AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene069854


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene069854.t1 MTR_2g101430 89.744 273 20 1 1 265 1 273 2.65e-178 491
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene069854.t1 AT1G51080 48.416 221 103 4 47 259 63 280 1.43e-55 180

Find 76 sgRNAs with CRISPR-Local

Find 75 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGACCTTCTCGGCACTTCTA+AGG 0.214375 2.1:-3752893 MS.gene069854:CDS
TTTGCTCTTAATGTGTTAAA+TGG 0.235237 2.1:-3753036 MS.gene069854:CDS
TCATGTTTACTTTATGTTTC+GGG 0.243260 2.1:-3753325 MS.gene069854:CDS
GTTAGGTTGGGTGTTGGTAT+TGG 0.265352 2.1:+3752828 None:intergenic
ATCATGTTTACTTTATGTTT+CGG 0.295381 2.1:-3753326 MS.gene069854:CDS
TAGCAGGTGGGTGGTTAGGT+TGG 0.367914 2.1:+3752815 None:intergenic
AAAGTTGATTTCGACCTTCT+CGG 0.376013 2.1:-3752904 MS.gene069854:CDS
CGAAATCTATTATTCTGTCT+CGG 0.376173 2.1:+3753211 None:intergenic
TAGGATGCTGCCATGGTTGA+TGG 0.394720 2.1:+3752582 None:intergenic
TCAATGCGGTCTTTGTAGAT+TGG 0.399152 2.1:+3753066 None:intergenic
CTTAAGAGCACGCGAGTTTG+AGG 0.411946 2.1:-3753124 MS.gene069854:CDS
CTAGTAGCAGGTGGGTGGTT+AGG 0.415512 2.1:+3752811 None:intergenic
CGAGACAGAATAATAGATTT+CGG 0.417784 2.1:-3753210 MS.gene069854:CDS
CAATCCATTCCCCGGACGTC+AGG 0.418797 2.1:-3752620 MS.gene069854:CDS
TCTGCTGCTGCTAGATCCAT+TGG 0.419249 2.1:-3753000 MS.gene069854:CDS
CTTTGTAGATTGGGTCTAGA+AGG 0.419945 2.1:+3753076 None:intergenic
CAATGCGGTCTTTGTAGATT+GGG 0.420162 2.1:+3753067 None:intergenic
TTTAAAGTTGAGTTTAGCTT+AGG 0.423436 2.1:+3752563 None:intergenic
AGCAGGTGGGTGGTTAGGTT+GGG 0.433268 2.1:+3752816 None:intergenic
CAGGAGATAAGCAAGAGATT+TGG 0.434593 2.1:-3752958 MS.gene069854:CDS
TTCAGAAAGAGAAATTAAAC+TGG 0.440028 2.1:-3753235 MS.gene069854:CDS
TGGGTGGTTAGGTTGGGTGT+TGG 0.441793 2.1:+3752822 None:intergenic
GAAATCTATTATTCTGTCTC+GGG 0.448218 2.1:+3753212 None:intergenic
CTCAGAATCTGCCGCTCCAA+TGG 0.465779 2.1:+3752984 None:intergenic
ACGGAGAAGAGCCTGACGTC+CGG 0.467710 2.1:+3752609 None:intergenic
AAATCAAAAGCAGCGTTATG+TGG 0.472830 2.1:-3753286 MS.gene069854:CDS
CCACCTGCTACTAGTATCAT+TGG 0.480418 2.1:-3752802 MS.gene069854:CDS
GATAAGCAAGAGATTTGGTT+GGG 0.481364 2.1:-3752953 MS.gene069854:CDS
AGAGCCTGACGTCCGGGGAA+TGG 0.482518 2.1:+3752616 None:intergenic
AAATACAAGGGGAAGATGTT+GGG 0.485271 2.1:-3753186 MS.gene069854:CDS
CGGAGAAGAGCCTGACGTCC+GGG 0.490784 2.1:+3752610 None:intergenic
GACCTTCTCGGCACTTCTAA+GGG 0.491235 2.1:-3752892 MS.gene069854:CDS
AAAATACAAGGGGAAGATGT+TGG 0.491381 2.1:-3753187 MS.gene069854:CDS
CTGACGTCCGGGGAATGGAT+TGG 0.498352 2.1:+3752621 None:intergenic
AGCGGCAGATTCTGAGCTGC+AGG 0.508668 2.1:-3752977 MS.gene069854:CDS
CCACATTGTTGTCCTTCTGT+TGG 0.509399 2.1:+3752689 None:intergenic
TGCCATGGTTGATGGCCTTA+CGG 0.514572 2.1:+3752590 None:intergenic
TCGCTGAAATTGACAAGTCT+CGG 0.520757 2.1:+3752859 None:intergenic
TTCCGTCGAGCTACCTCAAG+TGG 0.521226 2.1:-3753158 MS.gene069854:CDS
AGCACGCGAGTTTGAGGAGT+GGG 0.522721 2.1:-3753118 MS.gene069854:CDS
ACAGTAGTAGTAGGACTAAG+AGG 0.528829 2.1:-3752765 MS.gene069854:CDS
AATAGATTTCGGAAAATACA+AGG 0.531136 2.1:-3753199 MS.gene069854:CDS
GCCATTGCCAATCCATTCCC+CGG 0.538546 2.1:-3752628 MS.gene069854:CDS
ACGGTAGTAACAGTAGTAGT+AGG 0.539912 2.1:-3752774 MS.gene069854:CDS
CTCCCTTAGAAGTGCCGAGA+AGG 0.555291 2.1:+3752890 None:intergenic
AATCAAAAGCAGCGTTATGT+GGG 0.565427 2.1:-3753285 MS.gene069854:CDS
TGCTCCAACCAACTTTGTCA+AGG 0.565623 2.1:+3752926 None:intergenic
ACGTCAGGCTCTTCTCCGTA+AGG 0.566162 2.1:-3752605 MS.gene069854:CDS
AAATGAAGCGCACCAACAGA+AGG 0.567882 2.1:-3752701 MS.gene069854:CDS
AGATAAGCAAGAGATTTGGT+TGG 0.569741 2.1:-3752954 MS.gene069854:CDS
TAGTAGTAGGACTAAGAGGA+TGG 0.572795 2.1:-3752761 MS.gene069854:CDS
CTACCAATGATACTAGTAGC+AGG 0.580274 2.1:+3752799 None:intergenic
TCCGGGGAATGGATTGGCAA+TGG 0.584712 2.1:+3752627 None:intergenic
TGGGATAACCTTGACAAAGT+TGG 0.586673 2.1:-3752934 MS.gene069854:CDS
ATAACCTTGACAAAGTTGGT+TGG 0.591237 2.1:-3752930 MS.gene069854:CDS
TTCTCGGCACTTCTAAGGGA+GGG 0.601983 2.1:-3752888 MS.gene069854:CDS
TTTAGCTTAGGATGCTGCCA+TGG 0.602732 2.1:+3752575 None:intergenic
CTCCGTAAGGCCATCAACCA+TGG 0.607049 2.1:-3752592 MS.gene069854:CDS
TCTACAAAGACCGCATTGAG+TGG 0.608441 2.1:-3753062 MS.gene069854:CDS
ACTAGTATCATTGGTAGCAA+CGG 0.610173 2.1:-3752793 MS.gene069854:CDS
TCCGTCGAGCTACCTCAAGT+GGG 0.610493 2.1:-3753157 MS.gene069854:CDS
CCAATGATACTAGTAGCAGG+TGG 0.627861 2.1:+3752802 None:intergenic
ATAGATTTCGGAAAATACAA+GGG 0.628131 2.1:-3753198 MS.gene069854:CDS
CGAGACAGAAAATGAGATCG+AGG 0.635307 2.1:-3752729 MS.gene069854:CDS
TGATACTAGTAGCAGGTGGG+TGG 0.637051 2.1:+3752806 None:intergenic
CTACAAAGACCGCATTGAGT+GGG 0.639133 2.1:-3753061 MS.gene069854:CDS
GGAGAAGAGCCTGACGTCCG+GGG 0.642345 2.1:+3752611 None:intergenic
CTTCTCGGCACTTCTAAGGG+AGG 0.649267 2.1:-3752889 MS.gene069854:CDS
TAGATTTCGGAAAATACAAG+GGG 0.656423 2.1:-3753197 MS.gene069854:CDS
ACTTGAGGTAGCTCGACGGA+AGG 0.664751 2.1:+3753160 None:intergenic
CAATGATACTAGTAGCAGGT+GGG 0.664856 2.1:+3752803 None:intergenic
TGCTGCTAGATCCATTGGAG+CGG 0.676565 2.1:-3752995 MS.gene069854:CDS
ACCCACTTGAGGTAGCTCGA+CGG 0.680643 2.1:+3753156 None:intergenic
CCAACAGAAGGACAACAATG+TGG 0.706083 2.1:-3752689 MS.gene069854:CDS
GAGCAAACTCCCACTCAATG+CGG 0.708509 2.1:+3753052 None:intergenic
GAGCACGCGAGTTTGAGGAG+TGG 0.717265 2.1:-3753119 MS.gene069854:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATCATGTTTACTTTATGTTT+CGG - chr2.1:3752601-3752620 MS.gene069854:CDS 20.0%
! AATAGATTTCGGAAAATACA+AGG - chr2.1:3752728-3752747 MS.gene069854:CDS 25.0%
! ATAGATTTCGGAAAATACAA+GGG - chr2.1:3752729-3752748 MS.gene069854:CDS 25.0%
! TCATGTTTACTTTATGTTTC+GGG - chr2.1:3752602-3752621 MS.gene069854:CDS 25.0%
! TTCAGAAAGAGAAATTAAAC+TGG - chr2.1:3752692-3752711 MS.gene069854:CDS 25.0%
! TTTGCTCTTAATGTGTTAAA+TGG - chr2.1:3752891-3752910 MS.gene069854:CDS 25.0%
CGAAATCTATTATTCTGTCT+CGG + chr2.1:3752719-3752738 None:intergenic 30.0%
CGAGACAGAATAATAGATTT+CGG - chr2.1:3752717-3752736 MS.gene069854:CDS 30.0%
GAAATCTATTATTCTGTCTC+GGG + chr2.1:3752718-3752737 None:intergenic 30.0%
TAGATTTCGGAAAATACAAG+GGG - chr2.1:3752730-3752749 MS.gene069854:CDS 30.0%
AAAATACAAGGGGAAGATGT+TGG - chr2.1:3752740-3752759 MS.gene069854:CDS 35.0%
AAATACAAGGGGAAGATGTT+GGG - chr2.1:3752741-3752760 MS.gene069854:CDS 35.0%
AAATCAAAAGCAGCGTTATG+TGG - chr2.1:3752641-3752660 MS.gene069854:CDS 35.0%
AATCAAAAGCAGCGTTATGT+GGG - chr2.1:3752642-3752661 MS.gene069854:CDS 35.0%
! AAAGTTGATTTCGACCTTCT+CGG - chr2.1:3753023-3753042 MS.gene069854:CDS 35.0%
! ACTAGTATCATTGGTAGCAA+CGG - chr2.1:3753134-3753153 MS.gene069854:CDS 35.0%
! AGATAAGCAAGAGATTTGGT+TGG - chr2.1:3752973-3752992 MS.gene069854:CDS 35.0%
! ATAACCTTGACAAAGTTGGT+TGG - chr2.1:3752997-3753016 MS.gene069854:CDS 35.0%
! GATAAGCAAGAGATTTGGTT+GGG - chr2.1:3752974-3752993 MS.gene069854:CDS 35.0%
!!! AGTTTTTTGAAACCCACTTG+AGG + chr2.1:3752785-3752804 None:intergenic 35.0%
ACAGTAGTAGTAGGACTAAG+AGG - chr2.1:3753162-3753181 MS.gene069854:CDS 40.0%
ACGGTAGTAACAGTAGTAGT+AGG - chr2.1:3753153-3753172 MS.gene069854:CDS 40.0%
CAATGATACTAGTAGCAGGT+GGG + chr2.1:3753127-3753146 None:intergenic 40.0%
CAATGCGGTCTTTGTAGATT+GGG + chr2.1:3752863-3752882 None:intergenic 40.0%
CAGGAGATAAGCAAGAGATT+TGG - chr2.1:3752969-3752988 MS.gene069854:CDS 40.0%
CTACCAATGATACTAGTAGC+AGG + chr2.1:3753131-3753150 None:intergenic 40.0%
CTTTGTAGATTGGGTCTAGA+AGG + chr2.1:3752854-3752873 None:intergenic 40.0%
TAGTAGTAGGACTAAGAGGA+TGG - chr2.1:3753166-3753185 MS.gene069854:CDS 40.0%
TCAATGCGGTCTTTGTAGAT+TGG + chr2.1:3752864-3752883 None:intergenic 40.0%
TCGCTGAAATTGACAAGTCT+CGG + chr2.1:3753071-3753090 None:intergenic 40.0%
TGGGATAACCTTGACAAAGT+TGG - chr2.1:3752993-3753012 MS.gene069854:CDS 40.0%
AAATGAAGCGCACCAACAGA+AGG - chr2.1:3753226-3753245 MS.gene069854:CDS 45.0%
CCAACAGAAGGACAACAATG+TGG - chr2.1:3753238-3753257 MS.gene069854:CDS 45.0%
CCAATGATACTAGTAGCAGG+TGG + chr2.1:3753128-3753147 None:intergenic 45.0%
CCACATTGTTGTCCTTCTGT+TGG + chr2.1:3753241-3753260 None:intergenic 45.0%
CCACCTGCTACTAGTATCAT+TGG - chr2.1:3753125-3753144 MS.gene069854:CDS 45.0%
CGAGACAGAAAATGAGATCG+AGG - chr2.1:3753198-3753217 MS.gene069854:CDS 45.0%
CTACAAAGACCGCATTGAGT+GGG - chr2.1:3752866-3752885 MS.gene069854:CDS 45.0%
TCTACAAAGACCGCATTGAG+TGG - chr2.1:3752865-3752884 MS.gene069854:CDS 45.0%
TGCTCCAACCAACTTTGTCA+AGG + chr2.1:3753004-3753023 None:intergenic 45.0%
!! GTTAGGTTGGGTGTTGGTAT+TGG + chr2.1:3753102-3753121 None:intergenic 45.0%
GACCTTCTCGGCACTTCTAA+GGG - chr2.1:3753035-3753054 MS.gene069854:CDS 50.0%
GAGCAAACTCCCACTCAATG+CGG + chr2.1:3752878-3752897 None:intergenic 50.0%
TAGGATGCTGCCATGGTTGA+TGG + chr2.1:3753348-3753367 None:intergenic 50.0%
TCTGCTGCTGCTAGATCCAT+TGG - chr2.1:3752927-3752946 MS.gene069854:CDS 50.0%
TGATACTAGTAGCAGGTGGG+TGG + chr2.1:3753124-3753143 None:intergenic 50.0%
TGCTGCTAGATCCATTGGAG+CGG - chr2.1:3752932-3752951 MS.gene069854:CDS 50.0%
! CTTAAGAGCACGCGAGTTTG+AGG - chr2.1:3752803-3752822 MS.gene069854:CDS 50.0%
! TTCTCGGCACTTCTAAGGGA+GGG - chr2.1:3753039-3753058 MS.gene069854:CDS 50.0%
!! TGCCATGGTTGATGGCCTTA+CGG + chr2.1:3753340-3753359 None:intergenic 50.0%
ACCCACTTGAGGTAGCTCGA+CGG + chr2.1:3752774-3752793 None:intergenic 55.0%
ACGTCAGGCTCTTCTCCGTA+AGG - chr2.1:3753322-3753341 MS.gene069854:CDS 55.0%
ACTTGAGGTAGCTCGACGGA+AGG + chr2.1:3752770-3752789 None:intergenic 55.0%
AGCACGCGAGTTTGAGGAGT+GGG - chr2.1:3752809-3752828 MS.gene069854:CDS 55.0%
AGCAGGTGGGTGGTTAGGTT+GGG + chr2.1:3753114-3753133 None:intergenic 55.0%
CGACCTTCTCGGCACTTCTA+AGG - chr2.1:3753034-3753053 MS.gene069854:CDS 55.0%
CTAGTAGCAGGTGGGTGGTT+AGG + chr2.1:3753119-3753138 None:intergenic 55.0%
CTCAGAATCTGCCGCTCCAA+TGG + chr2.1:3752946-3752965 None:intergenic 55.0%
CTCCGTAAGGCCATCAACCA+TGG - chr2.1:3753335-3753354 MS.gene069854:CDS 55.0%
GCCATTGCCAATCCATTCCC+CGG - chr2.1:3753299-3753318 MS.gene069854:CDS 55.0%
TAGCAGGTGGGTGGTTAGGT+TGG + chr2.1:3753115-3753134 None:intergenic 55.0%
TCCGTCGAGCTACCTCAAGT+GGG - chr2.1:3752770-3752789 MS.gene069854:CDS 55.0%
TTCCGTCGAGCTACCTCAAG+TGG - chr2.1:3752769-3752788 MS.gene069854:CDS 55.0%
! CTTCTCGGCACTTCTAAGGG+AGG - chr2.1:3753038-3753057 MS.gene069854:CDS 55.0%
!! CTCCCTTAGAAGTGCCGAGA+AGG + chr2.1:3753040-3753059 None:intergenic 55.0%
!! TCCGGGGAATGGATTGGCAA+TGG + chr2.1:3753303-3753322 None:intergenic 55.0%
!! TGGGTGGTTAGGTTGGGTGT+TGG + chr2.1:3753108-3753127 None:intergenic 55.0%
ACGGAGAAGAGCCTGACGTC+CGG + chr2.1:3753321-3753340 None:intergenic 60.0%
AGCGGCAGATTCTGAGCTGC+AGG - chr2.1:3752950-3752969 MS.gene069854:CDS 60.0%
CAATCCATTCCCCGGACGTC+AGG - chr2.1:3753307-3753326 MS.gene069854:CDS 60.0%
CTGACGTCCGGGGAATGGAT+TGG + chr2.1:3753309-3753328 None:intergenic 60.0%
GAGCACGCGAGTTTGAGGAG+TGG - chr2.1:3752808-3752827 MS.gene069854:CDS 60.0%
AGAGCCTGACGTCCGGGGAA+TGG + chr2.1:3753314-3753333 None:intergenic 65.0%
CGGAGAAGAGCCTGACGTCC+GGG + chr2.1:3753320-3753339 None:intergenic 65.0%
GGAGAAGAGCCTGACGTCCG+GGG + chr2.1:3753319-3753338 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 3752576 3753373 3752576 ID=MS.gene069854
chr2.1 mRNA 3752576 3753373 3752576 ID=MS.gene069854.t1;Parent=MS.gene069854
chr2.1 exon 3752576 3753373 3752576 ID=MS.gene069854.t1.exon1;Parent=MS.gene069854.t1
chr2.1 CDS 3752576 3753373 3752576 ID=cds.MS.gene069854.t1;Parent=MS.gene069854.t1
Gene Sequence

>MS.gene069854

ATGCATCTGTTATTGCAGCAGCAGCATCATGTTTACTTTATGTTTCGGGACACTTGTTGTATAACAAATCAAAAGCAGCGTTATGTGGGAGTGACAGTAACATCGTTGAGACGCAATTCAGAAAGAGAAATTAAACTGGCCCGAGACAGAATAATAGATTTCGGAAAATACAAGGGGAAGATGTTGGGAAGCCTTCCGTCGAGCTACCTCAAGTGGGTTTCAAAAAACTTAAGAGCACGCGAGTTTGAGGAGTGGGCAATTCTTGCAGATCAAGTCCTTCTAGACCCAATCTACAAAGACCGCATTGAGTGGGAGTTTGCTCTTAATGTGTTAAATGGCAACAACATTTCTTCTGCTGCTGCTAGATCCATTGGAGCGGCAGATTCTGAGCTGCAGGAGATAAGCAAGAGATTTGGTTGGGATAACCTTGACAAAGTTGGTTGGAGCAAAGTTGATTTCGACCTTCTCGGCACTTCTAAGGGAGGGAGAATTCCGAGACTTGTCAATTTCAGCGACAGTGACACCAATACCAACACCCAACCTAACCACCCACCTGCTACTAGTATCATTGGTAGCAACGGTAGTAACAGTAGTAGTAGGACTAAGAGGATGGAGAGAAGAGCGAGACAGAAAATGAGATCGAGGACGACAAATGAAGCGCACCAACAGAAGGACAACAATGTGGTTGATATTGAAGAAGTTGAAGATGATAACATTAATATAGCCATTGCCAATCCATTCCCCGGACGTCAGGCTCTTCTCCGTAAGGCCATCAACCATGGCAGCATCCTAAGCTAA

Protein sequence

>MS.gene069854.t1

MHLLLQQQHHVYFMFRDTCCITNQKQRYVGVTVTSLRRNSEREIKLARDRIIDFGKYKGKMLGSLPSSYLKWVSKNLRAREFEEWAILADQVLLDPIYKDRIEWEFALNVLNGNNISSAAARSIGAADSELQEISKRFGWDNLDKVGWSKVDFDLLGTSKGGRIPRLVNFSDSDTNTNTQPNHPPATSIIGSNGSNSSSRTKRMERRARQKMRSRTTNEAHQQKDNNVVDIEEVEDDNINIAIANPFPGRQALLRKAINHGSILS