AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene65140


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene65140.t1 MTR_7g059255 96.429 84 3 0 2 85 91 174 5.95e-54 165
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene65140.t1 AT4G13220 59.302 86 33 1 2 85 91 176 2.54e-29 103

Find 22 sgRNAs with CRISPR-Local

Find 108 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTACAGCTTTCTTTATTT+TGG 0.099548 7.1:+42230190 MS.gene65140:CDS
GTTACTGAAATCCTTGCTAT+TGG 0.328579 7.1:-42230122 None:intergenic
ATCCTTTGGAAGAGGCTAAT+AGG 0.388720 7.1:+42231038 MS.gene65140:CDS
CTTGATCTTTATTGAATGCT+AGG 0.393502 7.1:-42230970 None:intergenic
GAAATCCTTGCTATTGGTCT+TGG 0.422289 7.1:-42230116 None:intergenic
CAAAGGATCATCCATAGGTT+TGG 0.442636 7.1:-42231023 None:intergenic
CAAACCTATGGATGATCCTT+TGG 0.442745 7.1:+42231024 MS.gene65140:CDS
GGAAGAGGCTAATAGGATAA+TGG 0.446378 7.1:+42231045 MS.gene65140:CDS
CAAGAACCACCTAGCGGGAA+TGG 0.467436 7.1:+42230989 MS.gene65140:CDS
GTTTGTTCATAGGCTACCAT+AGG 0.522734 7.1:+42230929 MS.gene65140:intron
AGGAACTACGACCAAACCTA+TGG 0.545163 7.1:+42231012 MS.gene65140:CDS
TGCAAAGTATGCAAGTCCTA+TGG 0.552339 7.1:-42230945 None:intergenic
AAGATCAAGAACCACCTAGC+GGG 0.560815 7.1:+42230984 MS.gene65140:CDS
ATCCTATTAGCCTCTTCCAA+AGG 0.564567 7.1:-42231040 None:intergenic
TATGGATGATCCTTTGGAAG+AGG 0.564870 7.1:+42231030 MS.gene65140:CDS
GTAGTTCCTCCATTCCCGCT+AGG 0.572693 7.1:-42230998 None:intergenic
TCTTCCAAAGGATCATCCAT+AGG 0.581655 7.1:-42231028 None:intergenic
AAATAAAGAAAGCTGTAGAG+AGG 0.616626 7.1:-42230187 None:intergenic
GTTCCTCCATTCCCGCTAGG+TGG 0.621366 7.1:-42230995 None:intergenic
GAACCACCTAGCGGGAATGG+AGG 0.633606 7.1:+42230992 MS.gene65140:CDS
CTGTACCAAGACCAATAGCA+AGG 0.633937 7.1:+42230111 MS.gene65140:CDS
AAAGATCAAGAACCACCTAG+CGG 0.725332 7.1:+42230983 MS.gene65140:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTAATATGATATGAAAAA+TGG - chr7.1:42230224-42230243 None:intergenic 10.0%
!!! TCATTTTTTTATTATCTTTG+TGG + chr7.1:42229712-42229731 MS.gene65140:intron 15.0%
!! AATAAAACCTTAATCATACA+TGG - chr7.1:42229308-42229327 None:intergenic 20.0%
!! AATAGTTGAGACTTATTTAT+AGG - chr7.1:42230383-42230402 None:intergenic 20.0%
!! ATAGTTGAGACTTATTTATA+GGG - chr7.1:42230382-42230401 None:intergenic 20.0%
!! ATATATACTGTTATGAATCA+TGG - chr7.1:42230529-42230548 None:intergenic 20.0%
!! TTCCCTTTAATAACATAATA+TGG - chr7.1:42230590-42230609 None:intergenic 20.0%
!!! AATTTTATGTCCTTCATAAT+TGG + chr7.1:42229624-42229643 MS.gene65140:intron 20.0%
!!! ATTTTATGTCCTTCATAATT+GGG + chr7.1:42229625-42229644 MS.gene65140:intron 20.0%
!!! TGTATGATTAAGGTTTTATT+TGG + chr7.1:42229308-42229327 MS.gene65140:intron 20.0%
! AAAAAATTCAACCCTACAAA+AGG - chr7.1:42230642-42230661 None:intergenic 25.0%
! AAAAATTCAACCCTACAAAA+GGG - chr7.1:42230641-42230660 None:intergenic 25.0%
! AAAATGAAAGAGCAATAGTT+AGG - chr7.1:42229699-42229718 None:intergenic 25.0%
! ATAGTGAATAAACCATAGTT+AGG + chr7.1:42230294-42230313 MS.gene65140:intron 25.0%
! GGCCATATTATGTTATTAAA+GGG + chr7.1:42230585-42230604 MS.gene65140:intron 25.0%
! GTAAAAAACTTGAAAACAAC+AGG - chr7.1:42230022-42230041 None:intergenic 25.0%
! GTTAGGTTATATGTAAACTA+TGG + chr7.1:42230311-42230330 MS.gene65140:intron 25.0%
! GTTTACATATAACCTAACTA+TGG - chr7.1:42230309-42230328 None:intergenic 25.0%
! TAGTTGAGACTTATTTATAG+GGG - chr7.1:42230381-42230400 None:intergenic 25.0%
! TGGCCATATTATGTTATTAA+AGG + chr7.1:42230584-42230603 MS.gene65140:intron 25.0%
! TTGTACTAAATCACTTATTG+CGG - chr7.1:42229898-42229917 None:intergenic 25.0%
!! GCTAATTATGCTATATTTTG+TGG + chr7.1:42230890-42230909 MS.gene65140:intron 25.0%
!! TTAAGTTGTTTATCCAAACA+CGG + chr7.1:42229559-42229578 MS.gene65140:intron 25.0%
!!! CTTATTTTCATTAGTTCTCT+AGG + chr7.1:42229429-42229448 MS.gene65140:intron 25.0%
!!! TACAAAGTATTGTCAAACAA+CGG + chr7.1:42230744-42230763 MS.gene65140:intron 25.0%
AAAATTCAACCCTACAAAAG+GGG - chr7.1:42230640-42230659 None:intergenic 30.0%
AAATAAAGAAAGCTGTAGAG+AGG - chr7.1:42230190-42230209 None:intergenic 30.0%
AAATGGTAATTGTGACTTAC+AGG - chr7.1:42229808-42229827 None:intergenic 30.0%
AATGGTAATTGTGACTTACA+GGG - chr7.1:42229807-42229826 None:intergenic 30.0%
ATATTTGTGCTATATGGTAG+CGG + chr7.1:42229849-42229868 MS.gene65140:intron 30.0%
ATCCTAAAGTCTTAACCATT+GGG - chr7.1:42230847-42230866 None:intergenic 30.0%
CAAAAGACAAAGCAATTATC+AGG - chr7.1:42229197-42229216 None:intergenic 30.0%
CAAGTACATTGTTTGTTCAT+AGG + chr7.1:42230919-42230938 MS.gene65140:intron 30.0%
CTTGATCTTTATTGAATGCT+AGG - chr7.1:42230973-42230992 None:intergenic 30.0%
GAAAACACCATGTATGATTA+AGG + chr7.1:42229298-42229317 MS.gene65140:intron 30.0%
GAGAAACATGAAAAACTAGA+AGG - chr7.1:42230058-42230077 None:intergenic 30.0%
TAAGTCACAATTACCATTTC+CGG + chr7.1:42229809-42229828 MS.gene65140:intron 30.0%
TAGCAGATATTTGTGCTATA+TGG + chr7.1:42229843-42229862 MS.gene65140:intron 30.0%
TATCCTAAAGTCTTAACCAT+TGG - chr7.1:42230848-42230867 None:intergenic 30.0%
TTAAGTGTTCCCAATTATGA+AGG - chr7.1:42229637-42229656 None:intergenic 30.0%
TTCATTGTTCAACAAGTCTT+AGG - chr7.1:42229585-42229604 None:intergenic 30.0%
! AAGGATTTCAGTAACTTTTG+TGG + chr7.1:42230130-42230149 MS.gene65140:CDS 30.0%
! CTATGGTTAGTTAGTTAGTT+AGG + chr7.1:42230328-42230347 MS.gene65140:intron 30.0%
! CTGATAATTGCTTTGTCTTT+TGG + chr7.1:42229195-42229214 MS.gene65140:intron 30.0%
! TCTTAAAGTGCTTACATCAT+TGG - chr7.1:42229354-42229373 None:intergenic 30.0%
! TGGTGTTTTCCTTTCAAAAT+AGG - chr7.1:42229288-42229307 None:intergenic 30.0%
!! CTCTACAGCTTTCTTTATTT+TGG + chr7.1:42230190-42230209 MS.gene65140:CDS 30.0%
!! TGTCTTTTGGAAATTCATGT+GGG + chr7.1:42229208-42229227 MS.gene65140:intron 30.0%
!! TTGTCTTTTGGAAATTCATG+TGG + chr7.1:42229207-42229226 MS.gene65140:intron 30.0%
AAGTCACAATTACCATTTCC+GGG + chr7.1:42229810-42229829 MS.gene65140:intron 35.0%
ACATGAATGAACATGGCAAT+TGG - chr7.1:42230562-42230581 None:intergenic 35.0%
ACTCTACTATGAGTCACTAT+GGG + chr7.1:42230436-42230455 MS.gene65140:intron 35.0%
ATAGCATAGGTGTATTCATG+TGG - chr7.1:42230468-42230487 None:intergenic 35.0%
ATCAGCAAGAAAGATAGCAT+AGG - chr7.1:42230481-42230500 None:intergenic 35.0%
ATCATTATGACCTTTATCCC+TGG + chr7.1:42230499-42230518 MS.gene65140:intron 35.0%
ATTGACAACAAGTTTCCCAA+TGG + chr7.1:42230829-42230848 MS.gene65140:intron 35.0%
GAGTTTATGCATTTGTGATG+AGG + chr7.1:42229259-42229278 MS.gene65140:intron 35.0%
TACTCTACTATGAGTCACTA+TGG + chr7.1:42230435-42230454 MS.gene65140:intron 35.0%
TAGCATAGGTGTATTCATGT+GGG - chr7.1:42230467-42230486 None:intergenic 35.0%
TCATTATGACCTTTATCCCT+GGG + chr7.1:42230500-42230519 MS.gene65140:intron 35.0%
TCTAGCATCAGCAAAAAGAA+GGG - chr7.1:42230088-42230107 None:intergenic 35.0%
TTATGAATCATGGAATCCCA+GGG - chr7.1:42230519-42230538 None:intergenic 35.0%
TTCCCAATGGTTAAGACTTT+AGG + chr7.1:42230842-42230861 MS.gene65140:intron 35.0%
TTCTAGCATCAGCAAAAAGA+AGG - chr7.1:42230089-42230108 None:intergenic 35.0%
! ATATGTCTTTCCCCTTTTGT+AGG + chr7.1:42230627-42230646 MS.gene65140:intron 35.0%
! GTTACTGAAATCCTTGCTAT+TGG - chr7.1:42230125-42230144 None:intergenic 35.0%
! TACAAAGTCTTGTCGAATAG+TGG + chr7.1:42229913-42229932 MS.gene65140:intron 35.0%
! TATGTCTTTCCCCTTTTGTA+GGG + chr7.1:42230628-42230647 MS.gene65140:intron 35.0%
!! ATGAGGCATCCTATTTTGAA+AGG + chr7.1:42229276-42229295 MS.gene65140:intron 35.0%
!! GGGAAACTTGTTGTCAATTA+CGG - chr7.1:42230827-42230846 None:intergenic 35.0%
!! GTAAGCACTTTAAGACTGTT+TGG + chr7.1:42229359-42229378 MS.gene65140:intron 35.0%
AAAGATCAAGAACCACCTAG+CGG + chr7.1:42230983-42231002 MS.gene65140:CDS 40.0%
AGAGCAATAGTTAGGCTTTC+TGG - chr7.1:42229691-42229710 None:intergenic 40.0%
ATCACTTATTGCGGAACAAC+AGG - chr7.1:42229889-42229908 None:intergenic 40.0%
CAAACCTATGGATGATCCTT+TGG + chr7.1:42231024-42231043 MS.gene65140:CDS 40.0%
CAAAGGATCATCCATAGGTT+TGG - chr7.1:42231026-42231045 None:intergenic 40.0%
GGAAGAGGCTAATAGGATAA+TGG + chr7.1:42231045-42231064 MS.gene65140:CDS 40.0%
GTTATGAATCATGGAATCCC+AGG - chr7.1:42230520-42230539 None:intergenic 40.0%
GTTTGTTCATAGGCTACCAT+AGG + chr7.1:42230929-42230948 MS.gene65140:intron 40.0%
TATTTGACAATGCCCGGAAA+TGG - chr7.1:42229825-42229844 None:intergenic 40.0%
TCGAATAGTGGCTATAACAG+TGG + chr7.1:42229925-42229944 MS.gene65140:intron 40.0%
TCTTCCAAAGGATCATCCAT+AGG - chr7.1:42231031-42231050 None:intergenic 40.0%
TGCAAAGTATGCAAGTCCTA+TGG - chr7.1:42230948-42230967 None:intergenic 40.0%
TGCCATGTTCATTCATGTAC+TGG + chr7.1:42230564-42230583 MS.gene65140:intron 40.0%
! AGATAGTTCTGCAGAATGCA+TGG + chr7.1:42229740-42229759 MS.gene65140:intron 40.0%
! ATAGCTGCTGTTTGAAACAG+TGG - chr7.1:42230675-42230694 None:intergenic 40.0%
! ATCCTATTAGCCTCTTCCAA+AGG - chr7.1:42231043-42231062 None:intergenic 40.0%
! ATCCTTTGGAAGAGGCTAAT+AGG + chr7.1:42231038-42231057 MS.gene65140:CDS 40.0%
! ATCTGCTATTTGACAATGCC+CGG - chr7.1:42229831-42229850 None:intergenic 40.0%
! TATGGATGATCCTTTGGAAG+AGG + chr7.1:42231030-42231049 MS.gene65140:CDS 40.0%
!! GAAATCCTTGCTATTGGTCT+TGG - chr7.1:42230119-42230138 None:intergenic 40.0%
!!! ACAGGCAGTTTTTTCAATCG+CGG - chr7.1:42230004-42230023 None:intergenic 40.0%
AACAAGTCTTAGGCCGTGTT+TGG - chr7.1:42229575-42229594 None:intergenic 45.0%
AAGATCAAGAACCACCTAGC+GGG + chr7.1:42230984-42231003 MS.gene65140:CDS 45.0%
AGGAACTACGACCAAACCTA+TGG + chr7.1:42231012-42231031 MS.gene65140:CDS 45.0%
CAATCGCGGATCACAGAAAA+TGG - chr7.1:42229990-42230009 None:intergenic 45.0%
CTGTACCAAGACCAATAGCA+AGG + chr7.1:42230111-42230130 MS.gene65140:CDS 45.0%
GGCCAGTACATGAATGAACA+TGG - chr7.1:42230569-42230588 None:intergenic 45.0%
GGTAAGGATGGAATTGATGC+AGG + chr7.1:42229769-42229788 MS.gene65140:intron 45.0%
GTTATAGCACTGCAGTGTAG+CGG + chr7.1:42229949-42229968 MS.gene65140:intron 45.0%
TCATGGAATCCCAGGGATAA+AGG - chr7.1:42230512-42230531 None:intergenic 45.0%
!! GAATGCATGGAGAGTTGGTA+AGG + chr7.1:42229753-42229772 MS.gene65140:intron 45.0%
CTGCAGAATGCATGGAGAGT+TGG + chr7.1:42229748-42229767 MS.gene65140:intron 50.0%
!! GCATGGAGAGTTGGTAAGGA+TGG + chr7.1:42229757-42229776 MS.gene65140:intron 50.0%
CAAGAACCACCTAGCGGGAA+TGG + chr7.1:42230989-42231008 MS.gene65140:CDS 55.0%
GTAGTTCCTCCATTCCCGCT+AGG - chr7.1:42231001-42231020 None:intergenic 55.0%
GAACCACCTAGCGGGAATGG+AGG + chr7.1:42230992-42231011 MS.gene65140:CDS 60.0%
GTTCCTCCATTCCCGCTAGG+TGG - chr7.1:42230998-42231017 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 42229169 42231081 42229169 ID=MS.gene65140
chr7.1 mRNA 42229169 42231081 42229169 ID=MS.gene65140.t1;Parent=MS.gene65140
chr7.1 exon 42229169 42229180 42229169 ID=MS.gene65140.t1.exon1;Parent=MS.gene65140.t1
chr7.1 CDS 42229169 42229180 42229169 ID=cds.MS.gene65140.t1;Parent=MS.gene65140.t1
chr7.1 exon 42230107 42230211 42230107 ID=MS.gene65140.t1.exon2;Parent=MS.gene65140.t1
chr7.1 CDS 42230107 42230211 42230107 ID=cds.MS.gene65140.t1;Parent=MS.gene65140.t1
chr7.1 exon 42230941 42231081 42230941 ID=MS.gene65140.t1.exon3;Parent=MS.gene65140.t1
chr7.1 CDS 42230941 42231081 42230941 ID=cds.MS.gene65140.t1;Parent=MS.gene65140.t1
Gene Sequence

>MS.gene65140

ATGATGGTTACTGTATTTGATTAAACCTGATAATTGCTTTGTCTTTTGGAAATTCATGTGGGATCAATCACGAGATTAGCAATTTGTCTTGAGTTTATGCATTTGTGATGAGGCATCCTATTTTGAAAGGAAAACACCATGTATGATTAAGGTTTTATTTGGATTGACATCTTTAAGCTTGTCCAATGATGTAAGCACTTTAAGACTGTTTGGAAGAGCTTATAGAATAAACTTATGACATTTCTGTGAGCTATTTTCAGCTTATTTTCATTAGTTCTCTAGGATAGCTTATGAAAACAGCTTATAGCTTATAAGAGAACAATTTGACTTTATTTTTTCTTTTGTTACAGAAATAACTTGTATATAAACTCTTATATGATAATCGCTTAGTTAAGTTGTTTATCCAAACACGGCCTAAGACTTGTTGAACAATGAAATATGTTGCTATTTGTGTCAATTTTATGTCCTTCATAATTGGGAACACTTAATTTTTCAAGAGTTGTTCTGTATAAATTCTGTCCAGAAAGCCTAACTATTGCTCTTTCATTTTTTTATTATCTTTGTGGTTACGAGATAGTTCTGCAGAATGCATGGAGAGTTGGTAAGGATGGAATTGATGCAGGCACAAATCTAGTCCCTGTAAGTCACAATTACCATTTCCGGGCATTGTCAAATAGCAGATATTTGTGCTATATGGTAGCGGAATTTTAACAAATTCCTGTTGTTCCGCAATAAGTGATTTAGTACAAAGTCTTGTCGAATAGTGGCTATAACAGTGGCGTTATAGCACTGCAGTGTAGCGGAATTTGAACAAATCGCCATTTTCTGTGATCCGCGATTGAAAAAACTGCCTGTTGTTTTCAAGTTTTTTACAAGTACTAGAATACCTTCTAGTTTTTCATGTTTCTCTTTTCTTCCCTTCTTTTTGCTGATGCTAGAATTCTGTACCAAGACCAATAGCAAGGATTTCAGTAACTTTTGTGGCTCTGAGTGCTTTGCTTTTTGTGTTCAAGTCTCTCCTCTCTACAGCTTTCTTTATTTTGGTAAGTCATCCATTTTTCATATCATATTAAAATATCAGATTTTTGTTTTAAAATTTTGTATTGCTATAGTATATATTAGAGTATAGTGAATAAACCATAGTTAGGTTATATGTAAACTATGGTTAGTTAGTTAGTTAGGTAGTTGTGAGTTAGTTAGACTAACTCACCCCTATAAATAAGTCTCAACTATTGTACTATCTTTCATCTTTTATCAAATCTAGTTTACTCTACTATGAGTCACTATGGGTATCTCCCACATGAATACACCTATGCTATCTTTCTTGCTGATCATTATGACCTTTATCCCTGGGATTCCATGATTCATAACAGTATATATTCATATGAAACCAATTGCCATGTTCATTCATGTACTGGCCATATTATGTTATTAAAGGGAACTTGTGCATCGAAAAGAATATGTCTTTCCCCTTTTGTAGGGTTGAATTTTTTTTACTTAAAGCCACTGTTTCAAACAGCAGCTATGATTATAGCATAATTTGAACAAATCACTATTCTGCAATACGCTATTTAATACAAAGTATTGTCAAACAACGGCTATAGTTGTGCACTATAGTGTCTCGAAAATTTGAACAAATCACTAATTTCTGCAATCCGTAATTGACAACAAGTTTCCCAATGGTTAAGACTTTAGGATAGTTCTAAGCTTTAAACATCAATGCTAATTATGCTATATTTTGTGGTTAACACAAGTACATTGTTTGTTCATAGGCTACCATAGGACTTGCATACTTTGCATACCTAGCATTCAATAAAGATCAAGAACCACCTAGCGGGAATGGAGGAACTACGACCAAACCTATGGATGATCCTTTGGAAGAGGCTAATAGGATAATGGATAAATACAAGTAG

Protein sequence

>MS.gene65140.t1

MMVTNSVPRPIARISVTFVALSALLFVFKSLLSTAFFILATIGLAYFAYLAFNKDQEPPSGNGGTTTKPMDDPLEEANRIMDKYK