AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene58130

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene58130.t1 MTR_8g092580 85.455 110 8 2 1 102 14 123 1.55e-58 178
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 33 sgRNAs with CRISPR-Local

Find 118 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAGAGATACAAGAGATATT+TGG 0.218515 4.2:+9720090 MS.gene58130:CDS
TGACGAAGACCTAAGGAATA+AGG 0.329419 4.2:-9721832 None:intergenic
CGATGCAGCACAAAAGCTTA+TGG 0.339207 4.2:+9719954 MS.gene58130:CDS
CTCACCCTTGTATCATTAAT+AGG 0.341960 4.2:-9720192 None:intergenic
CTCCTTTGCTTCTTAACTAT+AGG 0.354880 4.2:-9720132 None:intergenic
CAGAGATACAAGAGATATTT+GGG 0.363175 4.2:+9720091 MS.gene58130:CDS
ACATCTCACCCTTATTCCTT+AGG 0.420916 4.2:+9721823 MS.gene58130:CDS
GTCTAATTCACTTATCCGCT+TGG 0.441636 4.2:-9721855 None:intergenic
TTCTCTTGTGAATATTTACA+TGG 0.455958 4.2:+9720161 MS.gene58130:CDS
CCATCCCTTCACTCTCCTCC+TGG 0.460287 4.2:+9721760 MS.gene58130:CDS
CTACACCTATTAATGATACA+AGG 0.466346 4.2:+9720187 MS.gene58130:CDS
TTCCTATAGTTAAGAAGCAA+AGG 0.492711 4.2:+9720130 MS.gene58130:CDS
GACGAAGACCTAAGGAATAA+GGG 0.499266 4.2:-9721831 None:intergenic
AAGGGCAACAACAACATTAG+AGG 0.505052 4.2:+9719994 MS.gene58130:CDS
CGCTTGGTGACGAAGACCTA+AGG 0.513954 4.2:-9721839 None:intergenic
AGCGCCAGGAGGAGAGTGAA+GGG 0.527974 4.2:-9721764 None:intergenic
CGAAGCAACCGACATGAAGA+AGG 0.528099 4.2:+9720036 MS.gene58130:CDS
TAGCGCCAGGAGGAGAGTGA+AGG 0.537913 4.2:-9721765 None:intergenic
ACAAAGTGATGATATTGTAA+TGG 0.539209 4.2:+9720068 MS.gene58130:CDS
CCAGGAGGAGAGTGAAGGGA+TGG 0.546900 4.2:-9721760 None:intergenic
GGATCTTAGTGATGAAGAGA+AGG 0.549113 4.2:+9719975 MS.gene58130:CDS
ACACTGAATGAGATAGCGCC+AGG 0.562797 4.2:-9721778 None:intergenic
TTCTTCACCAATGAGACCAT+CGG 0.580827 4.2:+9721703 MS.gene58130:intron
AGGCTCGAAGACGGTTCCGA+TGG 0.583637 4.2:-9721719 None:intergenic
GGAGTAACAGTTCTTTGAAG+AGG 0.584214 4.2:-9721739 None:intergenic
TTGGCGTAAGATGAAGATTG+TGG 0.597571 4.2:+9719897 None:intergenic
GATCTTAGTGATGAAGAGAA+GGG 0.605452 4.2:+9719976 MS.gene58130:CDS
TACACCTATTAATGATACAA+GGG 0.630937 4.2:+9720188 MS.gene58130:CDS
TCTTTGAAGAGGCTCGAAGA+CGG 0.633136 4.2:-9721728 None:intergenic
GTTGTCTACGACAACTACGA+TGG 0.662655 4.2:+9721799 MS.gene58130:CDS
CTTAGGTCTTCGTCACCAAG+CGG 0.670543 4.2:+9721840 MS.gene58130:CDS
TTAGAGGCAGAAGAAGCAAG+AGG 0.689009 4.2:+9720010 MS.gene58130:CDS
CTGAATGAGATAGCGCCAGG+AGG 0.721818 4.2:-9721775 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTATTATGAGGAAAATTA+AGG - chr4.2:9720258-9720277 None:intergenic 15.0%
!!! AGTTTTAGATTAAAAGATTA+AGG - chr4.2:9721344-9721363 None:intergenic 15.0%
!!! CTTTTAATCTAAAACTTATT+GGG + chr4.2:9721348-9721367 MS.gene58130:intron 15.0%
!!! TCTTTTAATCTAAAACTTAT+TGG + chr4.2:9721347-9721366 MS.gene58130:intron 15.0%
!! AAATGTTTGATATATAAGAG+AGG + chr4.2:9720607-9720626 MS.gene58130:intron 20.0%
!! AAATTAACACAACCAAATAA+CGG - chr4.2:9720407-9720426 None:intergenic 20.0%
!! ATGAGAAAATACAAAATTCT+GGG - chr4.2:9720296-9720315 None:intergenic 20.0%
!! ATTTATTTGGATTTGTATCA+GGG + chr4.2:9720780-9720799 MS.gene58130:intron 20.0%
!! TATCATTAATTATGACATTC+AGG - chr4.2:9721406-9721425 None:intergenic 20.0%
!! TATTTATTTGGATTTGTATC+AGG + chr4.2:9720779-9720798 MS.gene58130:intron 20.0%
!! TCTATGGATCAATATTTATT+TGG + chr4.2:9720767-9720786 MS.gene58130:intron 20.0%
!!! ATTTTACTCTTATAGTTTTG+AGG - chr4.2:9721096-9721115 None:intergenic 20.0%
!!! GCACTTAACATTTTATTTTT+TGG - chr4.2:9720359-9720378 None:intergenic 20.0%
!!! TCAAAACCTTATATTTTGTT+GGG - chr4.2:9720731-9720750 None:intergenic 20.0%
!!! TGAATGAAAACCTTTTTATT+TGG + chr4.2:9720490-9720509 MS.gene58130:intron 20.0%
!!! TTCAAAACCTTATATTTTGT+TGG - chr4.2:9720732-9720751 None:intergenic 20.0%
!!! TTTTACTCTTATAGTTTTGA+GGG - chr4.2:9721095-9721114 None:intergenic 20.0%
! ACAAAGTGATGATATTGTAA+TGG + chr4.2:9720068-9720087 MS.gene58130:CDS 25.0%
! ATTAATTATGACATTCAGGA+GGG - chr4.2:9721402-9721421 None:intergenic 25.0%
! CATGAGAAAATACAAAATTC+TGG - chr4.2:9720297-9720316 None:intergenic 25.0%
! CCTCATAATAATTGTAAGAT+GGG + chr4.2:9720265-9720284 MS.gene58130:intron 25.0%
! TACACCTATTAATGATACAA+GGG + chr4.2:9720188-9720207 MS.gene58130:CDS 25.0%
! TATTTAAAGAACACCCTATA+TGG + chr4.2:9721294-9721313 MS.gene58130:intron 25.0%
! TCCTCATAATAATTGTAAGA+TGG + chr4.2:9720264-9720283 MS.gene58130:intron 25.0%
! TTCTCTTGTGAATATTTACA+TGG + chr4.2:9720161-9720180 MS.gene58130:CDS 25.0%
! TTTAAGCATAATGATCAGTT+TGG + chr4.2:9721435-9721454 MS.gene58130:intron 25.0%
! TTTATTTGGATTTGTATCAG+GGG + chr4.2:9720781-9720800 MS.gene58130:intron 25.0%
!! AAAACCTTATATTTTGTTGG+GGG - chr4.2:9720729-9720748 None:intergenic 25.0%
!! ATGCACATTCAATATTTTGT+GGG + chr4.2:9720892-9720911 MS.gene58130:intron 25.0%
!! CAAAACCTTATATTTTGTTG+GGG - chr4.2:9720730-9720749 None:intergenic 25.0%
!! CAGAATTTTGTATTTTCTCA+TGG + chr4.2:9720295-9720314 MS.gene58130:intron 25.0%
!! TATTTCACATCGACTAAAAA+TGG + chr4.2:9720581-9720600 MS.gene58130:intron 25.0%
!! TTGTATTTTCTCATGGAAAA+TGG + chr4.2:9720302-9720321 MS.gene58130:intron 25.0%
!!! ATGAAAACCTTTTTATTTGG+TGG + chr4.2:9720493-9720512 MS.gene58130:intron 25.0%
AATGTTGGAATTGTAAAAGG+AGG - chr4.2:9721506-9721525 None:intergenic 30.0%
ATCAACACCACCAAATAAAA+AGG - chr4.2:9720503-9720522 None:intergenic 30.0%
ATGTTGGAATTGTAAAAGGA+GGG - chr4.2:9721505-9721524 None:intergenic 30.0%
ATTATGAGATACGCAAATGT+TGG - chr4.2:9721521-9721540 None:intergenic 30.0%
CAGAGATACAAGAGATATTT+GGG + chr4.2:9720091-9720110 MS.gene58130:CDS 30.0%
CATTAATTATGACATTCAGG+AGG - chr4.2:9721403-9721422 None:intergenic 30.0%
CCCATCTTACAATTATTATG+AGG - chr4.2:9720268-9720287 None:intergenic 30.0%
CCTATAAATTCCATGTCTTA+AGG + chr4.2:9720633-9720652 MS.gene58130:intron 30.0%
CCTTAAGACATGGAATTTAT+AGG - chr4.2:9720636-9720655 None:intergenic 30.0%
CTACACCTATTAATGATACA+AGG + chr4.2:9720187-9720206 MS.gene58130:CDS 30.0%
GAGATTTGTGTGATATAGTT+GGG - chr4.2:9721597-9721616 None:intergenic 30.0%
GCAAATGTTGGAATTGTAAA+AGG - chr4.2:9721509-9721528 None:intergenic 30.0%
TAAGCAAATGAAACCGTAAA+AGG - chr4.2:9721571-9721590 None:intergenic 30.0%
TCATTAATTGAAGTTCTACG+TGG - chr4.2:9721467-9721486 None:intergenic 30.0%
TGAGATTTGTGTGATATAGT+TGG - chr4.2:9721598-9721617 None:intergenic 30.0%
TTAATTATGACATTCAGGAG+GGG - chr4.2:9721401-9721420 None:intergenic 30.0%
TTCCTATAGTTAAGAAGCAA+AGG + chr4.2:9720130-9720149 MS.gene58130:CDS 30.0%
! AATTCCATGTCTTAAGGTTT+TGG + chr4.2:9720639-9720658 MS.gene58130:intron 30.0%
! ACAAATCTCATAGTGTTGAA+GGG + chr4.2:9721608-9721627 MS.gene58130:intron 30.0%
! ATAAGAGTATGATGTCTCTA+TGG + chr4.2:9720751-9720770 MS.gene58130:intron 30.0%
! ATTCCATGTCTTAAGGTTTT+GGG + chr4.2:9720640-9720659 MS.gene58130:intron 30.0%
! CATGCACATTCAATATTTTG+TGG + chr4.2:9720891-9720910 MS.gene58130:intron 30.0%
! TACTTGTTAACACATCTCTA+AGG + chr4.2:9720923-9720942 MS.gene58130:intron 30.0%
! TGTGGTATTTCTATCTTAAC+AGG + chr4.2:9720669-9720688 MS.gene58130:intron 30.0%
!! AAGTGTTGATATCCGTTATT+TGG + chr4.2:9720392-9720411 MS.gene58130:intron 30.0%
AAATTCATACGCTTGAGACT+TGG - chr4.2:9720998-9721017 None:intergenic 35.0%
AATGAGTCAGTGATGTTTGT+TGG - chr4.2:9721658-9721677 None:intergenic 35.0%
ATGAGTCAGTGATGTTTGTT+GGG - chr4.2:9721657-9721676 None:intergenic 35.0%
CAAATGAAACCGTAAAAGGA+GGG - chr4.2:9721567-9721586 None:intergenic 35.0%
CGTCATCATACTACTTCATT+TGG + chr4.2:9721318-9721337 MS.gene58130:intron 35.0%
CTCACCCTTGTATCATTAAT+AGG - chr4.2:9720195-9720214 None:intergenic 35.0%
CTCCTTTGCTTCTTAACTAT+AGG - chr4.2:9720135-9720154 None:intergenic 35.0%
GATATGTGAGACGGTAAAAA+TGG + chr4.2:9720948-9720967 MS.gene58130:intron 35.0%
GATCTTAGTGATGAAGAGAA+GGG + chr4.2:9719976-9719995 MS.gene58130:CDS 35.0%
GCAGAGATACAAGAGATATT+TGG + chr4.2:9720090-9720109 MS.gene58130:CDS 35.0%
TAATTATGACATTCAGGAGG+GGG - chr4.2:9721400-9721419 None:intergenic 35.0%
TCTAAGGATGATATGTGAGA+CGG + chr4.2:9720939-9720958 MS.gene58130:intron 35.0%
TTACCCAAAACCTTAAGACA+TGG - chr4.2:9720646-9720665 None:intergenic 35.0%
! AGTATGATGACGACCATATA+GGG - chr4.2:9721310-9721329 None:intergenic 35.0%
! CAAATCTCATAGTGTTGAAG+GGG + chr4.2:9721609-9721628 MS.gene58130:intron 35.0%
! CACAAATCTCATAGTGTTGA+AGG + chr4.2:9721607-9721626 MS.gene58130:intron 35.0%
! TAGTATGATGACGACCATAT+AGG - chr4.2:9721311-9721330 None:intergenic 35.0%
! TTCACATCGACTAAAAATGG+AGG + chr4.2:9720584-9720603 MS.gene58130:intron 35.0%
!!! GCTTTTTTCCTTCTTCATGT+CGG - chr4.2:9720047-9720066 None:intergenic 35.0%
AAGGGCAACAACAACATTAG+AGG + chr4.2:9719994-9720013 MS.gene58130:CDS 40.0%
ACATCTCACCCTTATTCCTT+AGG + chr4.2:9721823-9721842 MS.gene58130:CDS 40.0%
GACGAAGACCTAAGGAATAA+GGG - chr4.2:9721834-9721853 None:intergenic 40.0%
GACTCCCCCAACAAAATATA+AGG + chr4.2:9720722-9720741 MS.gene58130:intron 40.0%
GAGATGAGATACGCAAATGT+TGG - chr4.2:9721545-9721564 None:intergenic 40.0%
GCAAATGAAACCGTAAAAGG+AGG - chr4.2:9721568-9721587 None:intergenic 40.0%
GGATCTTAGTGATGAAGAGA+AGG + chr4.2:9719975-9719994 MS.gene58130:CDS 40.0%
TGACGAAGACCTAAGGAATA+AGG - chr4.2:9721835-9721854 None:intergenic 40.0%
TTCTTCACCAATGAGACCAT+CGG + chr4.2:9721703-9721722 MS.gene58130:intron 40.0%
! ATATTTTGTTGGGGGAGTCT+AGG - chr4.2:9720721-9720740 None:intergenic 40.0%
! ATCTCATCTCCCTCCTTTTA+CGG + chr4.2:9721555-9721574 MS.gene58130:intron 40.0%
! GGAGTAACAGTTCTTTGAAG+AGG - chr4.2:9721742-9721761 None:intergenic 40.0%
! TCAGTGATGTTTGTTGGGAA+AGG - chr4.2:9721652-9721671 None:intergenic 40.0%
!! AGACGGTAAAAATGGATTGC+AGG + chr4.2:9720956-9720975 MS.gene58130:intron 40.0%
!! GACGGTAAAAATGGATTGCA+GGG + chr4.2:9720957-9720976 MS.gene58130:intron 40.0%
!!! TAAGGTTTTGGGTAAGAGTG+TGG + chr4.2:9720651-9720670 MS.gene58130:intron 40.0%
CGATGCAGCACAAAAGCTTA+TGG + chr4.2:9719954-9719973 MS.gene58130:CDS 45.0%
GTTGTCTACGACAACTACGA+TGG + chr4.2:9721799-9721818 MS.gene58130:CDS 45.0%
TTAGAGGCAGAAGAAGCAAG+AGG + chr4.2:9720010-9720029 MS.gene58130:CDS 45.0%
! TCTTTGAAGAGGCTCGAAGA+CGG - chr4.2:9721731-9721750 None:intergenic 45.0%
ACACTGAATGAGATAGCGCC+AGG - chr4.2:9721781-9721800 None:intergenic 50.0%
CGAAGCAACCGACATGAAGA+AGG + chr4.2:9720036-9720055 MS.gene58130:CDS 50.0%
CTTAGGTCTTCGTCACCAAG+CGG + chr4.2:9721840-9721859 MS.gene58130:CDS 50.0%
GACATTCAGGAGGGGGAAAA+GGG - chr4.2:9721393-9721412 None:intergenic 50.0%
TGACATTCAGGAGGGGGAAA+AGG - chr4.2:9721394-9721413 None:intergenic 50.0%
AGGGGGAAAAGGGAGGGATT+AGG - chr4.2:9721383-9721402 None:intergenic 55.0%
AGGGGTGAGTGCATGCTGAT+AGG + chr4.2:9720799-9720818 MS.gene58130:intron 55.0%
ATTCAGGAGGGGGAAAAGGG+AGG - chr4.2:9721390-9721409 None:intergenic 55.0%
CTGAATGAGATAGCGCCAGG+AGG - chr4.2:9721778-9721797 None:intergenic 55.0%
GACGGTTCCGATGGTCTCAT+TGG - chr4.2:9721713-9721732 None:intergenic 55.0%
GGGGGAAAAGGGAGGGATTA+GGG - chr4.2:9721382-9721401 None:intergenic 55.0%
TTCAGGAGGGGGAAAAGGGA+GGG - chr4.2:9721389-9721408 None:intergenic 55.0%
TTGTTGGGGGAGTCTAGGAG+TGG - chr4.2:9720716-9720735 None:intergenic 55.0%
!! CGCTTGGTGACGAAGACCTA+AGG - chr4.2:9721842-9721861 None:intergenic 55.0%
AGCGCCAGGAGGAGAGTGAA+GGG - chr4.2:9721767-9721786 None:intergenic 60.0%
AGGCTCGAAGACGGTTCCGA+TGG - chr4.2:9721722-9721741 None:intergenic 60.0%
CCAGGAGGAGAGTGAAGGGA+TGG - chr4.2:9721763-9721782 None:intergenic 60.0%
CCATCCCTTCACTCTCCTCC+TGG + chr4.2:9721760-9721779 MS.gene58130:CDS 60.0%
TAGCGCCAGGAGGAGAGTGA+AGG - chr4.2:9721768-9721787 None:intergenic 60.0%
GGGGAGTCTAGGAGTGGCGA+TGG - chr4.2:9720710-9720729 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 9719907 9721870 9719907 ID=MS.gene58130
chr4.2 mRNA 9719907 9721870 9719907 ID=MS.gene58130.t1;Parent=MS.gene58130
chr4.2 exon 9719907 9720209 9719907 ID=MS.gene58130.t1.exon1;Parent=MS.gene58130.t1
chr4.2 CDS 9719907 9720209 9719907 ID=cds.MS.gene58130.t1;Parent=MS.gene58130.t1
chr4.2 exon 9721718 9721870 9721718 ID=MS.gene58130.t1.exon2;Parent=MS.gene58130.t1
chr4.2 CDS 9721718 9721870 9721718 ID=cds.MS.gene58130.t1;Parent=MS.gene58130.t1
Gene Sequence

>MS.gene58130

ATGAAGATTGTGGAATATGATCAACACTTGATTAATGAGTATGATGTCGATGCAGCACAAAAGCTTATGGATCTTAGTGATGAAGAGAAGGGCAACAACAACATTAGAGGCAGAAGAAGCAAGAGGATGCGAAGCAACCGACATGAAGAAGGAAAAAAGCAACAAAGTGATGATATTGTAATGGCAGAGATACAAGAGATATTTGGGAAAGATGTTGAAGTTTTTCCTATAGTTAAGAAGCAAAGGAGATATCGTTCTCTTGTGAATATTTACATGGCTACTACACCTATTAATGATACAAGGGTGAGTGCATGATGTGATGACAATGAGAACTAAGAACGTAGCTAGCCTTAATTTTCCTCATAATAATTGTAAGATGGGTCACTCCCAGAATTTTGTATTTTCTCATGGAAAATGGAAAATAATATATGTTCAGTACTACTTGAGTGCCAAAAAATAAAATGTTAAGTGCTACTTTCGTTTTTAAGTGTTGATATCCGTTATTTGGTTGTGTTAATTTAGTTATCAATATGTGTGTTGATTATCAATGTGTTACGTACTGCTATATATCTACATGTCTTGATGAATGAAAACCTTTTTATTTGGTGGTGTTGATGAATGAAGACTTGATAACAAGTTATTTAACTTTGTTGAAAATCAAGTGCGAGTGATTATATTTCACATCGACTAAAAATGGAGGAAATGTTTGATATATAAGAGAGGAGACCTATAAATTCCATGTCTTAAGGTTTTGGGTAAGAGTGTGGTATTTCTATCTTAACAGGTCATAGACATTTAGTCCATCGCCACTCCTAGACTCCCCCAACAAAATATAAGGTTTTGAATAAGAGTATGATGTCTCTATGGATCAATATTTATTTGGATTTGTATCAGGGGTGAGTGCATGCTGATAGGTATTCTATTTTTCTAGTCTGTGAATAATGAATCATTGATCTTATTGCTTGATAATCAACTCTTGTTGCTCATGCACATTCAATATTTTGTGGGTTGTTTGTTACTTGTTAACACATCTCTAAGGATGATATGTGAGACGGTAAAAATGGATTGCAGGGATTAATCTATAAAATCCAAGTCTCAAGCGTATGAATTTTAATGATTTAGAATAAAATTCGATACAACAGATAAATCATTTGAGAATAGTGTTGAATGAGAGTTTAAATACAACCCTCAAAACTATAAGAGTAAAATGACATAAAATAAATATTATTTAAAATAAACTAATTATCTACAAATTATTCATGTATATATGTATGTATATATGTATATATATGTGTATATATATATATATATATATATATATATATATATATATATCTGTGTGTGCGCGCGCGCGCGCACACACATATATATTTTGATATTTTAAAAATATTTAAAGAACACCCTATATGGTCGTCATCATACTACTTCATTTGGCCTTAATCTTTTAATCTAAAACTTATTGGGTTTGCAAACCCTAATCCCTCCCTTTTCCCCCTCCTGAATGTCATAATTAATGATATCTTAAGTGTTTAAGCATAATGATCAGTTTGGACATATCCACGTAGAACTTCAATTAATGATGTAGTCTCTCATCTCCCTCCTTTTACAATTCCAACATTTGCGTATCTCATAATTCCAACATTTGCGTATCTCATCTCCCTCCTTTTACGGTTTCATTTGCTTATCACCCAACTATATCACACAAATCTCATAGTGTTGAAGGGGTATACTAGAAACTTTAACCTTTCCCAACAAACATCACTGACTCATTCAACACTACATTACTCTCTGATCGTTTCTTCACCAATGAGACCATCGGAACCGTCTTCGAGCCTCTTCAAAGAACTGTTACTCCATCCCTTCACTCTCCTCCTGGCGCTATCTCATTCAGTGTTGTCTACGACAACTACGATGGAACATCTCACCCTTATTCCTTAGGTCTTCGTCACCAAGCGGATAAGTGA
Protein sequence

>MS.gene58130.t1

MKIVEYDQHLINEYDVDAAQKLMDLSDEEKGNNNIRGRRSKRMRSNRHEEGKKQQSDDIVMAEIQEIFGKDVEVFPIVKKQRRYRSLVNIYMATTPINDTRTIGTVFEPLQRTVTPSLHSPPGAISFSVVYDNYDGTSHPYSLGLRHQADK