AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene006122


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene006122.t1 MTR_1g098170 100.000 152 0 0 1 152 1 152 6.47e-112 314
MS.gene006122.t1 MTR_1g098220 100.000 152 0 0 1 152 1 152 6.47e-112 314
MS.gene006122.t1 MTR_6g043210 98.684 152 2 0 1 152 1 152 6.70e-111 311
MS.gene006122.t1 MTR_1g492710 97.945 146 3 0 1 146 794 939 1.21e-97 303
MS.gene006122.t1 MTR_1g098220 99.160 119 1 0 1 119 1 119 2.71e-84 243
MS.gene006122.t1 MTR_5g027650 95.098 102 5 0 39 140 11 112 7.93e-69 203
MS.gene006122.t1 MTR_5g027580 93.137 102 7 0 39 140 48 149 7.08e-68 202
MS.gene006122.t1 MTR_5g027670 94.382 89 5 0 52 140 1 89 2.79e-58 176
MS.gene006122.t1 MTR_5g027615 94.382 89 5 0 52 140 1 89 7.00e-58 175
MS.gene006122.t1 MTR_5g027605 94.382 89 5 0 52 140 1 89 7.00e-58 175
MS.gene006122.t1 MTR_5g027640 94.382 89 5 0 52 140 1 89 7.00e-58 175
MS.gene006122.t1 MTR_5g027600 94.382 89 5 0 52 140 1 89 7.00e-58 175
MS.gene006122.t1 MTR_1005s0010 94.186 86 5 0 55 140 2 87 2.51e-56 171
MS.gene006122.t1 MTR_4g015960 70.270 74 15 2 68 137 10 80 2.32e-27 106
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene006122.t1 AT4G09800 92.763 152 11 0 1 152 1 152 1.89e-105 298
MS.gene006122.t1 AT1G34030 92.763 152 11 0 1 152 1 152 1.89e-105 298
MS.gene006122.t1 AT1G22780 92.763 152 11 0 1 152 1 152 1.89e-105 298

Find 36 sgRNAs with CRISPR-Local

Find 96 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATGAAGTTGAGAGATGATT+TGG 0.279609 1.1:+70542191 MS.gene006122:CDS
CAACTTCATGTCGAGTTGAT+TGG 0.309472 1.1:-70542178 None:intergenic
TCCCCTGCGGCCTGTAGTCT+TGG 0.394682 1.1:-70543238 None:intergenic
TTCTGTTATGCAGTAATCAC+CGG 0.438670 1.1:+70543172 MS.gene006122:intron
TACTGGGGCCTTCGTGTTCG+TGG 0.457512 1.1:+70543207 MS.gene006122:CDS
TGATTGAGGTCATTGCGAAC+TGG 0.463060 1.1:-70541805 None:intergenic
CCGGGGTTTGAGACACTACT+GGG 0.483703 1.1:+70543191 MS.gene006122:CDS
GTTCGCAATGACCTCAATCA+AGG 0.484324 1.1:+70541808 MS.gene006122:CDS
CAAGGATGGCAAATTCTCTC+AGG 0.484690 1.1:+70542149 MS.gene006122:CDS
ACCGGGGTTTGAGACACTAC+TGG 0.492415 1.1:+70543190 MS.gene006122:CDS
ATGACCTCAATCAAGGGTAT+TGG 0.493197 1.1:+70541815 MS.gene006122:CDS
GTCAATTCAAGGTTCCAGAT+TGG 0.495981 1.1:+70542103 MS.gene006122:CDS
TGGAGAGACTCAAGAAGATC+CGG 0.512286 1.1:+70542211 MS.gene006122:CDS
TGCAAATCCTCGTCAATTCA+AGG 0.522315 1.1:+70542092 MS.gene006122:CDS
CCCAGTAGTGTCTCAAACCC+CGG 0.525189 1.1:-70543191 None:intergenic
GAACAGAAAGAAGGATTACA+AGG 0.525479 1.1:+70542131 MS.gene006122:CDS
TGATGTGTTATAGTCTTTGG+TGG 0.546379 1.1:+70541718 MS.gene006122:intron
TGAATTGAGTGCTGCAGAGT+TGG 0.553099 1.1:+70542050 MS.gene006122:CDS
AGAAAGAAGGATTACAAGGA+TGG 0.565673 1.1:+70542135 MS.gene006122:CDS
GGTCAGCATACCAAGACTAC+AGG 0.569467 1.1:+70543228 MS.gene006122:CDS
TACCAAGACTACAGGCCGCA+GGG 0.580402 1.1:+70543236 MS.gene006122:CDS
CCTACCAATACCCTTGATTG+AGG 0.590405 1.1:-70541819 None:intergenic
ATACCAAGACTACAGGCCGC+AGG 0.594524 1.1:+70543235 MS.gene006122:CDS
TCTGTTATGCAGTAATCACC+GGG 0.594587 1.1:+70543173 MS.gene006122:intron
CTGATGTTGACATGAACAAG+AGG 0.595729 1.1:+70541870 MS.gene006122:CDS
GGCCGCAGGGGAAAGACTGT+TGG 0.608087 1.1:+70543249 MS.gene006122:CDS
GTTGGATAATATTATGACAG+TGG 0.620536 1.1:+70542068 MS.gene006122:CDS
TTCGCAATGACCTCAATCAA+GGG 0.622158 1.1:+70541809 MS.gene006122:CDS
CCTCAATCAAGGGTATTGGT+AGG 0.631523 1.1:+70541819 MS.gene006122:CDS
GTGTTGAACACAAATGTCGA+TGG 0.634706 1.1:+70541770 MS.gene006122:CDS
ACCAAGACTACAGGCCGCAG+GGG 0.654823 1.1:+70543237 MS.gene006122:CDS
TCTGGAACCTTGAATTGACG+AGG 0.669518 1.1:-70542099 None:intergenic
CTGTTATGCAGTAATCACCG+GGG 0.730953 1.1:+70543174 MS.gene006122:intron
TATGCTGACCACGAACACGA+AGG 0.739225 1.1:-70543215 None:intergenic
CACCAACAGTCTTTCCCCTG+CGG 0.740988 1.1:-70543251 None:intergenic
CGGGGTTTGAGACACTACTG+GGG 0.755067 1.1:+70543192 MS.gene006122:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTCAATTCAATGATATAA+TGG + chr1.1:70543095-70543114 MS.gene006122:intron 15.0%
!! TTCTGTATTCAATAATAAAA+TGG + chr1.1:70543038-70543057 MS.gene006122:intron 15.0%
!! TTTGAGTAGTAAAAAAATAA+TGG - chr1.1:70543018-70543037 None:intergenic 15.0%
!!! ATTTTTGTTGTTCAAATTAA+TGG + chr1.1:70541930-70541949 MS.gene006122:intron 15.0%
!!! GGTTTTTTTTTTTTTTTTGT+TGG + chr1.1:70542011-70542030 MS.gene006122:intron 15.0%
!!! TTTTTGTTGTTCAAATTAAT+GGG + chr1.1:70541931-70541950 MS.gene006122:intron 15.0%
!!! TTTTTTGTTGGATTTATTTA+GGG + chr1.1:70542023-70542042 MS.gene006122:intron 15.0%
!!! TTTTTTTGTTGGATTTATTT+AGG + chr1.1:70542022-70542041 MS.gene006122:intron 15.0%
!! AATAAGATGAAAACAGTTTA+TGG + chr1.1:70542908-70542927 MS.gene006122:intron 20.0%
!! AATAATAAAATGGATGTATG+TGG + chr1.1:70543048-70543067 MS.gene006122:intron 20.0%
!! AATACATAGTAAAAAATGCA+AGG - chr1.1:70542726-70542745 None:intergenic 20.0%
!! AGTTTAAATAAATCCTATCT+GGG + chr1.1:70542988-70543007 MS.gene006122:intron 20.0%
!! ATCATCTTTATAGTTAACAA+AGG - chr1.1:70542274-70542293 None:intergenic 20.0%
!! ATGATATTCATGTTGATATA+GGG + chr1.1:70542763-70542782 MS.gene006122:intron 20.0%
!! TAGTTTAAATAAATCCTATC+TGG + chr1.1:70542987-70543006 MS.gene006122:intron 20.0%
!! TATGATATTCATGTTGATAT+AGG + chr1.1:70542762-70542781 MS.gene006122:intron 20.0%
!!! CAATAAAATTTTAGACTGTT+TGG + chr1.1:70542813-70542832 MS.gene006122:intron 20.0%
!!! TATTTTTGATGTTGTTGAAA+TGG + chr1.1:70541990-70542009 MS.gene006122:intron 20.0%
! ACAGTTTAATTAAGCACTTA+TGG + chr1.1:70542840-70542859 MS.gene006122:intron 25.0%
! GAAAACAAAATACAAGTCAT+TGG - chr1.1:70542675-70542694 None:intergenic 25.0%
!! TATGATTTTTAAACGTGAGA+TGG - chr1.1:70541972-70541991 None:intergenic 25.0%
!!! AATGATATAATGGATGTATG+TGG + chr1.1:70543105-70543124 MS.gene006122:intron 25.0%
!!! ACATTTTAACACTACTATGT+AGG + chr1.1:70542331-70542350 MS.gene006122:intron 25.0%
!!! ACTTGTATTTTGTTTTCTCT+TGG + chr1.1:70542678-70542697 MS.gene006122:intron 25.0%
AATCAAATGTTTCCCATAAG+CGG + chr1.1:70542605-70542624 MS.gene006122:intron 30.0%
AGATGTAGTAGTAAGATGAT+AGG + chr1.1:70542367-70542386 MS.gene006122:intron 30.0%
AGTGTTTGAAAATAGAACAG+TGG + chr1.1:70542558-70542577 MS.gene006122:intron 30.0%
ATGAAAACAGTTTATGGACA+TGG + chr1.1:70542914-70542933 MS.gene006122:intron 30.0%
ATTTGCATAAGCAAACTGTT+TGG - chr1.1:70542963-70542982 None:intergenic 30.0%
CTGTTATTCAAACACTATCA+AGG - chr1.1:70542438-70542457 None:intergenic 30.0%
GTGTTTGAAAATAGAACAGT+GGG + chr1.1:70542559-70542578 MS.gene006122:intron 30.0%
GTTGGATAATATTATGACAG+TGG + chr1.1:70542068-70542087 MS.gene006122:CDS 30.0%
TTGTGATGTGTTATAGTCTT+TGG + chr1.1:70541715-70541734 MS.gene006122:intron 30.0%
TTTCTGTTCAAAAACCAATC+TGG - chr1.1:70542120-70542139 None:intergenic 30.0%
TTTGCATAAGCAAACTGTTT+GGG - chr1.1:70542962-70542981 None:intergenic 30.0%
!! TTGGTTTTTGAACAGAAAGA+AGG + chr1.1:70542122-70542141 MS.gene006122:CDS 30.0%
!!! CTCAGTTGGTTTTTTAGTAT+AGG + chr1.1:70542299-70542318 MS.gene006122:intron 30.0%
AAAGATGATTCTCACTCAGT+TGG + chr1.1:70542285-70542304 MS.gene006122:intron 35.0%
ACAATGAAGTAGCATCTTAC+CGG - chr1.1:70542233-70542252 None:intergenic 35.0%
ACAGAACGAGAATTCACTAT+TGG + chr1.1:70542454-70542473 MS.gene006122:intron 35.0%
ACTAATAACCATTGCTTCGA+TGG + chr1.1:70542390-70542409 MS.gene006122:intron 35.0%
AGAAAGAAGGATTACAAGGA+TGG + chr1.1:70542135-70542154 MS.gene006122:CDS 35.0%
ATGGATGTATGTGGAGAAAT+TGG + chr1.1:70543114-70543133 MS.gene006122:intron 35.0%
CATGAAGTTGAGAGATGATT+TGG + chr1.1:70542191-70542210 MS.gene006122:CDS 35.0%
GAACAGAAAGAAGGATTACA+AGG + chr1.1:70542131-70542150 MS.gene006122:CDS 35.0%
GTGATTACTGCATAACAGAA+AGG - chr1.1:70543172-70543191 None:intergenic 35.0%
TGATGTGTTATAGTCTTTGG+TGG + chr1.1:70541718-70541737 MS.gene006122:intron 35.0%
TGGATGTATGTGGAGAAATT+GGG + chr1.1:70543115-70543134 MS.gene006122:intron 35.0%
TTCTGTTATGCAGTAATCAC+CGG + chr1.1:70543172-70543191 MS.gene006122:intron 35.0%
TTGCATAAGCAAACTGTTTG+GGG - chr1.1:70542961-70542980 None:intergenic 35.0%
! TTGTTGGATTTATTTAGGGC+TGG + chr1.1:70542027-70542046 MS.gene006122:intron 35.0%
AAATAATGGCATGCCCAGAT+AGG - chr1.1:70543004-70543023 None:intergenic 40.0%
ATAACCATTGCTTCGATGGT+TGG + chr1.1:70542394-70542413 MS.gene006122:intron 40.0%
CTGATGTTGACATGAACAAG+AGG + chr1.1:70541870-70541889 MS.gene006122:CDS 40.0%
GAATTGGACCAAAAAGTAGC+TGG + chr1.1:70542642-70542661 MS.gene006122:intron 40.0%
GGAAATACGGGCAATAGAAT+TGG + chr1.1:70542626-70542645 MS.gene006122:intron 40.0%
GTCAATTCAAGGTTCCAGAT+TGG + chr1.1:70542103-70542122 MS.gene006122:CDS 40.0%
GTGTTGAACACAAATGTCGA+TGG + chr1.1:70541770-70541789 MS.gene006122:CDS 40.0%
GTTTCCCATAAGCGGAAATA+CGG + chr1.1:70542613-70542632 MS.gene006122:intron 40.0%
TATGTGGAGAAATTGGGCAT+TGG + chr1.1:70543121-70543140 MS.gene006122:intron 40.0%
TCTGTTATGCAGTAATCACC+GGG + chr1.1:70543173-70543192 MS.gene006122:intron 40.0%
TGCAAATCCTCGTCAATTCA+AGG + chr1.1:70542092-70542111 MS.gene006122:CDS 40.0%
TTCGCAATGACCTCAATCAA+GGG + chr1.1:70541809-70541828 MS.gene006122:CDS 40.0%
TTTCCCATAAGCGGAAATAC+GGG + chr1.1:70542614-70542633 MS.gene006122:intron 40.0%
! ATGACCTCAATCAAGGGTAT+TGG + chr1.1:70541815-70541834 MS.gene006122:CDS 40.0%
!! CAACTTCATGTCGAGTTGAT+TGG - chr1.1:70542181-70542200 None:intergenic 40.0%
!!! GATAAGAGCCAGCTACTTTT+TGG - chr1.1:70542653-70542672 None:intergenic 40.0%
ACACGATCAAAGCAATGCAG+TGG - chr1.1:70542516-70542535 None:intergenic 45.0%
ATTGCCCGTATTTCCGCTTA+TGG - chr1.1:70542621-70542640 None:intergenic 45.0%
CAAGGATGGCAAATTCTCTC+AGG + chr1.1:70542149-70542168 MS.gene006122:CDS 45.0%
CCTACCAATACCCTTGATTG+AGG - chr1.1:70541822-70541841 None:intergenic 45.0%
CTGTTATGCAGTAATCACCG+GGG + chr1.1:70543174-70543193 MS.gene006122:intron 45.0%
GTTCGCAATGACCTCAATCA+AGG + chr1.1:70541808-70541827 MS.gene006122:CDS 45.0%
TGATTGAGGTCATTGCGAAC+TGG - chr1.1:70541808-70541827 None:intergenic 45.0%
TGGAGAGACTCAAGAAGATC+CGG + chr1.1:70542211-70542230 MS.gene006122:CDS 45.0%
TTGCCCGTATTTCCGCTTAT+GGG - chr1.1:70542620-70542639 None:intergenic 45.0%
! TCTGGAACCTTGAATTGACG+AGG - chr1.1:70542102-70542121 None:intergenic 45.0%
! TGAATTGAGTGCTGCAGAGT+TGG + chr1.1:70542050-70542069 MS.gene006122:CDS 45.0%
!! CCTCAATCAAGGGTATTGGT+AGG + chr1.1:70541819-70541838 MS.gene006122:CDS 45.0%
AGCACCAACCATCGAAGCAA+TGG - chr1.1:70542401-70542420 None:intergenic 50.0%
CGATCAAAGCAATGCAGTGG+TGG - chr1.1:70542513-70542532 None:intergenic 50.0%
GGTCAGCATACCAAGACTAC+AGG + chr1.1:70543228-70543247 MS.gene006122:CDS 50.0%
TATGCTGACCACGAACACGA+AGG - chr1.1:70543218-70543237 None:intergenic 50.0%
!! TGGAGAAATTGGGCATTGGC+TGG + chr1.1:70543125-70543144 MS.gene006122:intron 50.0%
ATACCAAGACTACAGGCCGC+AGG + chr1.1:70543235-70543254 MS.gene006122:CDS 55.0%
CACCAACAGTCTTTCCCCTG+CGG - chr1.1:70543254-70543273 None:intergenic 55.0%
CCCAGTAGTGTCTCAAACCC+CGG - chr1.1:70543194-70543213 None:intergenic 55.0%
TACCAAGACTACAGGCCGCA+GGG + chr1.1:70543236-70543255 MS.gene006122:CDS 55.0%
! ACCGGGGTTTGAGACACTAC+TGG + chr1.1:70543190-70543209 MS.gene006122:CDS 55.0%
! ATGCAGTGGTGGTGCATCAG+CGG - chr1.1:70542502-70542521 None:intergenic 55.0%
! CCGGGGTTTGAGACACTACT+GGG + chr1.1:70543191-70543210 MS.gene006122:CDS 55.0%
! CGGGGTTTGAGACACTACTG+GGG + chr1.1:70543192-70543211 MS.gene006122:CDS 55.0%
ACCAAGACTACAGGCCGCAG+GGG + chr1.1:70543237-70543256 MS.gene006122:CDS 60.0%
TACTGGGGCCTTCGTGTTCG+TGG + chr1.1:70543207-70543226 MS.gene006122:CDS 60.0%
GGCCGCAGGGGAAAGACTGT+TGG + chr1.1:70543249-70543268 MS.gene006122:CDS 65.0%
TCCCCTGCGGCCTGTAGTCT+TGG - chr1.1:70543241-70543260 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 70541645 70543290 70541645 ID=MS.gene006122
chr1.1 mRNA 70541645 70543290 70541645 ID=MS.gene006122.t1;Parent=MS.gene006122
chr1.1 exon 70541645 70541647 70541645 ID=MS.gene006122.t1.exon1;Parent=MS.gene006122.t1
chr1.1 CDS 70541645 70541647 70541645 ID=cds.MS.gene006122.t1;Parent=MS.gene006122.t1
chr1.1 exon 70541731 70541891 70541731 ID=MS.gene006122.t1.exon2;Parent=MS.gene006122.t1
chr1.1 CDS 70541731 70541891 70541731 ID=cds.MS.gene006122.t1;Parent=MS.gene006122.t1
chr1.1 exon 70542044 70542232 70542044 ID=MS.gene006122.t1.exon3;Parent=MS.gene006122.t1
chr1.1 CDS 70542044 70542232 70542044 ID=cds.MS.gene006122.t1;Parent=MS.gene006122.t1
chr1.1 exon 70543185 70543290 70543185 ID=MS.gene006122.t1.exon4;Parent=MS.gene006122.t1
chr1.1 CDS 70543185 70543290 70543185 ID=cds.MS.gene006122.t1;Parent=MS.gene006122.t1
Gene Sequence

>MS.gene006122

ATGGTATGTTTTCGATCTCGATTTCATCTCGATGTAGCTGCTTAATCGCTGATTCTGTTTTTTTTTTTTTTTGTGATGTGTTATAGTCTTTGGTGGCGAACGAAGAATTTCAGCACATTTTGCGTGTGTTGAACACAAATGTCGATGGAAAGCAGAAGATCCAGTTCGCAATGACCTCAATCAAGGGTATTGGTAGGAGATTCGCTAACATCTGCTGTAAGAAAGCTGATGTTGACATGAACAAGAGGTTCGTAGTTTCGATTTTGCTCACTTTTAAAATCAGTCATTTTTGTTGTTCAAATTAATGGGTTTCTTGAGTTTAATCCATCTCACGTTTAAAAATCATATTTTTGATGTTGTTGAAATGGTTTTTTTTTTTTTTTTGTTGGATTTATTTAGGGCTGGTGAATTGAGTGCTGCAGAGTTGGATAATATTATGACAGTGGTTGCAAATCCTCGTCAATTCAAGGTTCCAGATTGGTTTTTGAACAGAAAGAAGGATTACAAGGATGGCAAATTCTCTCAGGTTGTCTCCAATCAACTCGACATGAAGTTGAGAGATGATTTGGAGAGACTCAAGAAGATCCGGTAAGATGCTACTTCATTGTTTTTTGTGTGATTGTTTGCCTTTGTTAACTATAAAGATGATTCTCACTCAGTTGGTTTTTTAGTATAGGTTTAAATTAACATTTTAACACTACTATGTAGGAATATCAAAATTGAGATGTAGTAGTAAGATGATAGGACTAATAACCATTGCTTCGATGGTTGGTGCTTGATGCTTTAGCTTCCTTGATAGTGTTTGAATAACAGAACGAGAATTCACTATTGGAGAATCTAAAGCTCATGCACTACCGCTGATGCACCACCACTGCATTGCTTTGATCGTGTGTGATGCTTTAGCTTTCTCAATAGTGTTTGAAAATAGAACAGTGGGAAGTGTTATTAGTTTACTTGAATAATCAAATGTTTCCCATAAGCGGAAATACGGGCAATAGAATTGGACCAAAAAGTAGCTGGCTCTTATCCAATGACTTGTATTTTGTTTTCTCTTGGCTAGATAGTTTCACGTTGTCTTCCTTGCATTTTTTACTATGTATTTGCATTTTTTACTATGTATGATATTCATGTTGATATAGGGACAAATGTGTCGTGAGATGAAGTAACACAATAAAATTTTAGACTGTTTGGATAAACAGTTTAATTAAGCACTTATGGCGTAAGAAATATCATACAAGTGCTTATTTGTCAGCTGTTTTTTATAATAAGATGAAAACAGTTTATGGACATGGCATAAACTGATTCTATAAGTTCCCCAAACAGTTTGCTTATGCAAATTGATTAGTTTAAATAAATCCTATCTGGGCATGCCATTATTTTTTTACTACTCAAATTCTGTATTCAATAATAAAATGGATGTATGTGGAGTTTTTTTACTACTCAAATTTTGAATTCAATTCAATGATATAATGGATGTATGTGGAGAAATTGGGCATTGGCTGGTTAATAAAATTTTACTAACATCCTTTCTGTTATGCAGTAATCACCGGGGTTTGAGACACTACTGGGGCCTTCGTGTTCGTGGTCAGCATACCAAGACTACAGGCCGCAGGGGAAAGACTGTTGGTGTCTCAAAGAAGCGTTAA

Protein sequence

>MS.gene006122.t1

MSLVANEEFQHILRVLNTNVDGKQKIQFAMTSIKGIGRRFANICCKKADVDMNKRAGELSAAELDNIMTVVANPRQFKVPDWFLNRKKDYKDGKFSQVVSNQLDMKLRDDLERLKKIRNHRGLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR