AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene54987

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene54987.t1 MTR_7g083210 78.788 198 31 7 1 197 1 188 2.38e-91 265
MS.gene54987.t1 MTR_7g086860 32.692 208 74 7 1 197 1 153 5.89e-20 82.4
MS.gene54987.t1 MTR_1g107055 52.830 53 19 1 39 85 63 115 1.58e-12 63.5
MS.gene54987.t1 MTR_1g013130 75.758 33 8 0 40 72 94 126 6.65e-12 63.2
MS.gene54987.t1 MTR_4g128340 75.758 33 8 0 40 72 45 77 8.35e-12 61.2
MS.gene54987.t1 MTR_4g006575 75.758 33 8 0 40 72 67 99 4.93e-11 60.1
MS.gene54987.t1 MTR_4g006600 75.758 33 8 0 40 72 67 99 4.93e-11 60.1
MS.gene54987.t1 MTR_3g065020 72.727 33 9 0 40 72 86 118 4.97e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene54987.t1 AT5G14010 66.000 50 17 0 40 89 36 85 6.39e-15 69.3
MS.gene54987.t1 AT5G57520 54.545 55 24 1 40 94 50 103 1.02e-13 65.9
MS.gene54987.t1 AT1G24625 72.727 33 9 0 40 72 57 89 8.89e-11 59.3
MS.gene54987.t1 AT1G66140 68.571 35 11 0 38 72 81 115 9.37e-11 59.7
MS.gene54987.t1 AT1G80730 72.727 33 9 0 40 72 66 98 9.43e-11 59.3

Find 38 sgRNAs with CRISPR-Local

Find 38 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCATCATCATTACCCTTAT+TGG 0.093745 7.2:+24144856 MS.gene54987:CDS
TATGGTTATGCTTCTGGTTT+TGG 0.247006 7.2:+24144969 MS.gene54987:CDS
GGTTCCATTTGTTGCCAATA+AGG 0.254384 7.2:-24144870 None:intergenic
TTTCAAGTTTGTGAGCATTT+TGG 0.265375 7.2:-24144701 None:intergenic
GATCTTCTGCTAGTTGTTCT+TGG 0.275259 7.2:-24144585 None:intergenic
ATGCTTCCTTGCAATGGTTA+TGG 0.317002 7.2:+24144951 MS.gene54987:CDS
GGTGGTGTTGATCAGGTTGA+TGG 0.328750 7.2:-24144745 None:intergenic
AATGGTTATGGTTATGCTTC+TGG 0.361952 7.2:+24144963 MS.gene54987:CDS
GTTCCATTTGTTGCCAATAA+GGG 0.373916 7.2:-24144869 None:intergenic
AGAAGCAGAAGCAGCATTGT+TGG 0.377902 7.2:-24145024 None:intergenic
TGTTGGTGGTGGTGTTGATC+AGG 0.386212 7.2:-24144752 None:intergenic
TGTGGTGTTTGAAACTGTAT+AGG 0.418717 7.2:-24144891 None:intergenic
TTACCCTTATTGGCAACAAA+TGG 0.422059 7.2:+24144866 MS.gene54987:CDS
AACATTGTTGGTGTTGTTGT+TGG 0.428219 7.2:-24144769 None:intergenic
GTTGGTGTTGTTGTTGGTGG+TGG 0.434485 7.2:-24144763 None:intergenic
TGTGGTGGTGGTGATGAAAA+AGG 0.435180 7.2:-24144795 None:intergenic
TTTCATGAGGAACTCGTAGA+TGG 0.442852 7.2:-24144538 None:intergenic
CATCCTATGCTTCCTTGCAA+TGG 0.462936 7.2:+24144945 MS.gene54987:CDS
TTCTACACTTCTCAAGCTCT+TGG 0.466221 7.2:+24144672 MS.gene54987:CDS
TACACTTCTCAAGCTCTTGG+TGG 0.467223 7.2:+24144675 MS.gene54987:CDS
ATTGTTGGTGTTGTTGTTGG+TGG 0.489563 7.2:-24144766 None:intergenic
CTTCTGCTAGTTGTTCTTGG+TGG 0.497901 7.2:-24144582 None:intergenic
CTTGAGAAGTGTAGAACTTA+CGG 0.498780 7.2:-24144665 None:intergenic
GCTTCAACATGTTGATGTTG+TGG 0.525749 7.2:-24144909 None:intergenic
AGGAACTCGTAGATGGCTGA+AGG 0.562270 7.2:-24144531 None:intergenic
TAACCATTGCAAGGAAGCAT+AGG 0.562677 7.2:-24144948 None:intergenic
GAAACATGTGACTGTGGTGG+TGG 0.592935 7.2:-24144807 None:intergenic
AAGTTTGTTGTTGTTTCATG+AGG 0.595946 7.2:-24144551 None:intergenic
GCATAACCATAACCATTGCA+AGG 0.611111 7.2:-24144957 None:intergenic
TTCTTCAGAGATGAAGAGTG+AGG 0.651759 7.2:-24145097 None:intergenic
GTTTCTGAACAACATGAACA+AGG 0.674380 7.2:+24144825 MS.gene54987:CDS
GGAACTCGTAGATGGCTGAA+GGG 0.682433 7.2:-24144530 None:intergenic
TTGTTGGTGAAAACATAGTG+AGG 0.685351 7.2:-24145008 None:intergenic
TCTGAACAACATGAACAAGG+TGG 0.702272 7.2:+24144828 MS.gene54987:CDS
TCAGAAGCATCAACAAACTG+AGG 0.702630 7.2:-24145059 None:intergenic
GAGTGAGGTCAAGATTGACA+TGG 0.709894 7.2:-24145082 None:intergenic
TCAGAAACATGTGACTGTGG+TGG 0.727680 7.2:-24144810 None:intergenic
TGTTCAGAAACATGTGACTG+TGG 0.756060 7.2:-24144813 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TGAAAAAGGAACAACATTGT+TGG - chr7.2:24144784-24144803 None:intergenic 30.0%
TTCATCATCATTACCCTTAT+TGG + chr7.2:24144856-24144875 MS.gene54987:CDS 30.0%
!! AAGTTTGTTGTTGTTTCATG+AGG - chr7.2:24144554-24144573 None:intergenic 30.0%
!!! TTTCAAGTTTGTGAGCATTT+TGG - chr7.2:24144704-24144723 None:intergenic 30.0%
AATGGTTATGGTTATGCTTC+TGG + chr7.2:24144963-24144982 MS.gene54987:CDS 35.0%
GTTTCTGAACAACATGAACA+AGG + chr7.2:24144825-24144844 MS.gene54987:CDS 35.0%
TTACCCTTATTGGCAACAAA+TGG + chr7.2:24144866-24144885 MS.gene54987:CDS 35.0%
! CTTGAGAAGTGTAGAACTTA+CGG - chr7.2:24144668-24144687 None:intergenic 35.0%
! GTTCCATTTGTTGCCAATAA+GGG - chr7.2:24144872-24144891 None:intergenic 35.0%
! TGTGGTGTTTGAAACTGTAT+AGG - chr7.2:24144894-24144913 None:intergenic 35.0%
! TTGTTGGTGAAAACATAGTG+AGG - chr7.2:24145011-24145030 None:intergenic 35.0%
!! AACATTGTTGGTGTTGTTGT+TGG - chr7.2:24144772-24144791 None:intergenic 35.0%
!!! TATGGTTATGCTTCTGGTTT+TGG + chr7.2:24144969-24144988 MS.gene54987:CDS 35.0%
ATGCTTCCTTGCAATGGTTA+TGG + chr7.2:24144951-24144970 MS.gene54987:CDS 40.0%
GATCTTCTGCTAGTTGTTCT+TGG - chr7.2:24144588-24144607 None:intergenic 40.0%
GCATAACCATAACCATTGCA+AGG - chr7.2:24144960-24144979 None:intergenic 40.0%
GCTTCAACATGTTGATGTTG+TGG - chr7.2:24144912-24144931 None:intergenic 40.0%
TCTGAACAACATGAACAAGG+TGG + chr7.2:24144828-24144847 MS.gene54987:CDS 40.0%
TGTTCAGAAACATGTGACTG+TGG - chr7.2:24144816-24144835 None:intergenic 40.0%
TTCTACACTTCTCAAGCTCT+TGG + chr7.2:24144672-24144691 MS.gene54987:CDS 40.0%
TTTCATGAGGAACTCGTAGA+TGG - chr7.2:24144541-24144560 None:intergenic 40.0%
! GGTTCCATTTGTTGCCAATA+AGG - chr7.2:24144873-24144892 None:intergenic 40.0%
! TAACCATTGCAAGGAAGCAT+AGG - chr7.2:24144951-24144970 None:intergenic 40.0%
!! ATTGTTGGTGTTGTTGTTGG+TGG - chr7.2:24144769-24144788 None:intergenic 40.0%
!! TCAGAAGCATCAACAAACTG+AGG - chr7.2:24145062-24145081 None:intergenic 40.0%
AGAAGCAGAAGCAGCATTGT+TGG - chr7.2:24145027-24145046 None:intergenic 45.0%
CATCCTATGCTTCCTTGCAA+TGG + chr7.2:24144945-24144964 MS.gene54987:CDS 45.0%
CTTCTGCTAGTTGTTCTTGG+TGG - chr7.2:24144585-24144604 None:intergenic 45.0%
GAGTGAGGTCAAGATTGACA+TGG - chr7.2:24145085-24145104 None:intergenic 45.0%
TACACTTCTCAAGCTCTTGG+TGG + chr7.2:24144675-24144694 MS.gene54987:CDS 45.0%
TCAGAAACATGTGACTGTGG+TGG - chr7.2:24144813-24144832 None:intergenic 45.0%
!! TGTGGTGGTGGTGATGAAAA+AGG - chr7.2:24144798-24144817 None:intergenic 45.0%
AGGAACTCGTAGATGGCTGA+AGG - chr7.2:24144534-24144553 None:intergenic 50.0%
GAAACATGTGACTGTGGTGG+TGG - chr7.2:24144810-24144829 None:intergenic 50.0%
GGAACTCGTAGATGGCTGAA+GGG - chr7.2:24144533-24144552 None:intergenic 50.0%
!! GGTGGTGTTGATCAGGTTGA+TGG - chr7.2:24144748-24144767 None:intergenic 50.0%
!! GTTGGTGTTGTTGTTGGTGG+TGG - chr7.2:24144766-24144785 None:intergenic 50.0%
!! TGTTGGTGGTGGTGTTGATC+AGG - chr7.2:24144755-24144774 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 24144522 24145115 24144522 ID=MS.gene54987
chr7.2 mRNA 24144522 24145115 24144522 ID=MS.gene54987.t1;Parent=MS.gene54987
chr7.2 exon 24144522 24145115 24144522 ID=MS.gene54987.t1.exon1;Parent=MS.gene54987.t1
chr7.2 CDS 24144522 24145115 24144522 ID=cds.MS.gene54987.t1;Parent=MS.gene54987.t1
Gene Sequence

>MS.gene54987

ATGGCAGACCCTTCAGCCATCTACGAGTTCCTCATGAAACAACAACAAACTTCATCATCACCACCAAGAACAACTAGCAGAAGATCATCACAGCAACAACTTGCAGCTTCAACAACAAGAACTTTTCAGTGTCAATATTGTCACCGTAAGTTCTACACTTCTCAAGCTCTTGGTGGTCACCAAAATGCTCACAAACTTGAAAGAGCTGCTGCTAGATCAAAAACCATCAACCTGATCAACACCACCACCAACAACAACACCAACAATGTTGTTCCTTTTTCATCACCACCACCACAGTCACATGTTTCTGAACAACATGAACAAGGTGGTTTCTTTCATCATCATTACCCTTATTGGCAACAAATGGAACCTATACAGTTTCAAACACCACAACATCAACATGTTGAAGCAACAAACACTTTTCATCCTATGCTTCCTTGCAATGGTTATGGTTATGCTTCTGGTTTTGGTGCTTCATCTTCAACTCCTCACTATGTTTTCACCAACAATGCTGCTTCTGCTTCTGCTTCTACTACTCCTCAGTTTGTTGATGCTTCTGACCATGTCAATCTTGACCTCACTCTTCATCTCTGA
Protein sequence

>MS.gene54987.t1

MADPSAIYEFLMKQQQTSSSPPRTTSRRSSQQQLAASTTRTFQCQYCHRKFYTSQALGGHQNAHKLERAAARSKTINLINTTTNNNTNNVVPFSSPPPQSHVSEQHEQGGFFHHHYPYWQQMEPIQFQTPQHQHVEATNTFHPMLPCNGYGYASGFGASSSTPHYVFTNNAASASASTTPQFVDASDHVNLDLTLHL