intron 25.0%
! GAAATTCAAGTGAATGAAAT+TGG - Chr8:67390412-67390431 MsG0880045997.01.T01:five_prime_UTR 25.0%
! GAGTCAATAGATATAATTGT+TGG - Chr8:67389882-67389901 MsG0880045997.01.T01:intron 25.0%
! TTGAAAACAAAACAAGAAGT+GGG + Chr8:67389178-67389197 None:intergenic 25.0%
! TTGTTGAATTAGGAAATACA+AGG - Chr8:67389860-67389879 MsG0880045997.01.T01:intron 25.0%
!! CTATATTAAGAGCATACAAA+AGG - Chr8:67389958-67389977 MsG0880045997.01.T01:CDS 25.0%
!! TTTTTGTTGAATTAGGAAGT+AGG - Chr8:67389715-67389734 MsG0880045997.01.T01:intron 25.0%
!!! AGATAGTATGTCTTATTTTG+AGG - Chr8:67390313-67390332 MsG0880045997.01.T01:five_prime_UTR 25.0%
!!! CTTTTCTTGTTTTTGTTTCA+TGG - Chr8:67389206-67389225 MsG0880045997.01.T01:intron 25.0%
!!! TTTGATTTTTTAGTCAGATC+AGG - Chr8:67389553-67389572 MsG0880045997.01.T01:intron 25.0%
ATACAGAATCATAGAGAAAC+TGG + Chr8:67390352-67390371 None:intergenic 30.0%
CTTGAAAACAAAACAAGAAG+TGG + Chr8:67389179-67389198 None:intergenic 30.0%
TACACATGCATAGCAAAAAA+AGG + Chr8:67389492-67389511 None:intergenic 30.0%
TGAATATTTGTGATGTGAGA+GGG + Chr8:67389027-67389046 None:intergenic 30.0%
TTGTATGCTCTTAATATAGC+AGG + Chr8:67389957-67389976 None:intergenic 30.0%
! GTTGAAATCATTGATTGATG+TGG - Chr8:67389639-67389658 MsG0880045997.01.T01:intron 30.0%
!!! TTGTGTTTTGTTTTGCAGTT+TGG - Chr8:67390167-67390186 MsG0880045997.01.T01:intron 30.0%
AAAGAAGTTGGGTTTCTTGA+AGG - Chr8:67389440-67389459 MsG0880045997.01.T01:intron 35.0%
AATTAGGAAGTAGGAGTCAA+TGG - Chr8:67389724-67389743 MsG0880045997.01.T01:intron 35.0%
AGAAGGAGAAGAATATGTGA+GGG + Chr8:67388989-67389008 None:intergenic 35.0%
GAATATTTGTGATGTGAGAG+GGG + Chr8:67389026-67389045 None:intergenic 35.0%
GACTTCAACAATTTCGATCT+GGG - Chr8:67389578-67389597 MsG0880045997.01.T01:intron 35.0%
GCAAACATATACACACATGT+TGG + Chr8:67390067-67390086 None:intergenic 35.0%
GTGAATATTTGTGATGTGAG+AGG + Chr8:67389028-67389047 None:intergenic 35.0%
TAGAAGGAGAAGAATATGTG+AGG + Chr8:67388990-67389009 None:intergenic 35.0%
TGACTTCAACAATTTCGATC+TGG - Chr8:67389577-67389596 MsG0880045997.01.T01:intron 35.0%
! ATTCTGGGAGAAATGATGTT+AGG - Chr8:67390267-67390286 MsG0880045997.01.T01:exon 35.0%
! GGGAATAGGGTTTTTATAGA+AGG + Chr8:67389006-67389025 None:intergenic 35.0%
!!! TGGATGCTTGCTTTTAGTTT+TGG - Chr8:67390214-67390233 MsG0880045997.01.T01:intron 35.0%
AACAAGGTTACCCTCAACAA+GGG - Chr8:67389333-67389352 MsG0880045997.01.T01:intron 40.0%
AAGTGGGTAACTTACCTTGT+GGG + Chr8:67389162-67389181 None:intergenic 40.0%
AAGTTGGGTTTCTTGAAGGA+TGG - Chr8:67389444-67389463 MsG0880045997.01.T01:intron 40.0%
ATATGTGAGGGGAAGTTTCT+TGG + Chr8:67388977-67388996 None:intergenic 40.0%
ATGATCGTAGTAGCTCATGA+TGG + Chr8:67389110-67389129 None:intergenic 40.0%
CACACATGTTGGAGATCTTA+AGG + Chr8:67390056-67390075 None:intergenic 40.0%
CAGAATCATAGAGAAACTGG+AGG + Chr8:67390349-67390368 None:intergenic 40.0%
CTCAAGGTTATCCTCAACAA+GGG - Chr8:67389363-67389382 MsG0880045997.01.T01:intron 40.0%
CTCAGCAGAACAAAGAAGTT+GGG - Chr8:67389429-67389448 MsG0880045997.01.T01:intron 40.0%
GAAGGAGAAGAATATGTGAG+GGG + Chr8:67388988-67389007 None:intergenic 40.0%
TGACTCATCACTGTGATTCT+GGG - Chr8:67390252-67390271 MsG0880045997.01.T01:CDS 40.0%
TTGACTCATCACTGTGATTC+TGG - Chr8:67390251-67390270 MsG0880045997.01.T01:CDS 40.0%
AAAGATGCTTATCCTCCACC+AGG - Chr8:67389302-67389321 MsG0880045997.01.T01:intron 45.0%
AAGATGCTTATCCTCCACCA+GGG - Chr8:67389303-67389322 MsG0880045997.01.T01:intron 45.0%
ACTCTGCTGCTGTTGTATGT+TGG - Chr8:67390194-67390213 MsG0880045997.01.T01:intron 45.0%
AGTGGGTAACTTACCTTGTG+GGG + Chr8:67389161-67389180 None:intergenic 45.0%
CAACAAGGTTACCCTCAACA+AGG - Chr8:67389332-67389351 MsG0880045997.01.T01:intron 45.0%
CATCAACAACAACCTCCTGT+TGG - Chr8:67389127-67389146 MsG0880045997.01.T01:three_prime_UTR 45.0%
CCAACTTCTTTGTTCTGCTG+AGG + Chr8:67389431-67389450 None:intergenic 45.0%
CCTCAAGGTTATCCTCAACA+AGG - Chr8:67389362-67389381 MsG0880045997.01.T01:intron 45.0%
CCTCAGCAGAACAAAGAAGT+TGG - Chr8:67389428-67389447 MsG0880045997.01.T01:intron 45.0%
CCTTGTTGAGGATAACCTTG+AGG + Chr8:67389365-67389384 None:intergenic 45.0%
GAAGTGGGTAACTTACCTTG+TGG + Chr8:67389163-67389182 None:intergenic 45.0%
GAGTCAATGGATGTGATGGT+TGG - Chr8:67389737-67389756 MsG0880045997.01.T01:intron 45.0%
GGTTGTTGAGCATACTGTTG+TGG + Chr8:67389410-67389429 None:intergenic 45.0%
GTAGGAGTCAATGGATGTGA+TGG - Chr8:67389733-67389752 MsG0880045997.01.T01:intron 45.0%
GTTGAGCATACTGTTGTGGT+GGG + Chr8:67389406-67389425 None:intergenic 45.0%
GTTGAGGATAACCTTGAGGA+GGG + Chr8:67389361-67389380 None:intergenic 45.0%
GTTGAGGGTAACCTTGTTGA+GGG + Chr8:67389331-67389350 None:intergenic 45.0%
TGTGATGTGAGAGGGGAATA+GGG + Chr8:67389019-67389038 None:intergenic 45.0%
TGTTGAGCATACTGTTGTGG+TGG + Chr8:67389407-67389426 None:intergenic 45.0%
TGTTGAGGATAACCTTGAGG+AGG + Chr8:67389362-67389381 None:intergenic 45.0%
TGTTGAGGGTAACCTTGTTG+AGG + Chr8:67389332-67389351 None:intergenic 45.0%
TTGTGATGTGAGAGGGGAAT+AGG + Chr8:67389020-67389039 None:intergenic 45.0%
! GGAGGATAAGCATCTTTTGG+TGG + Chr8:67389299-67389318 None:intergenic 45.0%
! GGTGGAGGATAAGCATCTTT+TGG + Chr8:67389302-67389321 None:intergenic 45.0%
GTGGGTAACTTACCTTGTGG+GGG + Chr8:67389160-67389179 None:intergenic 50.0%
!! CAACAAGGGTACCCTCAACA+AGG - Chr8:67389377-67389396 MsG0880045997.01.T01:intron 50.0%
!! GTGGTGGGTAACCTTGTTGA+GGG + Chr8:67389391-67389410 None:intergenic 50.0%
!! TAACCTTGTTGAGGGTACCC+TGG + Chr8:67389323-67389342 None:intergenic 50.0%
!! TGTGGTGGGTAACCTTGTTG+AGG + Chr8:67389392-67389411 None:intergenic 50.0%
!! TGTTGAGGGTACCCTTGTTG+AGG + Chr8:67389377-67389396 None:intergenic 50.0%
GGTAACTTACCTTGTGGGGG+TGG + Chr8:67389157-67389176 None:intergenic 55.0%
!! CAACAAGGGTACCCTCCTCA+AGG - Chr8:67389347-67389366 MsG0880045997.01.T01:intron 55.0%
!! GAGGAGGGTACCCTTGTTGA+GGG + Chr8:67389346-67389365 None:intergenic 55.0%
!! TGAGGAGGGTACCCTTGTTG+AGG + Chr8:67389347-67389366 None:intergenic 55.0%
TGTGGGGGTGGAACACCAAC+AGG + Chr8:67389145-67389164 None:intergenic 60.0%
! CCACCAGGGTACCCTCAACA+AGG - Chr8:67389317-67389336 MsG0880045997.01.T01:intron 60.0%
! GTTGGTGTTCCACCCCCACA+AGG - Chr8:67389145-67389164 MsG0880045997.01.T01:exon 60.0%
!! CCTTGTTGAGGGTACCCTGG+TGG + Chr8:67389320-67389339 None:intergenic 60.0%
!! TGTTGAGGGTACCCTGGTGG+AGG + Chr8:67389317-67389336 None:intergenic 60.0%
GGGGGTGGAACACCAACAGG+AGG + Chr8:67389142-67389161 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
Chr8 gene 67388947 67390440 67388947 ID=MsG0880045997.01;Name=MsG0880045997.01
Chr8 mRNA 67388947 67390440 67388947 ID=MsG0880045997.01.T01;Parent=MsG0880045997.01;Name=MsG0880045997.01.T01;_AED=0.50;_eAED=0.50;_QI=165|1|1|1|0.5|0.66|3|210|91
Chr8 exon 67388947 67389202 67388947 ID=MsG0880045997.01.T01:exon:15622;Parent=MsG0880045997.01.T01
Chr8 exon 67389922 67390096 67389922 ID=MsG0880045997.01.T01:exon:15621;Parent=MsG0880045997.01.T01
Chr8 exon 67390221 67390440 67390221 ID=MsG0880045997.01.T01:exon:15620;Parent=MsG0880045997.01.T01
Chr8 five_prime_UTR 67390276 67390440 67390276 ID=MsG0880045997.01.T01:five_prime_utr;Parent=MsG0880045997.01.T01
Chr8 CDS 67390221 67390275 67390221 ID=MsG0880045997.01.T01:cds;Parent=MsG0880045997.01.T01
Chr8 CDS 67389922 67390096 67389922 ID=MsG0880045997.01.T01:cds;Parent=MsG0880045997.01.T01
Chr8 CDS 67389157 67389202 67389157 ID=MsG0880045997.01.T01:cds;Parent=MsG0880045997.01.T01
Chr8 three_prime_UTR 67388947 67389156 67388947 ID=MsG0880045997.01.T01:three_prime_utr;Parent=MsG0880045997.01.T01
Gene Sequence

>MsG0880045997.01.T01

ATGAGCTACTACGATCATCAACAACAACCTCCTGTTGGTGTTCCACCCCCACAAGGGTATCCACCAAAAGATGCTTATCCTCCACCAGGGTACCCTCAACAAGGTTACCCTCAACAAGGGTACCCTCCTCAAGGTTATCCTCAACAAGGGTACCCTCAACAAGGTTACCCACCACAACAGTATGCTCAACAACCTCAGCAGAACAAAGAAGTTGGGTTTCTTGAAGGATGTTTGGCTGCACTCTGCTGCTGTTGTATGTTGGATGCTTGCTTTTAG
Protein sequence

>MsG0880045997.01.T01

MSYYDHQQQPPVGVPPPQGYPPKDAYPPPGYPQQGYPQQGYPPQGYPQQGYPQQGYPPQQYAQQPQQNKEVGFLEGCLAALCCCCMLDACF*