AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene88822


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 0 sgRNAs with CRISPR-Local

Find 140 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAATAGAAAAAGAAACATT+TGG - 6093:22560-22579 MS.gene88822:intron 15.0%
!!! AAAAAAAGAAGTTTGATTTA+AGG + 6093:23001-23020 None:intergenic 15.0%
!!! AATAAATCTATTGATTTGTT+GGG + 6093:22593-22612 None:intergenic 15.0%
!!! GAAAATGAAAATTTTAAAAC+TGG + 6093:22208-22227 None:intergenic 15.0%
!!! TAATAAATCTATTGATTTGT+TGG + 6093:22594-22613 None:intergenic 15.0%
!! AAAAAGAAACATTTGGTTAT+GGG - 6093:22567-22586 MS.gene88822:intron 20.0%
!! AAAGGACATCTTAATATAAA+TGG + 6093:22506-22525 None:intergenic 20.0%
!! AACACTTGAATATAAATAAC+AGG + 6093:22532-22551 None:intergenic 20.0%
!! AATATAAATAACAGGAGAAA+AGG + 6093:22524-22543 None:intergenic 20.0%
!! ACTATATATGCATATATTGT+TGG - 6093:23336-23355 MS.gene88822:intron 20.0%
!!! AATGAAAATTTTAAAACTGG+AGG + 6093:22205-22224 None:intergenic 20.0%
!!! CATCATTTTTATTCTTTTGA+AGG - 6093:22714-22733 MS.gene88822:intron 20.0%
! AAAAAAAATCAGGTATAGCA+AGG + 6093:23079-23098 None:intergenic 25.0%
! AAAAAAATCAGGTATAGCAA+GGG + 6093:23078-23097 None:intergenic 25.0%
! AATTTAGAAATCAAACTGGT+TGG + 6093:22966-22985 None:intergenic 25.0%
! AGATTTAGAGATTAATGAGT+TGG - 6093:21945-21964 MS.gene88822:intron 25.0%
! ATGATTCTAAACCAGTAAAT+TGG - 6093:22814-22833 MS.gene88822:intron 25.0%
! CTACAAAAGAAATATTCGAT+TGG - 6093:23127-23146 MS.gene88822:intron 25.0%
! GAAAAAGAAACATTTGGTTA+TGG - 6093:22566-22585 MS.gene88822:intron 25.0%
! GATGTAAATGTTAACTTCAA+AGG - 6093:22376-22395 MS.gene88822:intron 25.0%
! TCTAGATTCAACACAAAAAA+AGG + 6093:23291-23310 None:intergenic 25.0%
! TGGTAATTTAGAAATCAAAC+TGG + 6093:22970-22989 None:intergenic 25.0%
! TGGTCTATGATAGAATATTA+TGG - 6093:21980-21999 MS.gene88822:intron 25.0%
!! TTCAGCATCTTTTATTATCT+TGG - 6093:22911-22930 MS.gene88822:CDS 25.0%
!! TTTGATTTAAGGAAGAAACT+TGG + 6093:22990-23009 None:intergenic 25.0%
AAAAAGGTGATCACTTACAA+TGG + 6093:23275-23294 None:intergenic 30.0%
AAACAGACTTCATTGTTAAC+AGG - 6093:22779-22798 MS.gene88822:intron 30.0%
AAACTTCCTGTGTTATATAC+CGG - 6093:23027-23046 MS.gene88822:CDS 30.0%
AAATTAGGCTATTGAAGGAA+GGG - 6093:23679-23698 MS.gene88822:CDS 30.0%
AACAGACTTCATTGTTAACA+GGG - 6093:22780-22799 MS.gene88822:intron 30.0%
AACATTATGTGTTCTGACTT+TGG - 6093:23500-23519 MS.gene88822:intron 30.0%
ACATTATGTGTTCTGACTTT+GGG - 6093:23501-23520 MS.gene88822:intron 30.0%
AGAAGAAATTAGGCTATTGA+AGG - 6093:23674-23693 MS.gene88822:CDS 30.0%
ATCAAAACTAAGCATGATTC+CGG - 6093:22249-22268 MS.gene88822:intron 30.0%
CAACAATGGGAAAAAAAATC+AGG + 6093:23089-23108 None:intergenic 30.0%
CAATTACTTGACCAATTTAC+TGG + 6093:22828-22847 None:intergenic 30.0%
CAGTAAATTGGTCAAGTAAT+TGG - 6093:22826-22845 MS.gene88822:intron 30.0%
CCAAGTTCAATATCTTTCAA+CGG + 6093:23717-23736 None:intergenic 30.0%
CTGAGATAGTAATCAACAAA+TGG + 6093:23214-23233 None:intergenic 30.0%
TACATTACAAAACACAGCTA+AGG + 6093:23418-23437 None:intergenic 30.0%
TATCATAGACCACCATATTT+CGG + 6093:21972-21991 None:intergenic 30.0%
TCATTACTACAGAATCTACA+GGG + 6093:21846-21865 None:intergenic 30.0%
TCTTTACAGCAAATTGTAAG+TGG - 6093:22433-22452 MS.gene88822:intron 30.0%
! AGTGTCTTTTAAATTTCTGC+AGG - 6093:23371-23390 MS.gene88822:intron 30.0%
! GAACACATAATGTTTTCATG+TGG + 6093:23494-23513 None:intergenic 30.0%
! GATCTAAAATGAACATTGAC+TGG + 6093:22759-22778 None:intergenic 30.0%
! TTTGTTGATTACTATCTCAG+TGG - 6093:23214-23233 MS.gene88822:intron 30.0%
AATTAGGCTATTGAAGGAAG+GGG - 6093:23680-23699 MS.gene88822:CDS 35.0%
ACAGACTTCATTGTTAACAG+GGG - 6093:22781-22800 MS.gene88822:intron 35.0%
ACCAGAAGACATCTTAAAGT+TGG + 6093:23251-23270 None:intergenic 35.0%
AGATGAAAAGCAAGCATACT+TGG + 6093:21780-21799 None:intergenic 35.0%
ATAAGAGAGAGAGCTTGAAT+AGG + 6093:23181-23200 None:intergenic 35.0%
ATGCTTAGAAGCAGAATAAC+CGG + 6093:21662-21681 None:intergenic 35.0%
CATTATGTGTTCTGACTTTG+GGG - 6093:23502-23521 MS.gene88822:intron 35.0%
CCAACAAATAGCATGATTTC+CGG + 6093:23049-23068 None:intergenic 35.0%
CCATTGTTGTGATAGTCAAT+CGG - 6093:23100-23119 MS.gene88822:intron 35.0%
CCGTTGAAAGATATTGAACT+TGG - 6093:23714-23733 MS.gene88822:CDS 35.0%
CGATTGACTATCACAACAAT+GGG + 6093:23102-23121 None:intergenic 35.0%
CGGCATGGTAATTTATAGTT+GGG - 6093:23587-23606 MS.gene88822:CDS 35.0%
CTCACTTTCAAGAACATCAT+GGG - 6093:23546-23565 MS.gene88822:intron 35.0%
GAAAGATATTGAACTTGGTC+AGG - 6093:23719-23738 MS.gene88822:CDS 35.0%
GAAATTAGGCTATTGAAGGA+AGG - 6093:23678-23697 MS.gene88822:CDS 35.0%
GCCTAACAGAAGAAGAAATT+AGG - 6093:23664-23683 MS.gene88822:CDS 35.0%
GCCTAATTTCTTCTTCTGTT+AGG + 6093:23668-23687 None:intergenic 35.0%
GCTCTCTCTCTTATTATTCT+TGG - 6093:23187-23206 MS.gene88822:intron 35.0%
GTCATTACTACAGAATCTAC+AGG + 6093:21847-21866 None:intergenic 35.0%
GTTGCCAATATATCTATCAC+CGG - 6093:21715-21734 MS.gene88822:CDS 35.0%
GTTTCTCTTATAGATTTCCC+AGG + 6093:21916-21935 None:intergenic 35.0%
TAAATTCCATATTGCCCACA+TGG + 6093:22480-22499 None:intergenic 35.0%
TACAGACACATCTTTCATCT+GGG - 6093:22612-22631 MS.gene88822:intron 35.0%
TCGGCATGGTAATTTATAGT+TGG - 6093:23586-23605 MS.gene88822:CDS 35.0%
TGATTTCCGGTATATAACAC+AGG + 6093:23036-23055 None:intergenic 35.0%
TTACAGACACATCTTTCATC+TGG - 6093:22611-22630 MS.gene88822:intron 35.0%
TTCTAAGCATGTTCCTTTGT+GGG - 6093:21672-21691 MS.gene88822:CDS 35.0%
TTGAATTGAAGATGAGTGCT+AGG - 6093:22658-22677 MS.gene88822:intron 35.0%
TTGCCAATATATCTATCACC+GGG - 6093:21716-21735 MS.gene88822:CDS 35.0%
TTTCAAGAACATCATGGGAA+TGG - 6093:23551-23570 MS.gene88822:intron 35.0%
! TAATGAGTTGGACCGAAATA+TGG - 6093:21957-21976 MS.gene88822:intron 35.0%
!! ACCAACTTTAAGATGTCTTC+TGG - 6093:23247-23266 MS.gene88822:intron 35.0%
!!! TTAGGCTGTTTTTCGAATGA+GGG + 6093:23650-23669 None:intergenic 35.0%
AAAACTAAGCATGATTCCGG+TGG - 6093:22252-22271 MS.gene88822:intron 40.0%
AACCAAATAAGCTCCCACAA+AGG + 6093:21688-21707 None:intergenic 40.0%
ATGGTTGTGGTTATTGGTGT+TGG - 6093:22337-22356 MS.gene88822:intron 40.0%
CATCCCGGTGATAGATATAT+TGG + 6093:21722-21741 None:intergenic 40.0%
CCGATTGACTATCACAACAA+TGG + 6093:23103-23122 None:intergenic 40.0%
CTTCTAAGCATGTTCCTTTG+TGG - 6093:21671-21690 MS.gene88822:CDS 40.0%
GAAAGTGAAAACACGAGAGT+AGG + 6093:22171-22190 None:intergenic 40.0%
GCATACTTGGTAGAATCCAA+CGG + 6093:21767-21786 None:intergenic 40.0%
GCTCACTTTCAAGAACATCA+TGG - 6093:23545-23564 MS.gene88822:intron 40.0%
GGTAATTTATAGTTGGGCTG+TGG - 6093:23593-23612 MS.gene88822:CDS 40.0%
TCAATCCTTAACCCACTAAC+CGG + 6093:22031-22050 None:intergenic 40.0%
TCACAGCAAACACTACTCAA+GGG - 6093:22297-22316 MS.gene88822:intron 40.0%
TGATGATACAACTGCTACAC+AGG + 6093:22413-22432 None:intergenic 40.0%
TTCACAGCAAACACTACTCA+AGG - 6093:22296-22315 MS.gene88822:intron 40.0%
TTCCTTTGTGGGAGCTTATT+TGG - 6093:21683-21702 MS.gene88822:CDS 40.0%
! CCGGAAATCATGCTATTTGT+TGG - 6093:23046-23065 MS.gene88822:CDS 40.0%
! TTTGCTGTAACTGCTCTTGT+CGG - 6093:21619-21638 MS.gene88822:CDS 40.0%
! TTTTCATGTGGCCTAAAACC+TGG + 6093:23482-23501 None:intergenic 40.0%
!! CTTCCTTTTAGAGACATGTG+CGG - 6093:22098-22117 MS.gene88822:CDS 40.0%
!! TTGAGTAGTGTTTGCTGTGA+AGG + 6093:22297-22316 None:intergenic 40.0%
!!! GTTAGGCTGTTTTTCGAATG+AGG + 6093:23651-23670 None:intergenic 40.0%
AATGTGTCTGTTCCACCATG+TGG - 6093:22462-22481 MS.gene88822:intron 45.0%
ATCCAACGGAATTGAGCATG+AGG + 6093:21753-21772 None:intergenic 45.0%
ATGTGTCTGTTCCACCATGT+GGG - 6093:22463-22482 MS.gene88822:intron 45.0%
ATTCCATATTGCCCACATGG+TGG + 6093:22477-22496 None:intergenic 45.0%
CATGAGGCTTAAGTTCATCC+CGG + 6093:21737-21756 None:intergenic 45.0%
CATTCCATCACACAAACCAC+CGG + 6093:22271-22290 None:intergenic 45.0%
CTACCGCACATGTCTCTAAA+AGG + 6093:22104-22123 None:intergenic 45.0%
GGAATGGTTCTTGCAGTTGT+CGG - 6093:23567-23586 MS.gene88822:intron 45.0%
TAAGCCAGTACCTCTGCATT+GGG - 6093:23436-23455 MS.gene88822:intron 45.0%
TCGGTCATGGTTGTGGTTAT+TGG - 6093:22331-22350 MS.gene88822:intron 45.0%
TGTTCATCAGCACTATTCGC+TGG + 6093:22859-22878 None:intergenic 45.0%
! AGATTTCCCAGGTTTTCCAC+TGG + 6093:21905-21924 None:intergenic 45.0%
! CTCAAGGGAAGTGAAAGTGT+CGG - 6093:22312-22331 MS.gene88822:intron 45.0%
! GCAGTTTCCTTCCAGGTTTT+AGG - 6093:23468-23487 MS.gene88822:intron 45.0%
! TATGTGTTCTGACTTTGGGG+TGG - 6093:23505-23524 MS.gene88822:intron 45.0%
! TGAGTTGGACCGAAATATGG+TGG - 6093:21960-21979 MS.gene88822:intron 45.0%
ACTACAGCCAGTGGAAAACC+TGG - 6093:21895-21914 MS.gene88822:CDS 50.0%
AGCCTCATGCTCAATTCCGT+TGG - 6093:21748-21767 MS.gene88822:CDS 50.0%
AGTCAGATCACTACAGCCAG+TGG - 6093:21886-21905 MS.gene88822:CDS 50.0%
CATGTGGCCTAAAACCTGGA+AGG + 6093:23478-23497 None:intergenic 50.0%
CTACAGCCAGTGGAAAACCT+GGG - 6093:21896-21915 MS.gene88822:CDS 50.0%
CTTAACCCACTAACCGGAGT+CGG + 6093:22025-22044 None:intergenic 50.0%
CTTCTCAGCAGTTTCCTTCC+AGG - 6093:23461-23480 MS.gene88822:intron 50.0%
GGACTCGTCTCAAATGCTAC+CGG - 6093:21640-21659 MS.gene88822:CDS 50.0%
GTAAGCCAGTACCTCTGCAT+TGG - 6093:23435-23454 MS.gene88822:intron 50.0%
GTTCCACCATGTGGGCAATA+TGG - 6093:22471-22490 MS.gene88822:intron 50.0%
TGAGGGAGAGTCTTCGCATT+TGG + 6093:23633-23652 None:intergenic 50.0%
! CGGTGGTTTGTGTGATGGAA+TGG - 6093:22269-22288 MS.gene88822:intron 50.0%
! GATTCCGGTGGTTTGTGTGA+TGG - 6093:22264-22283 MS.gene88822:intron 50.0%
! TTGATCCATGTAGCCGACTC+CGG - 6093:22009-22028 MS.gene88822:intron 50.0%
!! GAAAGTGTCGGTCATGGTTG+TGG - 6093:22324-22343 MS.gene88822:intron 50.0%
!! GGAAGTGAAAGTGTCGGTCA+TGG - 6093:22318-22337 MS.gene88822:intron 50.0%
ACTAACCGGAGTCGGCTACA+TGG + 6093:22017-22036 None:intergenic 55.0%
GGTTCTTGCAGTTGTCGGCA+TGG - 6093:23572-23591 MS.gene88822:CDS 55.0%
! ATGTAGCCGACTCCGGTTAG+TGG - 6093:22016-22035 MS.gene88822:intron 55.0%
! TGTAGCCGACTCCGGTTAGT+GGG - 6093:22017-22036 MS.gene88822:intron 55.0%
!! CGACTCCGGTTAGTGGGTTA+AGG - 6093:22023-22042 MS.gene88822:intron 55.0%
! AGCGCCCAATGCAGAGGTAC+TGG + 6093:23443-23462 None:intergenic 60.0%
!! CTGAGAAGCGCCCAATGCAG+AGG + 6093:23449-23468 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
6093 gene 21596 23752 21596 ID=MS.gene88822
6093 mRNA 21596 23752 21596 ID=MS.gene88822.t1;Parent=MS.gene88822
6093 exon 23568 23752 23568 ID=MS.gene88822.t1.exon1;Parent=MS.gene88822.t1
6093 CDS 23568 23752 23568 ID=cds.MS.gene88822.t1;Parent=MS.gene88822.t1
6093 exon 22901 23101 22901 ID=MS.gene88822.t1.exon2;Parent=MS.gene88822.t1
6093 CDS 22901 23101 22901 ID=cds.MS.gene88822.t1;Parent=MS.gene88822.t1
6093 exon 22072 22233 22072 ID=MS.gene88822.t1.exon3;Parent=MS.gene88822.t1
6093 CDS 22072 22233 22072 ID=cds.MS.gene88822.t1;Parent=MS.gene88822.t1
6093 exon 21596 21955 21596 ID=MS.gene88822.t1.exon4;Parent=MS.gene88822.t1
6093 CDS 21596 21955 21596 ID=cds.MS.gene88822.t1;Parent=MS.gene88822.t1
Gene Sequence

>MS.gene88822

CGACTACTTTGACTGGGTTTCACTTTGCTGTAACTGCTCTTGTCGGACTCGTCTCAAATGCTACCGGTTATTCTGCTTCTAAGCATGTTCCTTTGTGGGAGCTTATTTGGTTCTCTGCTGTTGCCAATATATCTATCACCGGGATGAACTTAAGCCTCATGCTCAATTCCGTTGGATTCTACCAAGTATGCTTGCTTTTCATCTTTACTCTTTCAACTTCATTCAATTTTCAAGATGTTAGAGAAAACCCTGTAGATTCTGTAGTAATGACAGTAGATCAGATGAAACATAGTCAGATCACTACAGCCAGTGGAAAACCTGGGAAATCTATAAGAGAAACTATTAAAAAAGATTTAGAGATTAATGAGTTGGACCGAAATATGGTGGTCTATGATAGAATATTATGGCATAATTTGATCCATGTAGCCGACTCCGGTTAGTGGGTTAAGGATTGATTGATTGATTGTCTGCATCTTGTAATAATTTCAAATTATGCTCAACTCTTCCTTTTAGAGACATGTGCGGTAGTTATTATAATTACATCTCATGTGCTCTAACTTTTAAATGAGCAGCCTACTCTCGTGTTTTCACTTTCAATCTTCATTTCCTCCAGTTTTAAAATTTTCATTTTCTCATCGTGTATGTGAACAGATATCAAAACTAAGCATGATTCCGGTGGTTTGTGTGATGGAATGGATCCTTCACAGCAAACACTACTCAAGGGAAGTGAAAGTGTCGGTCATGGTTGTGGTTATTGGTGTTGGTGTTTGCACTGTAACTGATGTAAATGTTAACTTCAAAGGTTTTGTGTGCGCCTGTGTAGCAGTTGTATCATCATCTTTACAGCAAATTGTAAGTGGTATATAAATGTGTCTGTTCCACCATGTGGGCAATATGGAATTTATCTCCATTTATATTAAGATGTCCTTTTCTCCTGTTATTTATATTCAAGTGTTGTACTACGATAATAGAAAAAGAAACATTTGGTTATGGGCCCAACAAATCAATAGATTTATTACAGACACATCTTTCATCTGGGATTTTTTAATTCTTTTGTACATTTTGAATTGAAGATGAGTGCTAGGTGAAACTTGCATAGACGTAGTATCATGAGTGAGCATCATTTTTATTCTTTTGAAGGTTTTTTAACTTGTACTTTGCCAGTCAATGTTCATTTTAGATCAAACAGACTTCATTGTTAACAGGGGAGTAGAAAACATGATTCTAAACCAGTAAATTGGTCAAGTAATTGGTTCAAAACCAGCGAATAGTGCTGATGAACACTGTTGTTTTTCATTTTTTTTATCTTTTTTTTTTCAGCATCTTTTATTATCTTGGTAATCATTTTAATTTGAATTTCATAATAACCAACCAGTTTGATTTCTAAATTACCAAGTTTCTTCCTTAAATCAAACTTCTTTTTTTTACAAGAAACTTCCTGTGTTATATACCGGAAATCATGCTATTTGTTGGATTGATCCCTTGCTATACCTGATTTTTTTTCCCATTGTTGTGATAGTCAATCGGTTCTCTACAAAAGAAATATTCGATTGGATCTTTTGAACTGCTGAGTAAGACTGCTCCTATTCAAGCTCTCTCTCTTATTATTCTTGGTCCATTTGTTGATTACTATCTCAGTGGCAAGTTGATAACCAACTTTAAGATGTCTTCTGGTGCCATTGTAAGTGATCACCTTTTTTTGTGTTGAATCTAGATAGTTTCGCTTTGTATTTGTTGTTAACTATATATGCATATATTGTTGGATTGTTTATTAAAGTGTCTTTTAAATTTCTGCAGGTTTTCATTCTTCTTTCATGCACCTTAGCTGTGTTTTGTAATGTAAGCCAGTACCTCTGCATTGGGCGCTTCTCAGCAGTTTCCTTCCAGGTTTTAGGCCACATGAAAACATTATGTGTTCTGACTTTGGGGTGGCTGTTATTCGATTCAGAGCTCACTTTCAAGAACATCATGGGAATGGTTCTTGCAGTTGTCGGCATGGTAATTTATAGTTGGGCTGTGGAGCTTGAAAAGCAGCCAAATGCGAAGACTCTCCCTCATTCGAAAAACAGCCTAACAGAAGAAGAAATTAGGCTATTGAAGGAAGGGGTAGAAAATAGTCCGTTGAAAGATATTGAACTTGGTCAGGCTAAAGTTTAG

Protein sequence

>MS.gene88822.t1

RLLULGFTLLULLLSDSSQMLPVILLLSMFLCGSLFGSLLLPIYLSPGUTUASCSIPLDSTKYQNUAUFRWFVUWNGSFTANTTQGKUKCRSWLWLLVLVFALULMUMLTSKVLCAPVUQLYHHLYSKFQSVLYKRNIRLDLLNCUVRLLLFKLSLLLFLVHLLITISVASUUPTLRCLLVPLFSFFFHAPULCFVMUASTSALGASQQFPSRFUATUKHYVFULWGGCYSIQSSLSRTSWEWFLQLSAWUFIVGLWSLKSSQMRRLSLIRKTAUQKKKLGYURKGUKIVRUKILNLVRLKF