AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene52670


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene52670.t1 MTR_7g062720 40.541 148 80 3 1 146 1 142 5.14e-31 115
MS.gene52670.t1 MTR_4g037355 40.441 136 61 4 155 290 1 116 1.16e-21 89.7
MS.gene52670.t1 MTR_5g061150 35.354 99 64 0 52 150 38 136 4.20e-18 80.1
MS.gene52670.t1 MTR_4g112730 57.971 69 28 1 143 211 2 69 7.91e-18 78.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 61 sgRNAs with CRISPR-Local

Find 90 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGATCAATGGAACAAATTA+AGG 0.196151 7.2:-16065865 MS.gene52670:CDS
AGTCTTATTGCCCTCATTAA+TGG 0.201947 7.2:-16065885 MS.gene52670:CDS
AAAGTTGTGGCGTTTATTTC+AGG 0.203868 7.2:+16065569 None:intergenic
CAAAAGATCCCAAGATCTTA+TGG 0.237847 7.2:-16065943 MS.gene52670:CDS
GATTCTTGAGGGAGAAGATT+TGG 0.253340 7.2:-16066062 MS.gene52670:CDS
GACAAAATTAAGGCAAGATT+TGG 0.257188 7.2:-16065920 MS.gene52670:CDS
CTCAATTAAGTTGTTGTTCC+AGG 0.274617 7.2:+16066111 None:intergenic
CACGACCTCCACCACGAAAA+TGG 0.277262 7.2:+16065453 None:intergenic
GATCTTATGGGACAAAATTA+AGG 0.310971 7.2:-16065930 MS.gene52670:CDS
ATTTACTGAATACTCTGATT+TGG 0.313227 7.2:-16065675 MS.gene52670:CDS
ATTCTTGAGGGAGAAGATTT+GGG 0.333151 7.2:-16066061 MS.gene52670:CDS
AGACAGGTAGTGTCATTCTT+TGG 0.342502 7.2:+16065197 None:intergenic
GGGAGATGTCCCAGAGGAAT+TGG 0.345733 7.2:-16066041 MS.gene52670:CDS
GAAGAGGTTATATGAATTAC+AGG 0.363099 7.2:-16065430 MS.gene52670:CDS
GATTTCTAGAGGGACCTTCC+TGG 0.373636 7.2:+16065354 None:intergenic
CATAGCCACCACGTCCTCTT+TGG 0.374275 7.2:+16065519 None:intergenic
CGTGGTGGCTATGCTCGTTT+TGG 0.395091 7.2:-16065509 MS.gene52670:CDS
ACAAAATTAAGGCAAGATTT+GGG 0.416566 7.2:-16065919 MS.gene52670:CDS
TATAACTGAAAAGGAAAAGT+TGG 0.422757 7.2:-16065762 MS.gene52670:CDS
TGCCCTCATTAATGGATCAA+TGG 0.432677 7.2:-16065877 MS.gene52670:CDS
CGTGGTGGAGGTCGTGGAAG+AGG 0.449888 7.2:-16065446 MS.gene52670:CDS
TCCTGCATGCTTTAGCCCAA+TGG 0.457473 7.2:+16065297 None:intergenic
AAAAGATCCCAAGATCTTAT+GGG 0.458748 7.2:-16065942 MS.gene52670:CDS
AACCATCAGTTGCGTCCTAC+AGG 0.459311 7.2:-16065605 MS.gene52670:CDS
TGGCAAAACTATAACTGAAA+AGG 0.467052 7.2:-16065771 MS.gene52670:CDS
ATCTGTGGATGGAAAGGAAA+GGG 0.491819 7.2:-16065243 MS.gene52670:CDS
ATCAAGCACCACATTGATGA+TGG 0.492315 7.2:-16065989 MS.gene52670:CDS
TGTTATAGATGCGGAAAGAA+AGG 0.495634 7.2:-16065320 MS.gene52670:CDS
CTGGCGACAACTACATAACC+TGG 0.502097 7.2:-16066129 MS.gene52670:CDS
GTTCCATTGATCCATTAATG+AGG 0.509644 7.2:+16065874 None:intergenic
ATGCGGAAAGAAAGGCCATT+GGG 0.516896 7.2:-16065312 MS.gene52670:CDS
TTTGATTGGTCATATTTGAG+AGG 0.522357 7.2:+16065407 None:intergenic
CAAAGAATCTGTGGATGGAA+AGG 0.532926 7.2:-16065249 MS.gene52670:CDS
TTCCATTGATCCATTAATGA+GGG 0.533283 7.2:+16065875 None:intergenic
CGTGGACGAGGTAGAAATCA+TGG 0.535808 7.2:-16065482 MS.gene52670:CDS
GGACTCGATAAGATTCTTGA+GGG 0.539399 7.2:-16066073 MS.gene52670:CDS
GCCATTGGGCTAAAGCATGC+AGG 0.539769 7.2:-16065298 MS.gene52670:CDS
CCCTCTAGAAATCATGATGA+TGG 0.541875 7.2:-16065344 MS.gene52670:CDS
TTCCTGTAGGACGCAACTGA+TGG 0.562606 7.2:+16065603 None:intergenic
AAAATCAGCAGCCTCAAGAC+AGG 0.562896 7.2:+16065181 None:intergenic
AATTGAGTATCTTGCATGTG+AGG 0.565013 7.2:-16066095 MS.gene52670:CDS
ATTGAGTATCTTGCATGTGA+GGG 0.575966 7.2:-16066094 MS.gene52670:CDS
TTTGGTTGCAGCCCTTCTAG+TGG 0.582793 7.2:-16065657 MS.gene52670:CDS
GATGCGGAAAGAAAGGCCAT+TGG 0.583841 7.2:-16065313 MS.gene52670:CDS
TTGTGCAATAATTTGATGCA+TGG 0.588693 7.2:+16065805 None:intergenic
TAAAAGATACAAAGAATCTG+TGG 0.594054 7.2:-16065258 MS.gene52670:CDS
AGATACAAAGAATCTGTGGA+TGG 0.602731 7.2:-16065254 MS.gene52670:CDS
GGGACTCGATAAGATTCTTG+AGG 0.606176 7.2:-16066074 MS.gene52670:CDS
ACGCCCTTGATTAAAAGTTG+TGG 0.608515 7.2:+16065556 None:intergenic
GCAATATCACTTGAGATGCA+TGG 0.608661 7.2:+16065720 None:intergenic
TATAATCGCCAAAGAGGACG+TGG 0.608957 7.2:-16065527 MS.gene52670:CDS
ACCATCATCATGATTTCTAG+AGG 0.616492 7.2:+16065343 None:intergenic
GGATACGACATTGTTCCTGT+AGG 0.627452 7.2:+16065590 None:intergenic
GGTGGTTATAATCGCCAAAG+AGG 0.642086 7.2:-16065533 MS.gene52670:CDS
CCATCATCATGATTTCTAGA+GGG 0.647682 7.2:+16065344 None:intergenic
GAATGACACTACCTGTCTTG+AGG 0.649563 7.2:-16065192 MS.gene52670:CDS
AATCTGTGGATGGAAAGGAA+AGG 0.653361 7.2:-16065244 MS.gene52670:CDS
GATGATGGTTGTTATAGATG+CGG 0.696569 7.2:-16065329 MS.gene52670:CDS
AATCGCCAAAGAGGACGTGG+TGG 0.698905 7.2:-16065524 MS.gene52670:CDS
TTTGTAATCCATCATCAATG+TGG 0.715751 7.2:+16065981 None:intergenic
AGATTTGGGAGATGTCCCAG+AGG 0.741186 7.2:-16066047 MS.gene52670:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTCAAAATTTTAAGCATAAC+TGG - chr7.2:16065175-16065194 MS.gene52670:CDS 20.0%
! ACAAAATTAAGGCAAGATTT+GGG - chr7.2:16065404-16065423 MS.gene52670:CDS 25.0%
! ATTTACTGAATACTCTGATT+TGG - chr7.2:16065648-16065667 MS.gene52670:CDS 25.0%
! CAATCAAACAAAAATCATCA+GGG - chr7.2:16065931-16065950 MS.gene52670:CDS 25.0%
! TAAAAGATACAAAGAATCTG+TGG - chr7.2:16066065-16066084 MS.gene52670:CDS 25.0%
! TATAACTGAAAAGGAAAAGT+TGG - chr7.2:16065561-16065580 MS.gene52670:CDS 25.0%
!! ATTGCACAATTAGAATTTTG+TGG - chr7.2:16065532-16065551 MS.gene52670:CDS 25.0%
!! TATCTTTTACATAGATACTC+TGG + chr7.2:16066054-16066073 None:intergenic 25.0%
!!! CAACAACAGTTTTATAATCT+TGG + chr7.2:16065486-16065505 None:intergenic 25.0%
!!! TGTTGAAGGAGATTTTAATA+TGG - chr7.2:16066164-16066183 MS.gene52670:CDS 25.0%
AAAAGATCCCAAGATCTTAT+GGG - chr7.2:16065381-16065400 MS.gene52670:CDS 30.0%
AACAAAAATCATCAGGGTAA+AGG - chr7.2:16065937-16065956 MS.gene52670:CDS 30.0%
CCAATCAAACAAAAATCATC+AGG - chr7.2:16065930-16065949 MS.gene52670:CDS 30.0%
GAAGAGGTTATATGAATTAC+AGG - chr7.2:16065893-16065912 MS.gene52670:CDS 30.0%
GACAAAATTAAGGCAAGATT+TGG - chr7.2:16065403-16065422 MS.gene52670:CDS 30.0%
GATCTTATGGGACAAAATTA+AGG - chr7.2:16065393-16065412 MS.gene52670:CDS 30.0%
TGGATCAATGGAACAAATTA+AGG - chr7.2:16065458-16065477 MS.gene52670:CDS 30.0%
TGGCAAAACTATAACTGAAA+AGG - chr7.2:16065552-16065571 MS.gene52670:CDS 30.0%
TTCCATTGATCCATTAATGA+GGG + chr7.2:16065451-16065470 None:intergenic 30.0%
TTGTGCAATAATTTGATGCA+TGG + chr7.2:16065521-16065540 None:intergenic 30.0%
TTTGTAATCCATCATCAATG+TGG + chr7.2:16065345-16065364 None:intergenic 30.0%
! AATTTTGTCCCATAAGATCT+TGG + chr7.2:16065392-16065411 None:intergenic 30.0%
! ATTTTGTCCCATAAGATCTT+GGG + chr7.2:16065391-16065410 None:intergenic 30.0%
! TTTGATTGGTCATATTTGAG+AGG + chr7.2:16065919-16065938 None:intergenic 30.0%
!! CCTGATGATTTTTGTTTGAT+TGG + chr7.2:16065933-16065952 None:intergenic 30.0%
AAAGGTAAAAACATCCAGGA+AGG - chr7.2:16065955-16065974 MS.gene52670:CDS 35.0%
AAAGTTGTGGCGTTTATTTC+AGG + chr7.2:16065757-16065776 None:intergenic 35.0%
AATTGAGTATCTTGCATGTG+AGG - chr7.2:16065228-16065247 MS.gene52670:CDS 35.0%
AGATACAAAGAATCTGTGGA+TGG - chr7.2:16066069-16066088 MS.gene52670:CDS 35.0%
ATTCTTGAGGGAGAAGATTT+GGG - chr7.2:16065262-16065281 MS.gene52670:CDS 35.0%
ATTGAGTATCTTGCATGTGA+GGG - chr7.2:16065229-16065248 MS.gene52670:CDS 35.0%
CAAAAGATCCCAAGATCTTA+TGG - chr7.2:16065380-16065399 MS.gene52670:CDS 35.0%
GTTCCATTGATCCATTAATG+AGG + chr7.2:16065452-16065471 None:intergenic 35.0%
TGTTATAGATGCGGAAAGAA+AGG - chr7.2:16066003-16066022 MS.gene52670:CDS 35.0%
! AACGCCACAACTTTTAATCA+AGG - chr7.2:16065763-16065782 MS.gene52670:CDS 35.0%
! ACCATCATCATGATTTCTAG+AGG + chr7.2:16065983-16066002 None:intergenic 35.0%
! ACGCCACAACTTTTAATCAA+GGG - chr7.2:16065764-16065783 MS.gene52670:CDS 35.0%
! ATTTTGTTCAGCCACTAGAA+GGG + chr7.2:16065680-16065699 None:intergenic 35.0%
! CCATCATCATGATTTCTAGA+GGG + chr7.2:16065982-16066001 None:intergenic 35.0%
! CTCAATTAAGTTGTTGTTCC+AGG + chr7.2:16065215-16065234 None:intergenic 35.0%
! GATGATGGTTGTTATAGATG+CGG - chr7.2:16065994-16066013 MS.gene52670:CDS 35.0%
! TATTTTGTTCAGCCACTAGA+AGG + chr7.2:16065681-16065700 None:intergenic 35.0%
! TTTTCTTTGCCAATTCCTCT+GGG + chr7.2:16065294-16065313 None:intergenic 35.0%
! TTTTTCTTTGCCAATTCCTC+TGG + chr7.2:16065295-16065314 None:intergenic 35.0%
!! AGTCTTATTGCCCTCATTAA+TGG - chr7.2:16065438-16065457 MS.gene52670:CDS 35.0%
AATCTGTGGATGGAAAGGAA+AGG - chr7.2:16066079-16066098 MS.gene52670:CDS 40.0%
ACGCCCTTGATTAAAAGTTG+TGG + chr7.2:16065770-16065789 None:intergenic 40.0%
ATCAAGCACCACATTGATGA+TGG - chr7.2:16065334-16065353 MS.gene52670:CDS 40.0%
ATCTGTGGATGGAAAGGAAA+GGG - chr7.2:16066080-16066099 MS.gene52670:CDS 40.0%
CAAAGAATCTGTGGATGGAA+AGG - chr7.2:16066074-16066093 MS.gene52670:CDS 40.0%
GATTCTTGAGGGAGAAGATT+TGG - chr7.2:16065261-16065280 MS.gene52670:CDS 40.0%
GCAATATCACTTGAGATGCA+TGG + chr7.2:16065606-16065625 None:intergenic 40.0%
GGACTCGATAAGATTCTTGA+GGG - chr7.2:16065250-16065269 MS.gene52670:CDS 40.0%
GGGTAAAGGTAAAAACATCC+AGG - chr7.2:16065951-16065970 MS.gene52670:CDS 40.0%
! ACAACTTTTAATCAAGGGCG+TGG - chr7.2:16065769-16065788 MS.gene52670:CDS 40.0%
! AGACAGGTAGTGTCATTCTT+TGG + chr7.2:16066129-16066148 None:intergenic 40.0%
! CCCTCTAGAAATCATGATGA+TGG - chr7.2:16065979-16065998 MS.gene52670:CDS 40.0%
! TGCCCTCATTAATGGATCAA+TGG - chr7.2:16065446-16065465 MS.gene52670:CDS 40.0%
AAAATCAGCAGCCTCAAGAC+AGG + chr7.2:16066145-16066164 None:intergenic 45.0%
ATGCGGAAAGAAAGGCCATT+GGG - chr7.2:16066011-16066030 MS.gene52670:CDS 45.0%
GAATGACACTACCTGTCTTG+AGG - chr7.2:16066131-16066150 MS.gene52670:CDS 45.0%
GGATACGACATTGTTCCTGT+AGG + chr7.2:16065736-16065755 None:intergenic 45.0%
GGGACTCGATAAGATTCTTG+AGG - chr7.2:16065249-16065268 MS.gene52670:CDS 45.0%
GGTGGTTATAATCGCCAAAG+AGG - chr7.2:16065790-16065809 MS.gene52670:CDS 45.0%
TATAATCGCCAAAGAGGACG+TGG - chr7.2:16065796-16065815 MS.gene52670:CDS 45.0%
! CATGGTCGAAACCATTTTCG+TGG - chr7.2:16065859-16065878 MS.gene52670:CDS 45.0%
!! ACTTTTAATCAAGGGCGTGG+TGG - chr7.2:16065772-16065791 MS.gene52670:CDS 45.0%
!!! GAGGCTGCTGATTTTGTTGA+AGG - chr7.2:16066150-16066169 MS.gene52670:CDS 45.0%
AACCATCAGTTGCGTCCTAC+AGG - chr7.2:16065718-16065737 MS.gene52670:CDS 50.0%
AGATTTGGGAGATGTCCCAG+AGG - chr7.2:16065276-16065295 MS.gene52670:CDS 50.0%
CGTGGACGAGGTAGAAATCA+TGG - chr7.2:16065841-16065860 MS.gene52670:CDS 50.0%
CTGGCGACAACTACATAACC+TGG - chr7.2:16065194-16065213 MS.gene52670:CDS 50.0%
GATGCGGAAAGAAAGGCCAT+TGG - chr7.2:16066010-16066029 MS.gene52670:CDS 50.0%
TCCTGCATGCTTTAGCCCAA+TGG + chr7.2:16066029-16066048 None:intergenic 50.0%
TTCCTGTAGGACGCAACTGA+TGG + chr7.2:16065723-16065742 None:intergenic 50.0%
TTTGGTTGCAGCCCTTCTAG+TGG - chr7.2:16065666-16065685 MS.gene52670:CDS 50.0%
! CGAAACCATTTTCGTGGTGG+AGG - chr7.2:16065865-16065884 MS.gene52670:CDS 50.0%
! GATTTCTAGAGGGACCTTCC+TGG + chr7.2:16065972-16065991 None:intergenic 50.0%
! GGTCGAAACCATTTTCGTGG+TGG - chr7.2:16065862-16065881 MS.gene52670:CDS 50.0%
!! TATGCTCGTTTTGGTGGTCG+TGG - chr7.2:16065823-16065842 MS.gene52670:CDS 50.0%
AATCGCCAAAGAGGACGTGG+TGG - chr7.2:16065799-16065818 MS.gene52670:CDS 55.0%
CACGACCTCCACCACGAAAA+TGG + chr7.2:16065873-16065892 None:intergenic 55.0%
CATAGCCACCACGTCCTCTT+TGG + chr7.2:16065807-16065826 None:intergenic 55.0%
GCCATTGGGCTAAAGCATGC+AGG - chr7.2:16066025-16066044 MS.gene52670:CDS 55.0%
GGGAGATGTCCCAGAGGAAT+TGG - chr7.2:16065282-16065301 MS.gene52670:CDS 55.0%
! CGTGGTGGCTATGCTCGTTT+TGG - chr7.2:16065814-16065833 MS.gene52670:CDS 55.0%
! GGTGGCTATGCTCGTTTTGG+TGG - chr7.2:16065817-16065836 MS.gene52670:CDS 55.0%
!! CATTTTCGTGGTGGAGGTCG+TGG - chr7.2:16065871-16065890 MS.gene52670:CDS 55.0%
!! CGTTTTGGTGGTCGTGGACG+AGG - chr7.2:16065829-16065848 MS.gene52670:CDS 60.0%
! CGTGGTGGAGGTCGTGGAAG+AGG - chr7.2:16065877-16065896 MS.gene52670:CDS 65.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 16065154 16066191 16065154 ID=MS.gene52670
chr7.2 mRNA 16065154 16066191 16065154 ID=MS.gene52670.t1;Parent=MS.gene52670
chr7.2 exon 16065154 16066191 16065154 ID=MS.gene52670.t1.exon1;Parent=MS.gene52670.t1
chr7.2 CDS 16065154 16066191 16065154 ID=cds.MS.gene52670.t1;Parent=MS.gene52670.t1
Gene Sequence

>MS.gene52670

ATGTCAAATGTTAAGCATCAATTCAAAATTTTAAGCATAACTGGCGACAACTACATAACCTGGAACAACAACTTAATTGAGTATCTTGCATGTGAGGGACTCGATAAGATTCTTGAGGGAGAAGATTTGGGAGATGTCCCAGAGGAATTGGCAAAGAAAAAATCAAAAGTAAATCGTATAATCAAGCACCACATTGATGATGGATTACAAACAGAGTATTCAAATGCAAAAGATCCCAAGATCTTATGGGACAAAATTAAGGCAAGATTTGGGCATCAGAAGAAAGTCTTATTGCCCTCATTAATGGATCAATGGAACAAATTAAGGTTCCAAGATTATAAAACTGTTGTTGCATATAACTCTGCCATGCATCAAATTATTGCACAATTAGAATTTTGTGGCAAAACTATAACTGAAAAGGAAAAGTTGGAGAAAACATTCTCAACTTTCCATGCATCTCAAGTGATATTGCAACAACAATATAGAATGAGAGAATTTACTGAATACTCTGATTTGGTTGCAGCCCTTCTAGTGGCTGAACAAAATAACGAGCTGCTCATTAAAAACCATCAGTTGCGTCCTACAGGAACAATGTCGTATCCTGAAATAAACGCCACAACTTTTAATCAAGGGCGTGGTGGTTATAATCGCCAAAGAGGACGTGGTGGCTATGCTCGTTTTGGTGGTCGTGGACGAGGTAGAAATCATGGTCGAAACCATTTTCGTGGTGGAGGTCGTGGAAGAGGTTATATGAATTACAGGCCTCTCAAATATGACCAATCAAACAAAAATCATCAGGGTAAAGGTAAAAACATCCAGGAAGGTCCCTCTAGAAATCATGATGATGGTTGTTATAGATGCGGAAAGAAAGGCCATTGGGCTAAAGCATGCAGGACACCAGAGTATCTATGTAAAAGATACAAAGAATCTGTGGATGGAAAGGAAAGGGAAGTTAATTTTAATGAAATTGAACCAAAGAATGACACTACCTGTCTTGAGGCTGCTGATTTTGTTGAAGGAGATTTTAATATGGATTAA

Protein sequence

>MS.gene52670.t1

MSNVKHQFKILSITGDNYITWNNNLIEYLACEGLDKILEGEDLGDVPEELAKKKSKVNRIIKHHIDDGLQTEYSNAKDPKILWDKIKARFGHQKKVLLPSLMDQWNKLRFQDYKTVVAYNSAMHQIIAQLEFCGKTITEKEKLEKTFSTFHASQVILQQQYRMREFTEYSDLVAALLVAEQNNELLIKNHQLRPTGTMSYPEINATTFNQGRGGYNRQRGRGGYARFGGRGRGRNHGRNHFRGGGRGRGYMNYRPLKYDQSNKNHQGKGKNIQEGPSRNHDDGCYRCGKKGHWAKACRTPEYLCKRYKESVDGKEREVNFNEIEPKNDTTCLEAADFVEGDFNMD