AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene87190


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene87190.t1 MTR_8g040740 97.500 120 3 0 1 120 1 120 1.38e-86 248
MS.gene87190.t1 MTR_3g013635 89.167 120 13 0 1 120 1 120 1.91e-82 238
MS.gene87190.t1 MTR_3g013635 89.167 120 13 0 1 120 1 120 1.91e-82 238
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene87190.t1 AT3G02080 82.500 120 21 0 1 120 1 120 9.43e-78 226
MS.gene87190.t1 AT5G61170 81.667 120 22 0 1 120 1 120 1.92e-77 225
MS.gene87190.t1 AT5G15520 81.667 120 22 0 1 120 1 120 1.50e-76 223

Find 35 sgRNAs with CRISPR-Local

Find 109 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTTCATTCCAAAGGATTTA+TGG 0.171916 8.4:+58428975 MS.gene87190:CDS
AACTGCAAAATTCAAAGAAT+TGG 0.319374 8.4:+58428753 MS.gene87190:CDS
ATAATACCAATCAGGATCAT+AGG 0.347366 8.4:-58428779 None:intergenic
GGCTCCCACCATAAATCCTT+TGG 0.389483 8.4:-58428983 None:intergenic
ATCTACATAAGAGGCGGTCT+TGG 0.403127 8.4:+58428948 MS.gene87190:CDS
ATACCTTGCCAGATCGTTTG+AGG 0.455890 8.4:-58427277 None:intergenic
GTACTCAATTTCAGCTTCCA+TGG 0.471471 8.4:+58428917 MS.gene87190:intron
TGGCTCCCTATGATCCTGAT+TGG 0.474063 8.4:+58428773 MS.gene87190:CDS
GCTCTAACATAATACCAATC+AGG 0.489642 8.4:-58428787 None:intergenic
TTGGTGTTGGTTCATTCCAA+AGG 0.500013 8.4:+58428967 MS.gene87190:CDS
TATGTAGATCTTCCTTGCCA+TGG 0.510578 8.4:-58428934 None:intergenic
CACTGTCTTTGAAGAAGCCA+TGG 0.514169 8.4:-58427210 None:intergenic
GAGGGCGACTTCCATTCCTC+TGG 0.516528 8.4:-58429004 None:intergenic
ATAAGAGGCGGTCTTGGTGT+TGG 0.519137 8.4:+58428954 MS.gene87190:CDS
TCAGCTCACCTCAAACGATC+TGG 0.531576 8.4:+58427269 MS.gene87190:CDS
TAATACCAATCAGGATCATA+GGG 0.537599 8.4:-58428778 None:intergenic
CAATTTCAGCTTCCATGGCA+AGG 0.544710 8.4:+58428922 MS.gene87190:intron
GCAAGGAAGATCTACATAAG+AGG 0.545628 8.4:+58428939 MS.gene87190:CDS
TCGTCACATTCTTCAACAGT+TGG 0.571334 8.4:+58429058 MS.gene87190:CDS
CATTCCAAAGGATTTATGGT+GGG 0.572274 8.4:+58428979 MS.gene87190:CDS
GGATTTATGGTGGGAGCCAG+AGG 0.572742 8.4:+58428988 MS.gene87190:CDS
GATTGGTATTATGTTAGAGC+TGG 0.573765 8.4:+58428790 MS.gene87190:CDS
TTCACCTCACGAATTTGTCA+AGG 0.581822 8.4:+58427241 MS.gene87190:CDS
GAACATGAACCTCATCGAGA+TGG 0.583253 8.4:+58429082 MS.gene87190:CDS
TCATCGAGATGGATACCAAA+GGG 0.584221 8.4:+58429093 MS.gene87190:CDS
TATGGTGGGAGCCAGAGGAA+TGG 0.616028 8.4:+58428993 MS.gene87190:CDS
TCATTCCAAAGGATTTATGG+TGG 0.619819 8.4:+58428978 MS.gene87190:CDS
TTGACAAGATCAGTCCACTC+AGG 0.623178 8.4:-58428730 None:intergenic
GGCTTCTTCAAAGACAGTGA+AGG 0.625639 8.4:+58427214 MS.gene87190:CDS
TCACCTCAAACGATCTGGCA+AGG 0.628596 8.4:+58427274 MS.gene87190:CDS
AATAGTTGGAGCTGCCTGAG+TGG 0.635801 8.4:+58428716 MS.gene87190:intron
CTCATCGAGATGGATACCAA+AGG 0.653842 8.4:+58429092 MS.gene87190:CDS
CTTTGGTATCCATCTCGATG+AGG 0.659041 8.4:-58429091 None:intergenic
AGGAAGATCTACATAAGAGG+CGG 0.678529 8.4:+58428942 MS.gene87190:CDS
TAAGCCTTGACAAATTCGTG+AGG 0.721929 8.4:-58427245 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TAATCAGTTTTTTTTATTAT+AGG + chr8.4:58427589-58427608 MS.gene87190:intron 10.0%
!! AAATAAAAAAAACCAAAAGA+AGG - chr8.4:58427406-58427425 None:intergenic 15.0%
!! ATATAAGTTGTATATCTAAA+AGG + chr8.4:58428073-58428092 MS.gene87190:intron 15.0%
!!! AATTAATCAACTAGTTTTAT+AGG + chr8.4:58427791-58427810 MS.gene87190:intron 15.0%
!!! TAAGTTTTATGATACTTTTT+TGG + chr8.4:58427859-58427878 MS.gene87190:intron 15.0%
!!! TGTTTCAAATTTTTTTCATA+GGG - chr8.4:58428196-58428215 None:intergenic 15.0%
!!! TTCTTTTGATTTTAAATAGT+TGG + chr8.4:58428702-58428721 MS.gene87190:intron 15.0%
!!! TTGTTTCAAATTTTTTTCAT+AGG - chr8.4:58428197-58428216 None:intergenic 15.0%
!!! TTTTTATATTAACCTTCTTT+TGG + chr8.4:58427391-58427410 MS.gene87190:intron 15.0%
!! AAATTATCAGTTGTTTATTG+CGG + chr8.4:58428132-58428151 MS.gene87190:intron 20.0%
!! CAAAACAAAGAAAAATTGAT+TGG - chr8.4:58427352-58427371 None:intergenic 20.0%
!!! AAAATACAGACTGTTTTTTA+AGG + chr8.4:58428235-58428254 MS.gene87190:intron 20.0%
!!! GTTTCAAATTTTTTTCATAG+GGG - chr8.4:58428195-58428214 None:intergenic 20.0%
!!! TTTCAAATTTTTTTCATAGG+GGG - chr8.4:58428194-58428213 None:intergenic 20.0%
!!! TTTTCTTTGTTTTGTGAAAT+GGG + chr8.4:58427358-58427377 MS.gene87190:intron 20.0%
!!! TTTTTCTTTGTTTTGTGAAA+TGG + chr8.4:58427357-58427376 MS.gene87190:intron 20.0%
! AACATGATACTTCTAATTCT+TGG + chr8.4:58428856-58428875 MS.gene87190:intron 25.0%
! AACTGCAAAATTCAAAGAAT+TGG + chr8.4:58428753-58428772 MS.gene87190:CDS 25.0%
! CAAATAACAAAACCGAATAA+GGG - chr8.4:58428633-58428652 None:intergenic 25.0%
! TAGATATACAACTTATATGC+AGG - chr8.4:58428071-58428090 None:intergenic 25.0%
! TCAAATAACAAAACCGAATA+AGG - chr8.4:58428634-58428653 None:intergenic 25.0%
!! GTTAGATATTATTGTTGCTT+AGG + chr8.4:58427467-58427486 MS.gene87190:intron 25.0%
!!! CAACTAGTTTTATAGGTTTA+GGG + chr8.4:58427798-58427817 MS.gene87190:intron 25.0%
!!! CTTGTTTTTGGGATTATTTT+TGG + chr8.4:58428312-58428331 MS.gene87190:intron 25.0%
!!! GTTGTTTCTATATGCTATAT+TGG - chr8.4:58427948-58427967 None:intergenic 25.0%
!!! GTTTGGATTAGCTTATTTTA+AGG + chr8.4:58427563-58427582 MS.gene87190:intron 25.0%
!!! TCAACTAGTTTTATAGGTTT+AGG + chr8.4:58427797-58427816 MS.gene87190:intron 25.0%
!!! TGACAATTTTTCGAAAATAC+AGG + chr8.4:58427727-58427746 MS.gene87190:intron 25.0%
AAAAACAAGCATCAAACTGT+CGG - chr8.4:58428301-58428320 None:intergenic 30.0%
ACTCTTCAATCAACATCAAA+CGG - chr8.4:58428557-58428576 None:intergenic 30.0%
ATAATACCAATCAGGATCAT+AGG - chr8.4:58428782-58428801 None:intergenic 30.0%
GCTAATCAAAACATGCATTA+AGG - chr8.4:58428100-58428119 None:intergenic 30.0%
TAATACCAATCAGGATCATA+GGG - chr8.4:58428781-58428800 None:intergenic 30.0%
TATCATAAAACTTATGCCAG+TGG - chr8.4:58427853-58427872 None:intergenic 30.0%
! ATGTTTGTCCACATGATTTT+GGG + chr8.4:58428383-58428402 MS.gene87190:intron 30.0%
! CCATTGATTATCGAAAATAC+AGG + chr8.4:58427673-58427692 MS.gene87190:intron 30.0%
! CCTGTATTTTCGATAATCAA+TGG - chr8.4:58427676-58427695 None:intergenic 30.0%
! TATGTTTGTCCACATGATTT+TGG + chr8.4:58428382-58428401 MS.gene87190:intron 30.0%
!! ACAGTTTGATGCTTGTTTTT+GGG + chr8.4:58428301-58428320 MS.gene87190:intron 30.0%
!! CATTTCATTTTCAAAAGCAC+TGG - chr8.4:58427620-58427639 None:intergenic 30.0%
!! TTGTTGCTTAGGATTTGTTA+TGG + chr8.4:58427478-58427497 MS.gene87190:intron 30.0%
!!! TTTTGATTAGCTTGTAGTCA+AGG + chr8.4:58428109-58428128 MS.gene87190:intron 30.0%
CATTCCAAAGGATTTATGGT+GGG + chr8.4:58428979-58428998 MS.gene87190:CDS 35.0%
GATTGGTATTATGTTAGAGC+TGG + chr8.4:58428790-58428809 MS.gene87190:CDS 35.0%
GCTCTAACATAATACCAATC+AGG - chr8.4:58428790-58428809 None:intergenic 35.0%
GGTTCATTCCAAAGGATTTA+TGG + chr8.4:58428975-58428994 MS.gene87190:CDS 35.0%
GTCGGTGAAATAATCACAAA+AGG - chr8.4:58428283-58428302 None:intergenic 35.0%
GTGAAGATAACTACTGTTGT+AGG + chr8.4:58427530-58427549 MS.gene87190:intron 35.0%
GTTACACCATCAATTAGTGT+TGG + chr8.4:58427505-58427524 MS.gene87190:intron 35.0%
GTTGATTGAAGAGTCCAAAT+GGG + chr8.4:58428563-58428582 MS.gene87190:intron 35.0%
TCAAATAAGCCAATCCAAAC+AGG - chr8.4:58427824-58427843 None:intergenic 35.0%
TCACATCCAACACTAATTGA+TGG - chr8.4:58427514-58427533 None:intergenic 35.0%
TCATGTGGACAAACATAGTT+TGG - chr8.4:58428379-58428398 None:intergenic 35.0%
TCATTCCAAAGGATTTATGG+TGG + chr8.4:58428978-58428997 MS.gene87190:CDS 35.0%
TCGATAATCAATGGCATGTT+TGG - chr8.4:58427667-58427686 None:intergenic 35.0%
TGTTCTGTAGCTGAATCAAA+TGG + chr8.4:58427445-58427464 MS.gene87190:intron 35.0%
TTGATTGAAGAGTCCAAATG+GGG + chr8.4:58428564-58428583 MS.gene87190:intron 35.0%
TTGTAGGCTTAATGCATGTT+TGG + chr8.4:58427546-58427565 MS.gene87190:intron 35.0%
! AAAATACAGGCAGTTTTCGA+AGG + chr8.4:58427686-58427705 MS.gene87190:intron 35.0%
! GCTTATTTGAGTTTATCCAC+TGG + chr8.4:58427834-58427853 MS.gene87190:intron 35.0%
! TGTTGATTGAAGAGTCCAAA+TGG + chr8.4:58428562-58428581 MS.gene87190:intron 35.0%
!! GACAGTTTGATGCTTGTTTT+TGG + chr8.4:58428300-58428319 MS.gene87190:intron 35.0%
!! TCCACATGATTTTGGGAATT+GGG + chr8.4:58428390-58428409 MS.gene87190:intron 35.0%
!!! TGCTAGCTTTTCAAAATCCA+TGG - chr8.4:58428429-58428448 None:intergenic 35.0%
ACCCAATTCCCAAAATCATG+TGG - chr8.4:58428394-58428413 None:intergenic 40.0%
AGGAAGATCTACATAAGAGG+CGG + chr8.4:58428942-58428961 MS.gene87190:CDS 40.0%
GCAAGGAAGATCTACATAAG+AGG + chr8.4:58428939-58428958 MS.gene87190:CDS 40.0%
GTACTCAATTTCAGCTTCCA+TGG + chr8.4:58428917-58428936 MS.gene87190:intron 40.0%
TAAGCCTTGACAAATTCGTG+AGG - chr8.4:58427248-58427267 None:intergenic 40.0%
TATGTAGATCTTCCTTGCCA+TGG - chr8.4:58428937-58428956 None:intergenic 40.0%
TCATCGAGATGGATACCAAA+GGG + chr8.4:58429093-58429112 MS.gene87190:CDS 40.0%
TCGTCACATTCTTCAACAGT+TGG + chr8.4:58429058-58429077 MS.gene87190:CDS 40.0%
TGCTCTTGCAAAAATGTGGA+GGG - chr8.4:58429025-58429044 None:intergenic 40.0%
TTCACCTCACGAATTTGTCA+AGG + chr8.4:58427241-58427260 MS.gene87190:CDS 40.0%
TTTGCGCTCGAAATCTGATA+AGG - chr8.4:58428478-58428497 None:intergenic 40.0%
! GCTTTTCAAAATCCATGGCA+CGG - chr8.4:58428424-58428443 None:intergenic 40.0%
! TCTTGGTATTTTGTTGCTGC+TGG + chr8.4:58428873-58428892 MS.gene87190:intron 40.0%
! TTATAGGTTTAGGGCCTGTT+TGG + chr8.4:58427807-58427826 MS.gene87190:intron 40.0%
!! CATGATTTTGGGAATTGGGT+TGG + chr8.4:58428394-58428413 MS.gene87190:intron 40.0%
!! GTCCACATGATTTTGGGAAT+TGG + chr8.4:58428389-58428408 MS.gene87190:intron 40.0%
!! TTGGTGTTGGTTCATTCCAA+AGG + chr8.4:58428967-58428986 MS.gene87190:CDS 40.0%
!! TTTCGAAGGTGTTGAGTACT+AGG + chr8.4:58427700-58427719 MS.gene87190:intron 40.0%
ATACCTTGCCAGATCGTTTG+AGG - chr8.4:58427280-58427299 None:intergenic 45.0%
ATCTACATAAGAGGCGGTCT+TGG + chr8.4:58428948-58428967 MS.gene87190:CDS 45.0%
CAATTTCAGCTTCCATGGCA+AGG + chr8.4:58428922-58428941 MS.gene87190:intron 45.0%
CCACTGCTCTTGCAAAAATG+TGG - chr8.4:58429029-58429048 None:intergenic 45.0%
CGAATAAGGGACAACCAATG+CGG - chr8.4:58428620-58428639 None:intergenic 45.0%
CTCATCGAGATGGATACCAA+AGG + chr8.4:58429092-58429111 MS.gene87190:CDS 45.0%
CTGCTCTTGCAAAAATGTGG+AGG - chr8.4:58429026-58429045 None:intergenic 45.0%
CTTTGGTATCCATCTCGATG+AGG - chr8.4:58429094-58429113 None:intergenic 45.0%
GAACATGAACCTCATCGAGA+TGG + chr8.4:58429082-58429101 MS.gene87190:CDS 45.0%
GGCTTCTTCAAAGACAGTGA+AGG + chr8.4:58427214-58427233 MS.gene87190:CDS 45.0%
TTGACAAGATCAGTCCACTC+AGG - chr8.4:58428733-58428752 None:intergenic 45.0%
! CCACATTTTTGCAAGAGCAG+TGG + chr8.4:58429026-58429045 MS.gene87190:CDS 45.0%
!! CGCATTGGTTGTCCCTTATT+CGG + chr8.4:58428618-58428637 MS.gene87190:intron 45.0%
AATAGTTGGAGCTGCCTGAG+TGG + chr8.4:58428716-58428735 MS.gene87190:intron 50.0%
AATGCGGAATGCGTGCAATG+TGG - chr8.4:58428604-58428623 None:intergenic 50.0%
ACATTGCACGCATTCCGCAT+TGG + chr8.4:58428603-58428622 MS.gene87190:intron 50.0%
GGCTCCCACCATAAATCCTT+TGG - chr8.4:58428986-58429005 None:intergenic 50.0%
TCACCTCAAACGATCTGGCA+AGG + chr8.4:58427274-58427293 MS.gene87190:CDS 50.0%
TCAGCTCACCTCAAACGATC+TGG + chr8.4:58427269-58427288 MS.gene87190:CDS 50.0%
TGGCTCCCTATGATCCTGAT+TGG + chr8.4:58428773-58428792 MS.gene87190:CDS 50.0%
! ATAAGAGGCGGTCTTGGTGT+TGG + chr8.4:58428954-58428973 MS.gene87190:CDS 50.0%
! GGTTTAGGGCCTGTTTGGAT+TGG + chr8.4:58427812-58427831 MS.gene87190:intron 50.0%
TGCAAGCAGCAAGCCCCATT+TGG - chr8.4:58428580-58428599 None:intergenic 55.0%
! GGATTTATGGTGGGAGCCAG+AGG + chr8.4:58428988-58429007 MS.gene87190:CDS 55.0%
! TATGGTGGGAGCCAGAGGAA+TGG + chr8.4:58428993-58429012 MS.gene87190:CDS 55.0%
!!! TGGGTTGGTTTTCCGTGCCA+TGG + chr8.4:58428409-58428428 MS.gene87190:intron 55.0%
GAGGGCGACTTCCATTCCTC+TGG - chr8.4:58429007-58429026 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 58427212 58429118 58427212 ID=MS.gene87190
chr8.4 mRNA 58427212 58429118 58427212 ID=MS.gene87190.t1;Parent=MS.gene87190
chr8.4 exon 58427212 58427295 58427212 ID=MS.gene87190.t1.exon1;Parent=MS.gene87190.t1
chr8.4 CDS 58427212 58427295 58427212 ID=cds.MS.gene87190.t1;Parent=MS.gene87190.t1
chr8.4 exon 58428721 58428811 58428721 ID=MS.gene87190.t1.exon2;Parent=MS.gene87190.t1
chr8.4 CDS 58428721 58428811 58428721 ID=cds.MS.gene87190.t1;Parent=MS.gene87190.t1
chr8.4 exon 58428931 58429118 58428931 ID=MS.gene87190.t1.exon3;Parent=MS.gene87190.t1
chr8.4 CDS 58428931 58429118 58428931 ID=cds.MS.gene87190.t1;Parent=MS.gene87190.t1
Gene Sequence

>MS.gene87190

ATGGCTTCTTCAAAGACAGTGAAGGATGTTTCACCTCACGAATTTGTCAAGGCTTACTCAGCTCACCTCAAACGATCTGGCAAGGTATGATTTTCAACTTTTTTTTTTTGTTGCAAAGATTTGAAATTTATTTGAAACCAATCAATTTTTCTTTGTTTTGTGAAATGGGTTTTTAATTTTTTTTATATTAACCTTCTTTTGGTTTTTTTTATTTGAGTTTATAGTAACTGTTTTGTTCTGTAGCTGAATCAAATGGTTAGATATTATTGTTGCTTAGGATTTGTTATGGTTTTGTTACACCATCAATTAGTGTTGGATGTGAAGATAACTACTGTTGTAGGCTTAATGCATGTTTGGATTAGCTTATTTTAAGGAGTTAATCAGTTTTTTTTATTATAGGTATTACCAGTGCTTTTGAAAATGAAATGTTATTTTTACATGAAAAATATGAACCAAACATGCCATTGATTATCGAAAATACAGGCAGTTTTCGAAGGTGTTGAGTACTAGGCTTATGACAATTTTTCGAAAATACAGGCAGTTTATGAAGCAAACATGCTATTAATAAATTGATTAATCAATTAATCAACTAGTTTTATAGGTTTAGGGCCTGTTTGGATTGGCTTATTTGAGTTTATCCACTGGCATAAGTTTTATGATACTTTTTTGGAGAATTTATGAAAACAGCTTATGACAATTTGCAAGTTTTTTTAAACGTATTTTCATAAGTTCTCCAATATAGCATATAGAAACAACTTATAACATTTACAAAAATAATTTAACGTTACATTATCTTTTGCTGTGAAAATAACTTATGCAAGCTTATATATAAGTTCTCATCATCATAGTGCTTGTGCCTGCATATAAGTTGTATATCTAAAAGGTCCTTAATGCATGTTTTGATTAGCTTGTAGTCAAGGAAATTATCAGTTGTTTATTGCGGCATACTAATAGTGCTTTTGAGAAAGAATTGTTATTTCCCCCTATGAAAAAAATTTGAAACAAACATGCGATTGACTATAGAAAATACAGACTGTTTTTTAAGGTGTTGTATGCTAAGCATATATGCCTTTTGTGATTATTTCACCGACAGTTTGATGCTTGTTTTTGGGATTATTTTTGGAGAAAAATTGTTTTTGTTAAAAAATGTATGCAAGTATTTATCCAAACTATGTTTGTCCACATGATTTTGGGAATTGGGTTGGTTTTCCGTGCCATGGATTTTGAAAAGCTAGCATGTTCGATTGTGTGTATACATTATAGCCTTATCAGATTTCGAGCGCAAAATTTCAGATTTAAAAAAAAATAAAAAATAAAAACTAAATTTGCGTTGACATCTGTACCGTTTGATGTTGATTGAAGAGTCCAAATGGGGCTTGCTGCTTGCAGCCACATTGCACGCATTCCGCATTGGTTGTCCCTTATTCGGTTTTGTTATTTGATTTAACAAGTTCATGATTAGTTTTGTGTACATTTTAATTTGAATTTTATTCTTTTGATTTTAAATAGTTGGAGCTGCCTGAGTGGACTGATCTTGTCAAAACTGCAAAATTCAAAGAATTGGCTCCCTATGATCCTGATTGGTATTATGTTAGAGCTGGTGAGATTTATTTCACTCATGAGTTTTCGCTGTAAATTTACTTAAACATGATACTTCTAATTCTTGGTATTTTGTTGCTGCTGGTAATTTTGCAATTTAATTTTTGTACTCAATTTCAGCTTCCATGGCAAGGAAGATCTACATAAGAGGCGGTCTTGGTGTTGGTTCATTCCAAAGGATTTATGGTGGGAGCCAGAGGAATGGAAGTCGCCCTCCACATTTTTGCAAGAGCAGTGGTGCTATTGCTCGTCACATTCTTCAACAGTTGGAGAACATGAACCTCATCGAGATGGATACCAAAGGGTAG

Protein sequence

>MS.gene87190.t1

MASSKTVKDVSPHEFVKAYSAHLKRSGKLELPEWTDLVKTAKFKELAPYDPDWYYVRAASMARKIYIRGGLGVGSFQRIYGGSQRNGSRPPHFCKSSGAIARHILQQLENMNLIEMDTKG