AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene73528

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene73528.t1 MTR_7g088680 96.364 110 4 0 1 110 94 203 5.15e-72 213
MS.gene73528.t1 MTR_3g092970 66.379 116 33 2 1 110 112 227 1.38e-42 139
MS.gene73528.t1 MTR_3g092980 55.285 123 34 2 1 110 104 218 5.86e-36 122
MS.gene73528.t1 MTR_3g092980 55.285 123 34 2 1 110 106 220 6.58e-36 122
MS.gene73528.t1 MTR_3g093750 55.752 113 37 4 1 110 425 527 9.02e-26 100
MS.gene73528.t1 MTR_3g093720 76.744 43 10 0 68 110 215 257 4.23e-15 69.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene73528.t1 AT3G12390 73.214 112 28 1 1 110 92 203 2.56e-42 138
MS.gene73528.t1 AT5G13850 69.828 116 28 1 1 109 88 203 1.63e-40 133
MS.gene73528.t1 AT3G49470 60.345 116 40 1 1 110 102 217 7.11e-39 129
MS.gene73528.t1 AT1G33040 59.130 115 41 2 1 109 94 208 1.01e-36 124
MS.gene73528.t1 AT4G10480 62.393 117 34 2 1 109 96 210 5.40e-36 122
MS.gene73528.t1 AT4G10480 62.393 117 34 2 1 109 97 211 5.92e-36 122
MS.gene73528.t1 AT3G49470 58.879 107 38 1 1 101 102 208 1.80e-33 116

Find 27 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTGACACCTACATTATATT+TGG 0.098409 4.4:-64830625 MS.gene73528:CDS
GGAGCAATACCAGAGGATTC+TGG 0.324111 4.4:+64830511 None:intergenic
TCGTCTACATCCTCATCTTC+TGG 0.324398 4.4:+64830490 None:intergenic
CTGACACCTACATTATATTT+GGG 0.330139 4.4:-64830624 MS.gene73528:CDS
GCACCCGCATTGGTCAAATT+AGG 0.333932 4.4:+64830538 None:intergenic
GCTTTAACAGCTCTTGATCT+TGG 0.356165 4.4:+64830415 None:intergenic
AGACATTGTTGCTGCCATTA+TGG 0.359211 4.4:-64830374 MS.gene73528:CDS
GTTGGACTCTTGAAAACATC+TGG 0.370830 4.4:+64830649 None:intergenic
TTAATTTGTTAGCTCCATAA+TGG 0.425574 4.4:+64830360 None:intergenic
CACCACCAACTCAATATCCT+TGG 0.437037 4.4:+64830453 None:intergenic
TTCTGGCTTCGCACCCGCAT+TGG 0.469966 4.4:+64830528 None:intergenic
TCAGGCTGCAGAGCAGTTCA+AGG 0.493163 4.4:-64830563 MS.gene73528:CDS
AAAGCTCTCAAAGCTGTCAA+TGG 0.508744 4.4:-64830397 MS.gene73528:CDS
ATAATGTAGGTGTCAGAAGT+TGG 0.511639 4.4:+64830631 None:intergenic
TCCCAAGGATATTGAGTTGG+TGG 0.515624 4.4:-64830455 MS.gene73528:CDS
GATCCTAATTTGACCAATGC+GGG 0.519700 4.4:-64830541 MS.gene73528:CDS
ACCACCAACTCAATATCCTT+GGG 0.531886 4.4:+64830454 None:intergenic
GGTGCGAAGCCAGAATCCTC+TGG 0.535151 4.4:-64830520 MS.gene73528:CDS
GATGAGGATGTAGACGAGAC+TGG 0.538671 4.4:-64830484 MS.gene73528:CDS
GAGTTGGTGGTGACTCAAGC+TGG 0.556994 4.4:-64830442 MS.gene73528:CDS
AGCTTTCCCAAATATAATGT+AGG 0.558527 4.4:+64830618 None:intergenic
GAGCTCACAGCTACAAACTC+AGG 0.597975 4.4:-64830581 MS.gene73528:CDS
CGAGACTGGTGTAGATCCCA+AGG 0.607645 4.4:-64830470 MS.gene73528:CDS
TGGTATTGCTCCAGAAGATG+AGG 0.607813 4.4:-64830500 MS.gene73528:CDS
AGATCCCAAGGATATTGAGT+TGG 0.629225 4.4:-64830458 MS.gene73528:CDS
ATCTTCTGGAGCAATACCAG+AGG 0.670950 4.4:+64830504 None:intergenic
GGATCCTAATTTGACCAATG+CGG 0.677685 4.4:-64830542 MS.gene73528:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTAATTTGTTAGCTCCATAA+TGG + chr4.4:64830673-64830692 None:intergenic 25.0%
AGCTTTCCCAAATATAATGT+AGG + chr4.4:64830415-64830434 None:intergenic 30.0%
CTGACACCTACATTATATTT+GGG - chr4.4:64830406-64830425 MS.gene73528:CDS 30.0%
TCTGACACCTACATTATATT+TGG - chr4.4:64830405-64830424 MS.gene73528:CDS 30.0%
ATAATGTAGGTGTCAGAAGT+TGG + chr4.4:64830402-64830421 None:intergenic 35.0%
AAAGCTCTCAAAGCTGTCAA+TGG - chr4.4:64830633-64830652 MS.gene73528:CDS 40.0%
ACCACCAACTCAATATCCTT+GGG + chr4.4:64830579-64830598 None:intergenic 40.0%
AGACATTGTTGCTGCCATTA+TGG - chr4.4:64830656-64830675 MS.gene73528:CDS 40.0%
AGATCCCAAGGATATTGAGT+TGG - chr4.4:64830572-64830591 MS.gene73528:CDS 40.0%
GATCCTAATTTGACCAATGC+GGG - chr4.4:64830489-64830508 MS.gene73528:CDS 40.0%
GCTTTAACAGCTCTTGATCT+TGG + chr4.4:64830618-64830637 None:intergenic 40.0%
GGATCCTAATTTGACCAATG+CGG - chr4.4:64830488-64830507 MS.gene73528:CDS 40.0%
GTTGGACTCTTGAAAACATC+TGG + chr4.4:64830384-64830403 None:intergenic 40.0%
CACCACCAACTCAATATCCT+TGG + chr4.4:64830580-64830599 None:intergenic 45.0%
TCGTCTACATCCTCATCTTC+TGG + chr4.4:64830543-64830562 None:intergenic 45.0%
TGGTATTGCTCCAGAAGATG+AGG - chr4.4:64830530-64830549 MS.gene73528:CDS 45.0%
!! ATCTTCTGGAGCAATACCAG+AGG + chr4.4:64830529-64830548 None:intergenic 45.0%
!! TCCCAAGGATATTGAGTTGG+TGG - chr4.4:64830575-64830594 MS.gene73528:CDS 45.0%
GAGCTCACAGCTACAAACTC+AGG - chr4.4:64830449-64830468 MS.gene73528:CDS 50.0%
GATGAGGATGTAGACGAGAC+TGG - chr4.4:64830546-64830565 MS.gene73528:CDS 50.0%
GGAGCAATACCAGAGGATTC+TGG + chr4.4:64830522-64830541 None:intergenic 50.0%
! GCACCCGCATTGGTCAAATT+AGG + chr4.4:64830495-64830514 None:intergenic 50.0%
CGAGACTGGTGTAGATCCCA+AGG - chr4.4:64830560-64830579 MS.gene73528:CDS 55.0%
TCAGGCTGCAGAGCAGTTCA+AGG - chr4.4:64830467-64830486 MS.gene73528:CDS 55.0%
!! GAGTTGGTGGTGACTCAAGC+TGG - chr4.4:64830588-64830607 MS.gene73528:CDS 55.0%
GGTGCGAAGCCAGAATCCTC+TGG - chr4.4:64830510-64830529 MS.gene73528:CDS 60.0%
!! TTCTGGCTTCGCACCCGCAT+TGG + chr4.4:64830505-64830524 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 64830360 64830692 64830360 ID=MS.gene73528
chr4.4 mRNA 64830360 64830692 64830360 ID=MS.gene73528.t1;Parent=MS.gene73528
chr4.4 exon 64830360 64830692 64830360 ID=MS.gene73528.t1.exon1;Parent=MS.gene73528.t1
chr4.4 CDS 64830360 64830692 64830360 ID=cds.MS.gene73528.t1;Parent=MS.gene73528.t1
Gene Sequence

>MS.gene73528

ATCTTGTTCGTCATCTCAAAACCAGATGTTTTCAAGAGTCCAACTTCTGACACCTACATTATATTTGGGAAAGCTAAGATTGAATACTTGAGCTCACAGCTACAAACTCAGGCTGCAGAGCAGTTCAAGGATCCTAATTTGACCAATGCGGGTGCGAAGCCAGAATCCTCTGGTATTGCTCCAGAAGATGAGGATGTAGACGAGACTGGTGTAGATCCCAAGGATATTGAGTTGGTGGTGACTCAAGCTGGTGTGCCAAGATCAAGAGCTGTTAAAGCTCTCAAAGCTGTCAATGGAGACATTGTTGCTGCCATTATGGAGCTAACAAATTAA
Protein sequence

>MS.gene73528.t1

ILFVISKPDVFKSPTSDTYIIFGKAKIEYLSSQLQTQAAEQFKDPNLTNAGAKPESSGIAPEDEDVDETGVDPKDIELVVTQAGVPRSRAVKALKAVNGDIVAAIMELTN