AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene053449


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene053449.t1 MTR_1g045140 96.850 127 4 0 1 127 1 127 3.94e-89 254
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene053449.t1 AT2G05620 75.940 133 23 4 2 127 3 133 8.71e-66 196
MS.gene053449.t1 AT2G05620 75.940 133 23 4 2 127 3 133 8.71e-66 196

Find 30 sgRNAs with CRISPR-Local

Find 92 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAACGTTTCAATCAGCTTAG+AGG 0.319386 1.4:-29312088 MS.gene053449:CDS
TCATTAACATTCTTCATCAT+AGG 0.355579 1.4:+29312166 None:intergenic
GCCACATCAATTTCTGCAAC+AGG 0.383234 1.4:-29312316 MS.gene053449:CDS
ACTGAATTCTGCAAATCAAT+AGG 0.397917 1.4:-29310911 MS.gene053449:CDS
AACAGAGACAAGGGCTGATT+AGG 0.411490 1.4:-29310877 MS.gene053449:CDS
TGTGTTGGTTCATCATTCTA+TGG 0.416628 1.4:-29312292 MS.gene053449:CDS
TTACGAGTAACCACAACAAT+TGG 0.430918 1.4:+29312124 None:intergenic
AGCCATTGCTTTACACTCTC+AGG 0.432190 1.4:-29312062 MS.gene053449:intron
GTTCATCATTCTATGGAAGC+TGG 0.445752 1.4:-29312285 MS.gene053449:CDS
GTTTCTTCGCAAGTTCGTAT+TGG 0.470806 1.4:-29312217 MS.gene053449:CDS
GTGGTTACTCGTAATATTGT+TGG 0.474864 1.4:-29312115 MS.gene053449:CDS
ATCATAGGTTGCAACCTCAC+TGG 0.491055 1.4:+29312181 None:intergenic
TTCATCATTCTATGGAAGCT+GGG 0.491238 1.4:-29312284 MS.gene053449:CDS
ATTAGGTTGGCTAAGAAGAA+TGG 0.501313 1.4:-29310860 MS.gene053449:CDS
ATGATGAAGAATGTTAATGA+AGG 0.502442 1.4:-29312163 MS.gene053449:CDS
ATTTCTGCAACAGGTTGTGT+TGG 0.519614 1.4:-29312307 MS.gene053449:CDS
AGCTGGGGAACATCTATAGT+TGG 0.521344 1.4:-29312268 MS.gene053449:CDS
TATATTTGCTCCAATTGTTG+TGG 0.534523 1.4:-29312134 MS.gene053449:CDS
AAGAAGAATGGAGAATGGCT+TGG 0.545873 1.4:-29310848 MS.gene053449:CDS
AAGAATGTTAATGAAGGGAA+AGG 0.566696 1.4:-29312157 MS.gene053449:CDS
GAGACAAGGGCTGATTAGGT+TGG 0.587941 1.4:-29310873 MS.gene053449:CDS
TGGTGAAGATTACAGCATGT+TGG 0.600796 1.4:-29312248 MS.gene053449:CDS
TGGCTAAGAAGAATGGAGAA+TGG 0.601122 1.4:-29310853 MS.gene053449:CDS
TGATGAAGAATGTTAATGAA+GGG 0.601637 1.4:-29312162 MS.gene053449:CDS
CACCTGAGAGTGTAAAGCAA+TGG 0.607087 1.4:+29312060 None:intergenic
TCATCATTCTATGGAAGCTG+GGG 0.629743 1.4:-29312283 MS.gene053449:CDS
GCAGATGCAAAACAGAGACA+AGG 0.641927 1.4:-29310887 MS.gene053449:CDS
CAGATGCAAAACAGAGACAA+GGG 0.659781 1.4:-29310886 MS.gene053449:CDS
GAAGAGTTAGTAAGCCAGTG+AGG 0.661265 1.4:-29312195 MS.gene053449:CDS
ACCTGTTGCAGAAATTGATG+TGG 0.685676 1.4:+29312315 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TACTTATTTAAAAAATTTGT+GGG - chr1.4:29311368-29311387 MS.gene053449:intron 10.0%
!! TTACTTATTTAAAAAATTTG+TGG - chr1.4:29311367-29311386 MS.gene053449:intron 10.0%
!!! CTTTTGAGATTTTATTTTTT+AGG - chr1.4:29311182-29311201 MS.gene053449:intron 15.0%
!! ATTCAAAAAAACACATTTCT+AGG - chr1.4:29311510-29311529 MS.gene053449:intron 20.0%
!! ATTTGTGTGAATAAAATTGA+TGG - chr1.4:29312161-29312180 MS.gene053449:CDS 20.0%
!! GAAATTTATTGTTACAACTT+AGG - chr1.4:29311210-29311229 MS.gene053449:intron 20.0%
!! TAAAACTAAAGAATTTGAGA+TGG - chr1.4:29311552-29311571 MS.gene053449:intron 20.0%
!! TCAAGTACAATATATCAAAA+GGG - chr1.4:29311327-29311346 MS.gene053449:intron 20.0%
!! TTATATGATTCTCTTGAATT+AGG - chr1.4:29311244-29311263 MS.gene053449:intron 20.0%
!! TTCAAAAAAACACATTTCTA+GGG - chr1.4:29311511-29311530 MS.gene053449:intron 20.0%
!! TTCAAGTACAATATATCAAA+AGG - chr1.4:29311326-29311345 MS.gene053449:intron 20.0%
!! TTGTTAATTAAAGTGATACT+AGG - chr1.4:29311404-29311423 MS.gene053449:intron 20.0%
!!! TAGTTTATAGTTGATATTTG+CGG - chr1.4:29311611-29311630 MS.gene053449:intron 20.0%
!!! TTTCATATTTTGAAATCTGT+AGG - chr1.4:29312215-29312234 MS.gene053449:CDS 20.0%
! ATGATGAAGAATGTTAATGA+AGG - chr1.4:29310991-29311010 MS.gene053449:intron 25.0%
! CTAACATATGATAAGAGATT+GGG - chr1.4:29311973-29311992 MS.gene053449:intron 25.0%
! GAATAAAATTGATGGAAGAA+TGG - chr1.4:29312169-29312188 MS.gene053449:CDS 25.0%
! GGATTATATGTTTCAATGTT+TGG - chr1.4:29311265-29311284 MS.gene053449:intron 25.0%
! TAACATATGATAAGAGATTG+GGG - chr1.4:29311974-29311993 MS.gene053449:intron 25.0%
! TAACCTTGAGAGAAAAAATT+TGG + chr1.4:29311434-29311453 None:intergenic 25.0%
! TCATTAACATTCTTCATCAT+AGG + chr1.4:29310991-29311010 None:intergenic 25.0%
! TCTAACATATGATAAGAGAT+TGG - chr1.4:29311972-29311991 MS.gene053449:intron 25.0%
! TGATGAAATATGTTGAAAAG+AGG - chr1.4:29311303-29311322 MS.gene053449:intron 25.0%
! TGATGAAGAATGTTAATGAA+GGG - chr1.4:29310992-29311011 MS.gene053449:intron 25.0%
!! TCAAAAAAACACATTTCTAG+GGG - chr1.4:29311512-29311531 MS.gene053449:intron 25.0%
!!! AAACCAAATTTTTTCTCTCA+AGG - chr1.4:29311428-29311447 MS.gene053449:intron 25.0%
!!! ATAATTAGTGCTTTCTAGTT+GGG + chr1.4:29311953-29311972 None:intergenic 25.0%
!!! TTTTTTCTCTCAAGGTTATA+AGG - chr1.4:29311436-29311455 MS.gene053449:intron 25.0%
AAGAATGTTAATGAAGGGAA+AGG - chr1.4:29310997-29311016 MS.gene053449:intron 30.0%
ACTGAATTCTGCAAATCAAT+AGG - chr1.4:29312243-29312262 MS.gene053449:CDS 30.0%
GATTTGAACTTCATCTCTTA+AGG + chr1.4:29312079-29312098 None:intergenic 30.0%
GTTTAAAGATTGATGGAAGA+TGG - chr1.4:29311718-29311737 MS.gene053449:intron 30.0%
TATATTTGCTCCAATTGTTG+TGG - chr1.4:29311020-29311039 MS.gene053449:intron 30.0%
TCAATGTTTGGTTAGATTGA+AGG - chr1.4:29311277-29311296 MS.gene053449:intron 30.0%
TGTGGTTGTTTAAAGATTGA+TGG - chr1.4:29311711-29311730 MS.gene053449:intron 30.0%
TTGATATTTGCGGAGAATTA+TGG - chr1.4:29311621-29311640 MS.gene053449:intron 30.0%
! GATAATTAGTGCTTTCTAGT+TGG + chr1.4:29311954-29311973 None:intergenic 30.0%
!! TAATTAGTGCTTTCTAGTTG+GGG + chr1.4:29311952-29311971 None:intergenic 30.0%
!!! TTTGAGATGGTTTTGAATCA+AGG - chr1.4:29311565-29311584 MS.gene053449:intron 30.0%
AAACGTTTCAATCAGCTTAG+AGG - chr1.4:29311066-29311085 MS.gene053449:intron 35.0%
ACGGGATGTTTCAAAATGTT+CGG - chr1.4:29312005-29312024 MS.gene053449:intron 35.0%
AGTTGGGGAAATACTTGATT+GGG + chr1.4:29311937-29311956 None:intergenic 35.0%
GTGGTTACTCGTAATATTGT+TGG - chr1.4:29311039-29311058 MS.gene053449:intron 35.0%
TAGTTGGGGAAATACTTGAT+TGG + chr1.4:29311938-29311957 None:intergenic 35.0%
TTACGAGTAACCACAACAAT+TGG + chr1.4:29311033-29311052 None:intergenic 35.0%
TTCAACTCTTACCATTGAGA+TGG - chr1.4:29311459-29311478 MS.gene053449:intron 35.0%
TTCATCATTCTATGGAAGCT+GGG - chr1.4:29310870-29310889 MS.gene053449:CDS 35.0%
!! ATTAGGTTGGCTAAGAAGAA+TGG - chr1.4:29312294-29312313 MS.gene053449:CDS 35.0%
!! GTCATTAGTGTCACTTTATG+TGG - chr1.4:29312122-29312141 MS.gene053449:CDS 35.0%
!! TGTGTTGGTTCATCATTCTA+TGG - chr1.4:29310862-29310881 MS.gene053449:CDS 35.0%
AAGAAGAATGGAGAATGGCT+TGG - chr1.4:29312306-29312325 MS.gene053449:CDS 40.0%
ACCACATACAAGAGACATCA+AGG + chr1.4:29311697-29311716 None:intergenic 40.0%
ACCTGTTGCAGAAATTGATG+TGG + chr1.4:29310842-29310861 None:intergenic 40.0%
ACCTTGATGTCTCTTGTATG+TGG - chr1.4:29311693-29311712 MS.gene053449:intron 40.0%
AGTTCAAATCACCTCAGAGA+TGG - chr1.4:29312089-29312108 MS.gene053449:CDS 40.0%
ATTTCTGCAACAGGTTGTGT+TGG - chr1.4:29310847-29310866 MS.gene053449:CDS 40.0%
CAAGGACGTGGTAATATTCA+TGG - chr1.4:29311583-29311602 MS.gene053449:intron 40.0%
CAGATGCAAAACAGAGACAA+GGG - chr1.4:29312268-29312287 MS.gene053449:CDS 40.0%
CTAGAAGAGAAAGTCTTGCT+TGG - chr1.4:29311780-29311799 MS.gene053449:intron 40.0%
CTGCAATTATTGTCGTGTTG+CGG - chr1.4:29311654-29311673 MS.gene053449:intron 40.0%
GCAAGACTTTCTCTTCTAGT+TGG + chr1.4:29311779-29311798 None:intergenic 40.0%
GTTCATCATTCTATGGAAGC+TGG - chr1.4:29310869-29310888 MS.gene053449:CDS 40.0%
GTTTCTTCGCAAGTTCGTAT+TGG - chr1.4:29310937-29310956 MS.gene053449:intron 40.0%
TCATCATTCTATGGAAGCTG+GGG - chr1.4:29310871-29310890 MS.gene053449:CDS 40.0%
TCTATGAGATGCCATCTCAA+TGG + chr1.4:29311473-29311492 None:intergenic 40.0%
TGGCTAAGAAGAATGGAGAA+TGG - chr1.4:29312301-29312320 MS.gene053449:CDS 40.0%
TGGTGAAGATTACAGCATGT+TGG - chr1.4:29310906-29310925 MS.gene053449:CDS 40.0%
TTGAGATGGCATCTCATAGA+TGG - chr1.4:29311473-29311492 MS.gene053449:intron 40.0%
TTTGTGTGTGAATGCCTAAG+TGG + chr1.4:29311825-29311844 None:intergenic 40.0%
!! ACTTTTTGAGCACACCACTT+AGG - chr1.4:29311808-29311827 MS.gene053449:intron 40.0%
!!! ATGGTTTTGAATCAAGGACG+TGG - chr1.4:29311571-29311590 MS.gene053449:intron 40.0%
AACAGAGACAAGGGCTGATT+AGG - chr1.4:29312277-29312296 MS.gene053449:CDS 45.0%
AGATGGCATCTCATAGATGG+AGG - chr1.4:29311476-29311495 MS.gene053449:intron 45.0%
AGCCATTGCTTTACACTCTC+AGG - chr1.4:29311092-29311111 MS.gene053449:intron 45.0%
AGCTGGGGAACATCTATAGT+TGG - chr1.4:29310886-29310905 MS.gene053449:CDS 45.0%
ATCATAGGTTGCAACCTCAC+TGG + chr1.4:29310976-29310995 None:intergenic 45.0%
GAAGAGTTAGTAAGCCAGTG+AGG - chr1.4:29310959-29310978 MS.gene053449:intron 45.0%
GATAAGAGATTGGGGATGTG+CGG - chr1.4:29311982-29312001 MS.gene053449:intron 45.0%
GCAGATGCAAAACAGAGACA+AGG - chr1.4:29312267-29312286 MS.gene053449:CDS 45.0%
GCCACATCAATTTCTGCAAC+AGG - chr1.4:29310838-29310857 MS.gene053449:CDS 45.0%
! CACCTGAGAGTGTAAAGCAA+TGG + chr1.4:29311097-29311116 None:intergenic 45.0%
!! TTTCTAGGGGTGTTGAGACA+TGG - chr1.4:29311525-29311544 MS.gene053449:intron 45.0%
ACCACTGAGCTGACACTTTG+TGG + chr1.4:29312038-29312057 None:intergenic 50.0%
GAGACAAGGGCTGATTAGGT+TGG - chr1.4:29312281-29312300 MS.gene053449:CDS 50.0%
GGCATCTCATAGATGGAGGA+GGG - chr1.4:29311480-29311499 MS.gene053449:intron 50.0%
TGGCATCTCATAGATGGAGG+AGG - chr1.4:29311479-29311498 MS.gene053449:intron 50.0%
! TCCACAAAGTGTCAGCTCAG+TGG - chr1.4:29312034-29312053 MS.gene053449:intron 50.0%
AGAGATTGGGGATGTGCGGA+CGG - chr1.4:29311986-29312005 MS.gene053449:intron 55.0%
CCATCACACGACCATCTCTG+AGG + chr1.4:29312103-29312122 None:intergenic 55.0%
CCTCAGAGATGGTCGTGTGA+TGG - chr1.4:29312100-29312119 MS.gene053449:CDS 55.0%
!! CTAGGGGTGTTGAGACATGG+AGG - chr1.4:29311528-29311547 MS.gene053449:intron 55.0%
GAGATTGGGGATGTGCGGAC+GGG - chr1.4:29311987-29312006 MS.gene053449:intron 60.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 29310835 29312341 29310835 ID=MS.gene053449
chr1.4 mRNA 29310835 29312341 29310835 ID=MS.gene053449.t1;Parent=MS.gene053449
chr1.4 exon 29312063 29312341 29312063 ID=MS.gene053449.t1.exon1;Parent=MS.gene053449.t1
chr1.4 CDS 29312063 29312341 29312063 ID=cds.MS.gene053449.t1;Parent=MS.gene053449.t1
chr1.4 exon 29310835 29310939 29310835 ID=MS.gene053449.t1.exon2;Parent=MS.gene053449.t1
chr1.4 CDS 29310835 29310939 29310835 ID=cds.MS.gene053449.t1;Parent=MS.gene053449.t1
Gene Sequence

>MS.gene053449

ATGGCCACATCAATTTCTGCAACAGGTTGTGTTGGTTCATCATTCTATGGAAGCTGGGGAACATCTATAGTTGGTGAAGATTACAGCATGTTGGCTAAGTCAGTTTCTTCGCAAGTTCGTATTGGAAGAGTTAGTAAGCCAGTGAGGTTGCAACCTATGATGAAGAATGTTAATGAAGGGAAAGGTATATTTGCTCCAATTGTTGTGGTTACTCGTAATATTGTTGGAAAGAAACGTTTCAATCAGCTTAGAGGCAAAGCCATTGCTTTACACTCTCAGGTGAATTAAATTCTATGTTCTTATTGTTTGTGTTGTTTACTATTCTTTTGCATAGCTTTTTTGTTTTTCTTTTGAGATTTTATTTTTTAGGTGTTAGAAATTTATTGTTACAACTTAGGAACTTGTTTTTTTATATGATTCTCTTGAATTAGGATTATATGTTTCAATGTTTGGTTAGATTGAAGGATTTGATGAAATATGTTGAAAAGAGGTTCAAGTACAATATATCAAAAGGGAAATGATTTTTTTTTTTTTACTTATTTAAAAAATTTGTGGGAAGAGATAAATTATTGTTAATTAAAGTGATACTAGGTAAACCAAATTTTTTCTCTCAAGGTTATAAGGTTCAACTCTTACCATTGAGATGGCATCTCATAGATGGAGGAGGGAGAATAGATTCAAAAAAACACATTTCTAGGGGTGTTGAGACATGGAGGATAAAACTAAAGAATTTGAGATGGTTTTGAATCAAGGACGTGGTAATATTCATGGTTGAGTAGTTTATAGTTGATATTTGCGGAGAATTATGGTTAAATGCAGCTGCAATTATTGTCGTGTTGCGGTCATAGAGACATCAAAACCTTGATGTCTCTTGTATGTGGTTGTTTAAAGATTGATGGAAGATGGAATAAACATTTTTATGTAATACATATAATGAGAGACCAACTAGAAGAGAAAGTCTTGCTTGGACACAACTTTTTGAGCACACCACTTAGGCATTCACACACAAAATACATTTTATTTAATTATTTTCTCTATCTTTTTCTCAATTATATGTATGTGCGTGAGTGTGTCTAAAGTTTCTGACTAAACACTTGTGCCCAATCAAGTATTTCCCCAACTAGAAAGCACTAATTATCTAACATATGATAAGAGATTGGGGATGTGCGGACGGGATGTTTCAAAATGTTCGGTAATTATCCACAAAGTGTCAGCTCAGTGGTAAGAGTTTGATCTTTTAACCTTAAGAGATGAAGTTCAAATCACCTCAGAGATGGTCGTGTGATGGTCATTAGTGTCACTTTATGTGGATAAATTTTATGAGACATTTGTGTGAATAAAATTGATGGAAGAATGGAACATAAATTTTCTGTACTTAACTTTCATATTTTGAAATCTGTAGGTAATTACTGAATTCTGCAAATCAATAGGAGCAGATGCAAAACAGAGACAAGGGCTGATTAGGTTGGCTAAGAAGAATGGAGAATGGCTTGGTTTTCTTGCATGA

Protein sequence

>MS.gene053449.t1

MATSISATGCVGSSFYGSWGTSIVGEDYSMLAKSVSSQVRIGRVSKPVRLQPMMKNVNEGKGIFAPIVVVTRNIVGKKRFNQLRGKAIALHSQVITEFCKSIGADAKQRQGLIRLAKKNGEWLGFLA