AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene50450


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene50450.t1 MTR_7g092570 95.816 239 9 1 1 239 1 238 1.20e-156 434
MS.gene50450.t1 MTR_7g007430 93.333 105 6 1 109 212 81 185 1.22e-56 179
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene50450.t1 AT2G42260 48.333 180 81 6 64 239 88 259 1.68e-38 135
MS.gene50450.t1 AT2G42260 48.333 180 81 6 64 239 88 259 1.68e-38 135
MS.gene50450.t1 AT3G57860 40.625 256 122 10 1 239 1 243 2.19e-38 134

Find 62 sgRNAs with CRISPR-Local

Find 82 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCAGCTTGATGCAGGATTT+TGG 0.284785 7.2:-16367997 None:intergenic
GCTTCATTCTCTGCTGCTAC+TGG 0.357062 7.2:+16367946 MS.gene50450:CDS
ATCAAGCTGAAAACACCTTA+TGG 0.387510 7.2:+16368009 MS.gene50450:CDS
ACGCGGCGGTCTCGTGCTTC+CGG 0.391950 7.2:-16366700 None:intergenic
TGAGAGAAGGAGGGAGAGAC+AGG 0.393153 7.2:+16367855 MS.gene50450:CDS
TTTGGAACTTTACTTCCATA+AGG 0.419855 7.2:-16368024 None:intergenic
GCTCGTGCGCGTCGTTCTCC+AGG 0.444790 7.2:+16366874 MS.gene50450:CDS
TTTAGGCGATTGAGAGAAGG+AGG 0.446441 7.2:+16367845 MS.gene50450:intron
TGCGCGTCGTTCTCCAGGTT+CGG 0.449151 7.2:+16366879 MS.gene50450:CDS
ATATCCTGCAACGGCGTCCT+CGG 0.451746 7.2:-16366982 None:intergenic
GTACCCGAGGACGCCGTTGC+AGG 0.452614 7.2:+16366978 MS.gene50450:CDS
ACTGAGGAAATTGAGCAAAC+TGG 0.455510 7.2:+16367880 MS.gene50450:CDS
CGATCTGAACCGGCGGTGAA+TGG 0.459393 7.2:-16366814 None:intergenic
ACGAGCAACTTCGCGACGTA+CGG 0.459911 7.2:-16366857 None:intergenic
TTCACGCTCAATTATATCAA+TGG 0.466579 7.2:-16368130 None:intergenic
CCACGGCGAGTGGTGGTTGG+AGG 0.472234 7.2:-16366910 None:intergenic
GCGGTGAATGGAGCGGGTGC+AGG 0.472928 7.2:-16366802 None:intergenic
TCTTGAATCACGGCGGAGAA+AGG 0.474672 7.2:-16366757 None:intergenic
ATCTTCTTCAATTCACCTCA+TGG 0.478558 7.2:-16368235 None:intergenic
AGTGAAGAACCGATCTGAAC+CGG 0.482402 7.2:-16366824 None:intergenic
GTGTTTAGGCGATTGAGAGA+AGG 0.495099 7.2:+16367842 MS.gene50450:intron
CAGAACATCAGAAAAGGGTT+AGG 0.496050 7.2:+16368202 MS.gene50450:CDS
CTTCCACGGCGAGTGGTGGT+TGG 0.501586 7.2:-16366913 None:intergenic
AAACTTCCTGCTGCTGAAGA+TGG 0.501739 7.2:+16368066 MS.gene50450:CDS
GATTCACCATCTTCAGCAGC+AGG 0.505435 7.2:-16368072 None:intergenic
TATCCTGCAACGGCGTCCTC+GGG 0.507871 7.2:-16366981 None:intergenic
GAACCGGCGGTGAATGGAGC+GGG 0.509648 7.2:-16366808 None:intergenic
TTCAGCTGGTTAGCATGAAC+TGG 0.509893 7.2:-16367907 None:intergenic
TCTTCTTCCACGGCGAGTGG+TGG 0.510955 7.2:-16366917 None:intergenic
AAAAGCAGAACATCAGAAAA+GGG 0.528951 7.2:+16368197 MS.gene50450:CDS
GTAGCAGCAGAGAATGAAGC+TGG 0.533970 7.2:-16367943 None:intergenic
GATCAGAGAAAATGTTCAGC+TGG 0.541232 7.2:-16367921 None:intergenic
CGAGCAACTTCGCGACGTAC+GGG 0.553693 7.2:-16366856 None:intergenic
CGAGGAGTGTACTTCCGTCT+TGG 0.554998 7.2:+16366956 MS.gene50450:CDS
ACCACTCGCCGTGGAAGAAG+AGG 0.555978 7.2:+16366919 MS.gene50450:CDS
GCCTCTTCTTCCACGGCGAG+TGG 0.556257 7.2:-16366920 None:intergenic
AATTCACCTCATGGACATCA+AGG 0.566381 7.2:-16368226 None:intergenic
TTAGGCGATTGAGAGAAGGA+GGG 0.570115 7.2:+16367846 MS.gene50450:intron
CATTCACCGCCGGTTCAGAT+CGG 0.577297 7.2:+16366815 MS.gene50450:CDS
TGGAGCGGGTGCAGGTGTAA+CGG 0.585593 7.2:-16366794 None:intergenic
AATAGAGTATCAACGTCAAG+AGG 0.595739 7.2:-16366727 None:intergenic
GAATGCAATAACTTCTTCTG+AGG 0.598545 7.2:-16368108 None:intergenic
CGGCTCAGATTCTTGAATCA+CGG 0.600207 7.2:-16366767 None:intergenic
GAGGGAGAGACAGGGAACTG+AGG 0.604365 7.2:+16367864 MS.gene50450:CDS
CCTCCAACCACCACTCGCCG+TGG 0.618566 7.2:+16366910 MS.gene50450:CDS
TGAACCGGCGGTGAATGGAG+CGG 0.620027 7.2:-16366809 None:intergenic
GGCGTCCTCGGGTACCAAGA+CGG 0.620398 7.2:-16366970 None:intergenic
TACTTCCGTCTTGGTACCCG+AGG 0.623356 7.2:+16366965 MS.gene50450:CDS
GGTGCAGGTGTAACGGAGAG+CGG 0.629682 7.2:-16366787 None:intergenic
CACTCCTCGACGCAGTAGCA+CGG 0.633694 7.2:-16366942 None:intergenic
GAGAGAAGGAGGGAGAGACA+GGG 0.634717 7.2:+16367856 MS.gene50450:CDS
GCACCCGCTCCATTCACCGC+CGG 0.637803 7.2:+16366805 MS.gene50450:CDS
CAACGTCAAGAGGGATGACG+CGG 0.656599 7.2:-16366717 None:intergenic
ATAGAGTATCAACGTCAAGA+GGG 0.669159 7.2:-16366726 None:intergenic
TAGCACGGCCTCTTCTTCCA+CGG 0.680838 7.2:-16366927 None:intergenic
TCACGGCGGAGAAAGGTCGT+CGG 0.682516 7.2:-16366750 None:intergenic
ATAGCAGTGATATCCTGCAA+CGG 0.687557 7.2:-16366991 None:intergenic
GAGGCCGTGCTACTGCGTCG+AGG 0.702265 7.2:+16366938 MS.gene50450:CDS
CGTCAAGAGGGATGACGCGG+CGG 0.704648 7.2:-16366714 None:intergenic
GAAGAACCGATCTGAACCGG+CGG 0.705189 7.2:-16366821 None:intergenic
TTAGGACCTTGATGTCCATG+AGG 0.720116 7.2:+16368220 MS.gene50450:CDS
CTCAGATTCTTGAATCACGG+CGG 0.734730 7.2:-16366764 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATAAAATAAACTAAAAAGC+AGG - chr7.2:16367143-16367162 None:intergenic 15.0%
!!! AGAGAAAATTTTCATTATAA+CGG + chr7.2:16367320-16367339 MS.gene50450:intron 15.0%
!!! GAATTTGATTTAAATTGAAT+TGG + chr7.2:16367684-16367703 MS.gene50450:intron 15.0%
!! ATTCTGTTAATATTGTGTTT+AGG + chr7.2:16367828-16367847 MS.gene50450:intron 20.0%
!! TCTCATCAAAATAGAAAAAA+CGG + chr7.2:16367049-16367068 MS.gene50450:intron 20.0%
!! TTTAAATTGAATTGGCATAA+CGG + chr7.2:16367692-16367711 MS.gene50450:intron 20.0%
!!! TTGATTTGAATTGGAAAAAA+CGG + chr7.2:16367389-16367408 MS.gene50450:intron 20.0%
! CATTTACTTTGCTAATATTC+TGG + chr7.2:16367286-16367305 MS.gene50450:intron 25.0%
! CCGAATAAAGATAAATAAAC+CGG - chr7.2:16367201-16367220 None:intergenic 25.0%
! CCGGTTTATTTATCTTTATT+CGG + chr7.2:16367198-16367217 MS.gene50450:intron 25.0%
!! AGAGAAATTTTTCTTCAGAA+CGG + chr7.2:16367619-16367638 MS.gene50450:intron 25.0%
!! GGTTTTCAATTTTATCTAGA+AGG + chr7.2:16367070-16367089 MS.gene50450:intron 25.0%
!!! GACTAGAATTTGATTTGAAT+TGG + chr7.2:16367380-16367399 MS.gene50450:intron 25.0%
AAAAAGCAGAACATCAGAAA+AGG + chr7.2:16368196-16368215 MS.gene50450:CDS 30.0%
AAAAGCAGAACATCAGAAAA+GGG + chr7.2:16368197-16368216 MS.gene50450:CDS 30.0%
TATATGCGATGCTGAATATT+CGG + chr7.2:16367159-16367178 MS.gene50450:intron 30.0%
TTCACGCTCAATTATATCAA+TGG - chr7.2:16368133-16368152 None:intergenic 30.0%
! GCAATGTCAATGATGATTTT+TGG - chr7.2:16368045-16368064 None:intergenic 30.0%
! TTTGGAACTTTACTTCCATA+AGG - chr7.2:16368027-16368046 None:intergenic 30.0%
!!! TTTCTGATGTTCTGCTTTTT+TGG - chr7.2:16368196-16368215 None:intergenic 30.0%
ATCAAGCTGAAAACACCTTA+TGG + chr7.2:16368009-16368028 MS.gene50450:CDS 35.0%
CGGAATGCTTAATTGAAAAC+CGG + chr7.2:16367179-16367198 MS.gene50450:intron 35.0%
GAATGCAATAACTTCTTCTG+AGG - chr7.2:16368111-16368130 None:intergenic 35.0%
! AATAGAGTATCAACGTCAAG+AGG - chr7.2:16366730-16366749 None:intergenic 35.0%
! ATAGAGTATCAACGTCAAGA+GGG - chr7.2:16366729-16366748 None:intergenic 35.0%
!! AGGATTTTGGTGATTTCTTG+TGG - chr7.2:16367987-16368006 None:intergenic 35.0%
ACTGAGGAAATTGAGCAAAC+TGG + chr7.2:16367880-16367899 MS.gene50450:CDS 40.0%
ATAGCAGTGATATCCTGCAA+CGG - chr7.2:16366994-16367013 None:intergenic 40.0%
CAGAACATCAGAAAAGGGTT+AGG + chr7.2:16368202-16368221 MS.gene50450:CDS 40.0%
GATCAGAGAAAATGTTCAGC+TGG - chr7.2:16367924-16367943 None:intergenic 40.0%
! TTCAGCTTGATGCAGGATTT+TGG - chr7.2:16368000-16368019 None:intergenic 40.0%
!!! TGTTCTGCTTTTTTGGCTGT+AGG - chr7.2:16368189-16368208 None:intergenic 40.0%
AAACTTCCTGCTGCTGAAGA+TGG + chr7.2:16368066-16368085 MS.gene50450:CDS 45.0%
AGTGAAGAACCGATCTGAAC+CGG - chr7.2:16366827-16366846 None:intergenic 45.0%
CGGCTCAGATTCTTGAATCA+CGG - chr7.2:16366770-16366789 None:intergenic 45.0%
CTCAGATTCTTGAATCACGG+CGG - chr7.2:16366767-16366786 None:intergenic 45.0%
GTGTTTAGGCGATTGAGAGA+AGG + chr7.2:16367842-16367861 MS.gene50450:intron 45.0%
TTAGGACCTTGATGTCCATG+AGG + chr7.2:16368220-16368239 MS.gene50450:CDS 45.0%
TTAGGCGATTGAGAGAAGGA+GGG + chr7.2:16367846-16367865 MS.gene50450:intron 45.0%
TTCAGCTGGTTAGCATGAAC+TGG - chr7.2:16367910-16367929 None:intergenic 45.0%
TTTAGGCGATTGAGAGAAGG+AGG + chr7.2:16367845-16367864 MS.gene50450:intron 45.0%
! AGGTGTTTTCAGCTTGATGC+AGG - chr7.2:16368007-16368026 None:intergenic 45.0%
GATTCACCATCTTCAGCAGC+AGG - chr7.2:16368075-16368094 None:intergenic 50.0%
GCTTCATTCTCTGCTGCTAC+TGG + chr7.2:16367946-16367965 MS.gene50450:CDS 50.0%
GTAGCAGCAGAGAATGAAGC+TGG - chr7.2:16367946-16367965 None:intergenic 50.0%
TCTTGAATCACGGCGGAGAA+AGG - chr7.2:16366760-16366779 None:intergenic 50.0%
!!! GGAGGAGTATTTTCCGAACC+TGG - chr7.2:16366895-16366914 None:intergenic 50.0%
ACGAGCAACTTCGCGACGTA+CGG - chr7.2:16366860-16366879 None:intergenic 55.0%
ATATCCTGCAACGGCGTCCT+CGG - chr7.2:16366985-16367004 None:intergenic 55.0%
CAACGTCAAGAGGGATGACG+CGG - chr7.2:16366720-16366739 None:intergenic 55.0%
GAAGAACCGATCTGAACCGG+CGG - chr7.2:16366824-16366843 None:intergenic 55.0%
GAGAGAAGGAGGGAGAGACA+GGG + chr7.2:16367856-16367875 MS.gene50450:CDS 55.0%
TACTTCCGTCTTGGTACCCG+AGG + chr7.2:16366965-16366984 MS.gene50450:CDS 55.0%
TAGCACGGCCTCTTCTTCCA+CGG - chr7.2:16366930-16366949 None:intergenic 55.0%
TGAGAGAAGGAGGGAGAGAC+AGG + chr7.2:16367855-16367874 MS.gene50450:CDS 55.0%
! CGAGGAGTGTACTTCCGTCT+TGG + chr7.2:16366956-16366975 MS.gene50450:CDS 55.0%
!! CATTCACCGCCGGTTCAGAT+CGG + chr7.2:16366815-16366834 MS.gene50450:CDS 55.0%
ACCACTCGCCGTGGAAGAAG+AGG + chr7.2:16366919-16366938 MS.gene50450:CDS 60.0%
CACTCCTCGACGCAGTAGCA+CGG - chr7.2:16366945-16366964 None:intergenic 60.0%
CGAGCAACTTCGCGACGTAC+GGG - chr7.2:16366859-16366878 None:intergenic 60.0%
CGATCTGAACCGGCGGTGAA+TGG - chr7.2:16366817-16366836 None:intergenic 60.0%
GAGGGAGAGACAGGGAACTG+AGG + chr7.2:16367864-16367883 MS.gene50450:CDS 60.0%
TATCCTGCAACGGCGTCCTC+GGG - chr7.2:16366984-16367003 None:intergenic 60.0%
TCACGGCGGAGAAAGGTCGT+CGG - chr7.2:16366753-16366772 None:intergenic 60.0%
TCTTCTTCCACGGCGAGTGG+TGG - chr7.2:16366920-16366939 None:intergenic 60.0%
TGAACCGGCGGTGAATGGAG+CGG - chr7.2:16366812-16366831 None:intergenic 60.0%
TGCGCGTCGTTCTCCAGGTT+CGG + chr7.2:16366879-16366898 MS.gene50450:CDS 60.0%
TGGAGCGGGTGCAGGTGTAA+CGG - chr7.2:16366797-16366816 None:intergenic 60.0%
! GGTGCAGGTGTAACGGAGAG+CGG - chr7.2:16366790-16366809 None:intergenic 60.0%
CGTCAAGAGGGATGACGCGG+CGG - chr7.2:16366717-16366736 None:intergenic 65.0%
CTTCCACGGCGAGTGGTGGT+TGG - chr7.2:16366916-16366935 None:intergenic 65.0%
GAACCGGCGGTGAATGGAGC+GGG - chr7.2:16366811-16366830 None:intergenic 65.0%
GCCTCTTCTTCCACGGCGAG+TGG - chr7.2:16366923-16366942 None:intergenic 65.0%
GGCGTCCTCGGGTACCAAGA+CGG - chr7.2:16366973-16366992 None:intergenic 65.0%
ACGCGGCGGTCTCGTGCTTC+CGG - chr7.2:16366703-16366722 None:intergenic 70.0%
CCACGGCGAGTGGTGGTTGG+AGG - chr7.2:16366913-16366932 None:intergenic 70.0%
CCTCCAACCACCACTCGCCG+TGG + chr7.2:16366910-16366929 MS.gene50450:CDS 70.0%
GCACCCGCTCCATTCACCGC+CGG + chr7.2:16366805-16366824 MS.gene50450:CDS 70.0%
GCGGTGAATGGAGCGGGTGC+AGG - chr7.2:16366805-16366824 None:intergenic 70.0%
GCTCGTGCGCGTCGTTCTCC+AGG + chr7.2:16366874-16366893 MS.gene50450:CDS 70.0%
GTACCCGAGGACGCCGTTGC+AGG + chr7.2:16366978-16366997 MS.gene50450:CDS 70.0%
! GAGGCCGTGCTACTGCGTCG+AGG + chr7.2:16366938-16366957 MS.gene50450:CDS 70.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 16366697 16368245 16366697 ID=MS.gene50450
chr7.2 mRNA 16366697 16368245 16366697 ID=MS.gene50450.t1;Parent=MS.gene50450
chr7.2 exon 16366697 16367020 16366697 ID=MS.gene50450.t1.exon1;Parent=MS.gene50450.t1
chr7.2 CDS 16366697 16367020 16366697 ID=cds.MS.gene50450.t1;Parent=MS.gene50450.t1
chr7.2 exon 16367850 16368245 16367850 ID=MS.gene50450.t1.exon2;Parent=MS.gene50450.t1
chr7.2 CDS 16367850 16368245 16367850 ID=cds.MS.gene50450.t1;Parent=MS.gene50450.t1
Gene Sequence

>MS.gene50450

ATGCCGGAAGCACGAGACCGCCGCGTCATCCCTCTTGACGTTGATACTCTATTCCGACGACCTTTCTCCGCCGTGATTCAAGAATCTGAGCCGCTCTCCGTTACACCTGCACCCGCTCCATTCACCGCCGGTTCAGATCGGTTCTTCACTGAAAGAACTCCCGTACGTCGCGAAGTTGCTCGTGCGCGTCGTTCTCCAGGTTCGGAAAATACTCCTCCAACCACCACTCGCCGTGGAAGAAGAGGCCGTGCTACTGCGTCGAGGAGTGTACTTCCGTCTTGGTACCCGAGGACGCCGTTGCAGGATATCACTGCTATTGTTCGAGTAAATCTCTGATTCTTTTCTCTTTCTCTCTCATCAAAATAGAAAAAACGGTTTTCAATTTTATCTAGAAGGTTCTTTGAATATTTTTAAATTTTAGTTTAATATTAATATAATGATATCCTGCTTTTTAGTTTATTTTATATGCGATGCTGAATATTCGGAATGCTTAATTGAAAACCGGTTTATTTATCTTTATTCGGTTGTTTTGATAATTTGTTATGTGATGCTTAATTGTCTGTGATGAGTTTATCTTTAATTTGATTTGCATTTACTTTGCTAATATTCTGGTTAGCAAATTGAGAGAAAATTTTCATTATAACGGTTTAGCTTTAATCTTAAACGTTCTTTTGAGATACTTTGACTAGAATTTGATTTGAATTGGAAAAAACGGTTAATCTTTAATTAATCTAGAACGTTCTTTTGTTTTTAATATATATTTTGAATTTGAATTTTGAACTTGATTTTAGTTTAATTATATTAAATTCTGTCACAATATTCTGTTGTTCATTTGTTATGTGATACTTAATTTTCTGTGTTTAGTTTACGTTTAATTTGAATTTGATTTGATTTTACTTTGTTAATACTGTTTATTGAATTGAGAGAAATTTTTCTTCAGAACGGTTTAACTTTAAGCATAACTTCTCTTTGAAGTGTATTTGACTAGAATTTGATTTAAATTGAATTGGCATAACGGCTGTTTGTTGAGTTCAATTTGAATTGAATATGAACTTTATCGTTGTTAATGTTCTGTTGATTTGTTATGTGATGATGAATTTTCTGTATGTTTAGTTCAATCTGACTAATTTGATTCTGTTAATATTGTGTTTAGGCGATTGAGAGAAGGAGGGAGAGACAGGGAACTGAGGAAATTGAGCAAACTGGAACACCAGTTCATGCTAACCAGCTGAACATTTTCTCTGATCCAGCTTCATTCTCTGCTGCTACTGGATCTTCTTCACGTATCCACAAGAAATCACCAAAATCCTGCATCAAGCTGAAAACACCTTATGGAAGTAAAGTTCCAAAAATCATCATTGACATTGCAAAACTTCCTGCTGCTGAAGATGGTGAATCAGAGCTTCTGACTCCTCAGAAGAAGTTATTGCATTCCATTGATATAATTGAGCGTGAAGTGAAGCAAGAGTTGATGAAACTCAAGAGAACTCCTACAGCCAAAAAAGCAGAACATCAGAAAAGGGTTAGGACCTTGATGTCCATGAGGTGA

Protein sequence

>MS.gene50450.t1

MPEARDRRVIPLDVDTLFRRPFSAVIQESEPLSVTPAPAPFTAGSDRFFTERTPVRREVARARRSPGSENTPPTTTRRGRRGRATASRSVLPSWYPRTPLQDITAIVRAIERRRERQGTEEIEQTGTPVHANQLNIFSDPASFSAATGSSSRIHKKSPKSCIKLKTPYGSKVPKIIIDIAKLPAAEDGESELLTPQKKLLHSIDIIEREVKQELMKLKRTPTAKKAEHQKRVRTLMSMR