AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene62913

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene62913.t1 MTR_7g018090 95.575 113 5 0 1 113 1 113 5.58e-76 220
MS.gene62913.t1 MTR_6g016480 52.632 95 40 2 20 113 6 96 1.84e-28 99.8
MS.gene62913.t1 MTR_0542s0020 48.101 79 41 0 27 105 24 102 3.32e-20 79.7
MS.gene62913.t1 MTR_4g129020 48.052 77 38 1 28 102 27 103 1.23e-18 77.0
MS.gene62913.t1 MTR_3g105690 41.593 113 44 4 18 112 17 125 2.10e-17 73.2
MS.gene62913.t1 MTR_3g105690 41.593 113 44 4 18 112 17 125 2.52e-17 73.2
MS.gene62913.t1 MTR_4g110130 38.462 104 54 4 9 109 31 127 7.78e-14 63.5
MS.gene62913.t1 MTR_1g013410 45.000 80 42 1 28 105 27 106 1.27e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene62913.t1 AT5G57685 36.893 103 58 2 9 104 11 113 5.27e-18 74.7
MS.gene62913.t1 AT2G24762 43.678 87 45 2 23 106 30 115 1.43e-17 73.6
MS.gene62913.t1 AT4G31730 49.398 83 32 3 28 104 32 110 1.95e-17 73.6
MS.gene62913.t1 AT4G25760 38.776 98 56 2 12 106 14 110 4.46e-16 69.3
MS.gene62913.t1 AT5G24920 43.810 105 51 3 10 112 12 110 4.19e-14 64.3
MS.gene62913.t1 AT5G38770 38.824 85 46 2 21 104 13 92 1.73e-11 56.6

Find 24 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTGGATTAGCTCTTGTTCT+AGG 0.194345 7.2:+79584637 MS.gene62913:CDS
AGAGAGTAATCCAACTTATT+TGG 0.223571 7.2:+79584816 MS.gene62913:CDS
TCTCCCATTCCTTACCTCTT+TGG 0.250995 7.2:+79584616 MS.gene62913:CDS
AAAGGGCTTGTTGATCAATA+TGG 0.268497 7.2:-79584861 None:intergenic
GCCAAAGATTGTTGTGATTA+TGG 0.275702 7.2:+79584789 MS.gene62913:CDS
TTCTGATGATGATTTGTTCA+TGG 0.297847 7.2:-79584569 None:intergenic
TTGTTTGATAAAGTACTATT+AGG 0.304883 7.2:-79584541 None:intergenic
AAATATGCATGTGGTGGATA+TGG 0.336713 7.2:+79584750 MS.gene62913:CDS
GCCATAATCACAACAATCTT+TGG 0.348513 7.2:-79584790 None:intergenic
TTGTTGATCAATATGGCTTA+TGG 0.357312 7.2:-79584854 None:intergenic
CCCATTCCTTACCTCTTTGG+TGG 0.372466 7.2:+79584619 MS.gene62913:CDS
GTGGATTAGCTCTTGTTCTA+GGG 0.384971 7.2:+79584638 MS.gene62913:CDS
ATATGGCTTATGGATGAAAC+TGG 0.450580 7.2:-79584844 None:intergenic
ACTGGCTTAGCCAAATAAGT+TGG 0.467964 7.2:-79584826 None:intergenic
AAGATTGTTGTGATTATGGC+TGG 0.485363 7.2:+79584793 MS.gene62913:CDS
TCCACCAAAGAGGTAAGGAA+TGG 0.523583 7.2:-79584620 None:intergenic
GCATGTGGTGGATATGGATC+AGG 0.535134 7.2:+79584756 MS.gene62913:CDS
GCTAATCCACCAAAGAGGTA+AGG 0.547844 7.2:-79584625 None:intergenic
CCACCAAAGAGGTAAGGAAT+GGG 0.549553 7.2:-79584619 None:intergenic
TGGATTAGCTCTTGTTCTAG+GGG 0.552603 7.2:+79584639 MS.gene62913:CDS
ATCATCAAATATGCATGTGG+TGG 0.565952 7.2:+79584744 MS.gene62913:CDS
TGATGATGATTTGTTCATGG+TGG 0.626519 7.2:-79584566 None:intergenic
AAAATCATCAAATATGCATG+TGG 0.638038 7.2:+79584741 MS.gene62913:CDS
CAAGAGCTAATCCACCAAAG+AGG 0.638492 7.2:-79584630 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTGTTTGATAAAGTACTATT+AGG - chr7.2:79584544-79584563 None:intergenic 20.0%
! AAAATCATCAAATATGCATG+TGG + chr7.2:79584741-79584760 MS.gene62913:CDS 25.0%
!! TTTTTCTTCATCATTAGTTG+AGG - chr7.2:79584725-79584744 None:intergenic 25.0%
AGAGAGTAATCCAACTTATT+TGG + chr7.2:79584816-79584835 MS.gene62913:CDS 30.0%
TTGTTGATCAATATGGCTTA+TGG - chr7.2:79584857-79584876 None:intergenic 30.0%
!! TTCTGATGATGATTTGTTCA+TGG - chr7.2:79584572-79584591 None:intergenic 30.0%
AAGATTGTTGTGATTATGGC+TGG + chr7.2:79584793-79584812 MS.gene62913:CDS 35.0%
ATATGGCTTATGGATGAAAC+TGG - chr7.2:79584847-79584866 None:intergenic 35.0%
ATCATCAAATATGCATGTGG+TGG + chr7.2:79584744-79584763 MS.gene62913:CDS 35.0%
GCCAAAGATTGTTGTGATTA+TGG + chr7.2:79584789-79584808 MS.gene62913:CDS 35.0%
GCCATAATCACAACAATCTT+TGG - chr7.2:79584793-79584812 None:intergenic 35.0%
!! AAAGGGCTTGTTGATCAATA+TGG - chr7.2:79584864-79584883 None:intergenic 35.0%
!! AAATATGCATGTGGTGGATA+TGG + chr7.2:79584750-79584769 MS.gene62913:CDS 35.0%
!! TGATGATGATTTGTTCATGG+TGG - chr7.2:79584569-79584588 None:intergenic 35.0%
! ACTGGCTTAGCCAAATAAGT+TGG - chr7.2:79584829-79584848 None:intergenic 40.0%
!! GTGGATTAGCTCTTGTTCTA+GGG + chr7.2:79584638-79584657 MS.gene62913:CDS 40.0%
!! TGGATTAGCTCTTGTTCTAG+GGG + chr7.2:79584639-79584658 MS.gene62913:CDS 40.0%
CAAGAGCTAATCCACCAAAG+AGG - chr7.2:79584633-79584652 None:intergenic 45.0%
CCACCAAAGAGGTAAGGAAT+GGG - chr7.2:79584622-79584641 None:intergenic 45.0%
GCTAATCCACCAAAGAGGTA+AGG - chr7.2:79584628-79584647 None:intergenic 45.0%
TCCACCAAAGAGGTAAGGAA+TGG - chr7.2:79584623-79584642 None:intergenic 45.0%
TCTCCCATTCCTTACCTCTT+TGG + chr7.2:79584616-79584635 MS.gene62913:CDS 45.0%
!! GGTGGATTAGCTCTTGTTCT+AGG + chr7.2:79584637-79584656 MS.gene62913:CDS 45.0%
CCCATTCCTTACCTCTTTGG+TGG + chr7.2:79584619-79584638 MS.gene62913:CDS 50.0%
!! GCATGTGGTGGATATGGATC+AGG + chr7.2:79584756-79584775 MS.gene62913:CDS 50.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 79584535 79584885 79584535 ID=MS.gene62913
chr7.2 mRNA 79584535 79584885 79584535 ID=MS.gene62913.t1;Parent=MS.gene62913
chr7.2 exon 79584535 79584885 79584535 ID=MS.gene62913.t1.exon1;Parent=MS.gene62913.t1
chr7.2 CDS 79584535 79584885 79584535 ID=cds.MS.gene62913.t1;Parent=MS.gene62913.t1
Gene Sequence

>MS.gene62913

ATGGGGCCTAATAGTACTTTATCAAACAATTCCACCATGAACAAATCATCATCAGAAGCAGCTAGTCTAACAAACTTGAGTTCTCCCATTCCTTACCTCTTTGGTGGATTAGCTCTTGTTCTAGGGGTCATAGCTATAGCATTACTCATCATAGCTTGTACTTTTCGTAAACAATATTCATCTTCTACCTCAACTAATGATGAAGAAAAATCATCAAATATGCATGTGGTGGATATGGATCAGGTGAGTTTAGAGCCAAAGATTGTTGTGATTATGGCTGGAGAGAGTAATCCAACTTATTTGGCTAAGCCAGTTTCATCCATAAGCCATATTGATCAACAAGCCCTTTAG
Protein sequence

>MS.gene62913.t1

MGPNSTLSNNSTMNKSSSEAASLTNLSSPIPYLFGGLALVLGVIAIALLIIACTFRKQYSSSTSTNDEEKSSNMHVVDMDQVSLEPKIVVIMAGESNPTYLAKPVSSISHIDQQAL