AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580029276.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580029276.01.T01 MTR_5g083710 98.630 73 1 0 28 100 4 76 7.83e-45 139
MsG0580029276.01.T01 MTR_3g072000 83.077 65 11 0 28 92 4 68 4.33e-23 84.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580029276.01.T01 AT5G05365 73.846 65 17 0 28 92 4 68 3.27e-27 95.5
MsG0580029276.01.T01 AT5G19090 44.262 61 34 0 31 91 14 74 8.14e-11 57.4
MsG0580029276.01.T01 AT5G19090 44.262 61 34 0 31 91 14 74 8.14e-11 57.4
MsG0580029276.01.T01 AT5G19090 44.262 61 34 0 31 91 14 74 8.14e-11 57.4
MsG0580029276.01.T01 AT5G19090 44.262 61 34 0 31 91 14 74 8.85e-11 57.4
MsG0580029276.01.T01 AT5G19090 44.262 61 34 0 31 91 14 74 8.85e-11 57.4

Find 21 sgRNAs with CRISPR-Local

Find 105 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGACAAGATGATAATATAAT+AGG 0.363147 5:+94643977 None:intergenic
GAATAAAACACATGTTTGAT+AGG 0.372596 5:-94644059 MsG0580029276.01.T01:three_prime_UTR
TTGAACAAGGTCATTGTTAC+GGG 0.389112 5:-94644322 MsG0580029276.01.T01:CDS
GTGGTTCTATATGTTTCTTA+TGG 0.396680 5:+94644157 None:intergenic
AACTCCAATCACTTCTTCAT+TGG 0.396711 5:+94644291 None:intergenic
ATTGGAGTTCTACATAAGAT+TGG 0.430148 5:-94644277 MsG0580029276.01.T01:CDS
AAGGACACAATTCCTGCAAA+AGG 0.449798 5:+94643948 None:intergenic
AGACGTATAGTTACTTGTAA+TGG 0.456390 5:+94644195 None:intergenic
ATTGAACAAGGTCATTGTTA+CGG 0.463256 5:-94644323 MsG0580029276.01.T01:CDS
CAATTCCTGCAAAAGGTTTG+AGG 0.484983 5:+94643955 None:intergenic
AATTCCTGCAAAAGGTTTGA+GGG 0.490125 5:+94643956 None:intergenic
GTCACCAATGAAGAAGTGAT+TGG 0.524078 5:-94644295 MsG0580029276.01.T01:CDS
CAGGTGGTGGAAGTGAAGGT+TGG 0.559119 5:-94644673 MsG0580029276.01.T01:CDS
TCATCAGGTGGTGGAAGTGA+AGG 0.598746 5:-94644677 MsG0580029276.01.T01:intron
AAGGCCATCAAGAAAATCGA+AGG 0.615096 5:-94644616 MsG0580029276.01.T01:intron
GTGTATCAAGAAAATTCTCA+AGG 0.630976 5:-94644635 MsG0580029276.01.T01:CDS
TGTCGACAAGCAATTGAACA+AGG 0.640540 5:-94644335 MsG0580029276.01.T01:CDS
TGGCAAGACTGCAACTGTGT+GGG 0.657615 5:-94644257 MsG0580029276.01.T01:CDS
TGAAGATGATGAACGTGAGA+AGG 0.657616 5:-94646252 MsG0580029276.01.T01:intron
ATAGAACTTCACATCATGCG+TGG 0.678113 5:+94644138 None:intergenic
TTGGCAAGACTGCAACTGTG+TGG 0.701929 5:-94644258 MsG0580029276.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAAAAAATACAAAAAAATAG+AGG - Chr5:94645729-94645748 MsG0580029276.01.T01:intron 10.0%
!!! ACGTTTTTTAATAAAAAAAA+AGG - Chr5:94644084-94644103 MsG0580029276.01.T01:three_prime_UTR 10.0%
!!! ACTTTTTATGTTTAAATAAA+AGG + Chr5:94645042-94645061 None:intergenic 10.0%
!!! CGTTTTTTAATAAAAAAAAA+GGG - Chr5:94644085-94644104 MsG0580029276.01.T01:three_prime_UTR 10.0%
!! TAATACAAACCTTAAAATTT+AGG + Chr5:94644283-94644302 None:intergenic 15.0%
!! TATATAATATTCAATCAGAA+TGG - Chr5:94645430-94645449 MsG0580029276.01.T01:intron 15.0%
!! TCTGATTGAATATTATATAT+TGG + Chr5:94645429-94645448 None:intergenic 15.0%
!! TTGTATGAATATAATTTCTT+GGG + Chr5:94645340-94645359 None:intergenic 15.0%
!!! ATCATTTTACTTTTCATATA+TGG - Chr5:94645495-94645514 MsG0580029276.01.T01:intron 15.0%
!!! CTCTTTTTTAAAAACTTAAT+GGG - Chr5:94644482-94644501 MsG0580029276.01.T01:intron 15.0%
!!! TCTCTTTTTTAAAAACTTAA+TGG - Chr5:94644481-94644500 MsG0580029276.01.T01:intron 15.0%
!!! TCTTTTTTAAAAACTTAATG+GGG - Chr5:94644483-94644502 MsG0580029276.01.T01:intron 15.0%
!! AAAGAGACTATAAATTTCTT+AGG + Chr5:94644468-94644487 None:intergenic 20.0%
!! AAGAGACTATAAATTTCTTA+GGG + Chr5:94644467-94644486 None:intergenic 20.0%
!! ATATTCTATTTGTCCAATTA+AGG + Chr5:94644565-94644584 None:intergenic 20.0%
!! GAAATTGTCAATTTCAAAAT+GGG - Chr5:94644640-94644659 MsG0580029276.01.T01:CDS 20.0%
!! GTTGTATGAATATAATTTCT+TGG + Chr5:94645341-94645360 None:intergenic 20.0%
!! TACTTATCGATAATTACTTA+AGG - Chr5:94644703-94644722 MsG0580029276.01.T01:intron 20.0%
!! TTGACAAGACAAAAAAATAA+AGG + Chr5:94645095-94645114 None:intergenic 20.0%
!!! AATAATTTTTGACTCATTTG+TGG - Chr5:94645840-94645859 MsG0580029276.01.T01:intron 20.0%
!!! ATTATAGTAGAGTTTTGTAT+TGG + Chr5:94645652-94645671 None:intergenic 20.0%
!!! ATTTTGAAATTGACAATTTC+GGG + Chr5:94644640-94644659 None:intergenic 20.0%
!!! CATTTTGAAATTGACAATTT+CGG + Chr5:94644641-94644660 None:intergenic 20.0%
!!! GTAATTTTGCCTAAATTTTA+AGG - Chr5:94644271-94644290 MsG0580029276.01.T01:CDS 20.0%
!!! TTTATTATTGACTCTTACAT+TGG + Chr5:94645456-94645475 None:intergenic 20.0%
! CATTCAATAAATGATGAATG+TGG + Chr5:94645228-94645247 None:intergenic 25.0%
! CGAAATTGTCAATTTCAAAA+TGG - Chr5:94644639-94644658 MsG0580029276.01.T01:CDS 25.0%
! CTATAATTGTCTATAATGTG+TGG - Chr5:94645665-94645684 MsG0580029276.01.T01:intron 25.0%
! GAATAAAACACATGTTTGAT+AGG - Chr5:94646163-94646182 MsG0580029276.01.T01:intron 25.0%
! GGAATGAAAAATGTTTGATA+AGG - Chr5:94644504-94644523 MsG0580029276.01.T01:intron 25.0%
! GGACAAGATGATAATATAAT+AGG + Chr5:94646248-94646267 None:intergenic 25.0%
! GTATTGTGTGTTAAAAGTTT+CGG - Chr5:94644790-94644809 MsG0580029276.01.T01:intron 25.0%
! TAAAGAGAGAAAAGATAAAG+AGG + Chr5:94644436-94644455 None:intergenic 25.0%
! TATTGTGTGTTAAAAGTTTC+GGG - Chr5:94644791-94644810 MsG0580029276.01.T01:intron 25.0%
! TTAGATTTCATCTAAATTCG+AGG - Chr5:94644744-94644763 MsG0580029276.01.T01:intron 25.0%
! TTTCTATGCTATGCTATTAT+AGG + Chr5:94645399-94645418 None:intergenic 25.0%
! TTTGATATGATTGAACTACA+AGG + Chr5:94644607-94644626 None:intergenic 25.0%
!! ATAACTCTTCAAGATTTTCA+AGG + Chr5:94646296-94646315 None:intergenic 25.0%
!!! ATAAGATAATTGACTTGAAC+AGG - Chr5:94644188-94644207 MsG0580029276.01.T01:three_prime_UTR 25.0%
!!! CAAACATGTGTTTTATTCAA+AGG + Chr5:94646161-94646180 None:intergenic 25.0%
!!! CGGGGTTTAATATTTTTTAA+GGG - Chr5:94644810-94644829 MsG0580029276.01.T01:intron 25.0%
!!! GGATTCTATACTTTGAAATA+TGG + Chr5:94645074-94645093 None:intergenic 25.0%
!!! TAAGCAAAAGTTGACTTTTT+AGG + Chr5:94645253-94645272 None:intergenic 25.0%
!!! TCGGGGTTTAATATTTTTTA+AGG - Chr5:94644809-94644828 MsG0580029276.01.T01:intron 25.0%
!!! TTTGTGACCAAATTTTTTTG+TGG - Chr5:94644968-94644987 MsG0580029276.01.T01:intron 25.0%
ACAAGTGAATAAAGATGTAG+AGG + Chr5:94644948-94644967 None:intergenic 30.0%
AGACGTATAGTTACTTGTAA+TGG + Chr5:94646030-94646049 None:intergenic 30.0%
AGTACCAATTAAGATGGAAT+AGG + Chr5:94645128-94645147 None:intergenic 30.0%
ATTGAACAAGGTCATTGTTA+CGG - Chr5:94645899-94645918 MsG0580029276.01.T01:intron 30.0%
ATTGGAGTTCTACATAAGAT+TGG - Chr5:94645945-94645964 MsG0580029276.01.T01:intron 30.0%
ATTGTGTGTTAAAAGTTTCG+GGG - Chr5:94644792-94644811 MsG0580029276.01.T01:intron 30.0%
GAATCCTATTCCATCTTAAT+TGG - Chr5:94645121-94645140 MsG0580029276.01.T01:intron 30.0%
GATGAGGTAAGAAATATTGA+AGG + Chr5:94644325-94644344 None:intergenic 30.0%
GTGTATCAAGAAAATTCTCA+AGG - Chr5:94645587-94645606 MsG0580029276.01.T01:intron 30.0%
TTGGCAACCACAAAAAAATT+TGG + Chr5:94644978-94644997 None:intergenic 30.0%
! CTTTTGCTTATAATAGTGAC+CGG - Chr5:94645263-94645282 MsG0580029276.01.T01:intron 30.0%
! CTTTTGCTTATAATAGTGAC+CGG + Chr5:94645282-94645263 None:intergenic 30.0%
! GTGGTTCTATATGTTTCTTA+TGG + Chr5:94646068-94646087 None:intergenic 30.0%
! TATGTGTCTATCAATTTTGG+AGG - Chr5:94644833-94644852 MsG0580029276.01.T01:intron 30.0%
! TCGCTTTATTATGCCTTAAT+TGG - Chr5:94644549-94644568 MsG0580029276.01.T01:intron 30.0%
!! ATCTTTTTCATCAAACCCAT+GGG + Chr5:94643911-94643930 None:intergenic 30.0%
!! TTTTCTTGTTATGTGTCATC+AGG - Chr5:94645530-94645549 MsG0580029276.01.T01:intron 30.0%
!!! TATTGAAGGAGTTTTAAGCT+AGG + Chr5:94644311-94644330 None:intergenic 30.0%
AACTCCAATCACTTCTTCAT+TGG + Chr5:94645934-94645953 None:intergenic 35.0%
AATTCCTGCAAAAGGTTTGA+GGG + Chr5:94646269-94646288 None:intergenic 35.0%
AGGATCAAGTAGGAAGAAAA+GGG + Chr5:94645363-94645382 None:intergenic 35.0%
CAACCTTATAAAATGAGTGG+AGG - Chr5:94644995-94645014 MsG0580029276.01.T01:intron 35.0%
GGGTTTGATGAAAAAGATGA+TGG - Chr5:94643913-94643932 MsG0580029276.01.T01:three_prime_UTR 35.0%
TAAAATGAGTGGAGGATGTT+AGG - Chr5:94645003-94645022 MsG0580029276.01.T01:intron 35.0%
TGAAAATGTGAGGATCAAGT+AGG + Chr5:94645373-94645392 None:intergenic 35.0%
TGCCAACCTTATAAAATGAG+TGG - Chr5:94644992-94645011 MsG0580029276.01.T01:intron 35.0%
TTATAGGCCTTGAAAATGTG+AGG + Chr5:94645383-94645402 None:intergenic 35.0%
TTGAACAAGGTCATTGTTAC+GGG - Chr5:94645900-94645919 MsG0580029276.01.T01:intron 35.0%
! ACTTGATCCTCACATTTTCA+AGG - Chr5:94645373-94645392 MsG0580029276.01.T01:intron 35.0%
! CATCCTCCACTCATTTTATA+AGG + Chr5:94645001-94645020 None:intergenic 35.0%
! CTCCACTCATTTTATAAGGT+TGG + Chr5:94644997-94645016 None:intergenic 35.0%
! CTTATAATGCTACTTCTGTG+TGG + Chr5:94644375-94644394 None:intergenic 35.0%
! GATGATGATGATGATGATGA+TGG - Chr5:94643944-94643963 MsG0580029276.01.T01:three_prime_UTR 35.0%
! GGGTATGTGTCTATCAATTT+TGG - Chr5:94644830-94644849 MsG0580029276.01.T01:intron 35.0%
! GTTACCTTCGATTTTCTTGA+TGG + Chr5:94645613-94645632 None:intergenic 35.0%
!! CATCTTTTTCATCAAACCCA+TGG + Chr5:94643912-94643931 None:intergenic 35.0%
AAGGACACAATTCCTGCAAA+AGG + Chr5:94646277-94646296 None:intergenic 40.0%
AAGGCCATCAAGAAAATCGA+AGG - Chr5:94645606-94645625 MsG0580029276.01.T01:intron 40.0%
ATAGAACTTCACATCATGCG+TGG + Chr5:94646087-94646106 None:intergenic 40.0%
ATCTTAATTGGTACTCCCTC+CGG - Chr5:94645133-94645152 MsG0580029276.01.T01:intron 40.0%
CAATTCCTGCAAAAGGTTTG+AGG + Chr5:94646270-94646289 None:intergenic 40.0%
CTAAAGTAGCTCGTTTGATG+AGG + Chr5:94644341-94644360 None:intergenic 40.0%
GAGGATCAAGTAGGAAGAAA+AGG + Chr5:94645364-94645383 None:intergenic 40.0%
GTCACCAATGAAGAAGTGAT+TGG - Chr5:94645927-94645946 MsG0580029276.01.T01:intron 40.0%
TGAAGATGATGAACGTGAGA+AGG - Chr5:94643970-94643989 MsG0580029276.01.T01:three_prime_UTR 40.0%
TGCTTATAATAGTGACCGGA+GGG - Chr5:94645267-94645286 MsG0580029276.01.T01:intron 40.0%
TGCTTATAATAGTGACCGGA+GGG + Chr5:94645286-94645267 None:intergenic 40.0%
TGTCGACAAGCAATTGAACA+AGG - Chr5:94645887-94645906 MsG0580029276.01.T01:intron 40.0%
TTGCTTATAATAGTGACCGG+AGG - Chr5:94645266-94645285 MsG0580029276.01.T01:intron 40.0%
TTGCTTATAATAGTGACCGG+AGG + Chr5:94645285-94645266 None:intergenic 40.0%
! CTCATCAAACGAGCTACTTT+AGG - Chr5:94644339-94644358 MsG0580029276.01.T01:CDS 40.0%
! TCTTGTTATGTGTCATCAGG+TGG - Chr5:94645533-94645552 MsG0580029276.01.T01:intron 40.0%
AAGCTACATTGTACTCCCTC+CGG + Chr5:94645285-94645304 None:intergenic 45.0%
TGTTATGTGTCATCAGGTGG+TGG - Chr5:94645536-94645555 MsG0580029276.01.T01:intron 45.0%
! TTGTCCCTCAAACCTTTTGC+AGG - Chr5:94646262-94646281 MsG0580029276.01.T01:CDS 45.0%
!! GGAGGGAGTACCAATTAAGA+TGG + Chr5:94645134-94645153 None:intergenic 45.0%
TGGCAAGACTGCAACTGTGT+GGG - Chr5:94645965-94645984 MsG0580029276.01.T01:intron 50.0%
TTGGCAAGACTGCAACTGTG+TGG - Chr5:94645964-94645983 MsG0580029276.01.T01:intron 50.0%
!! TCATCAGGTGGTGGAAGTGA+AGG - Chr5:94645545-94645564 MsG0580029276.01.T01:intron 50.0%
!! CAGGTGGTGGAAGTGAAGGT+TGG - Chr5:94645549-94645568 MsG0580029276.01.T01:intron 55.0%
Chromosome Type Strat End Strand Name
Chr5 gene 94643911 94646333 94643911 ID=MsG0580029276.01;Name=MsG0580029276.01
Chr5 mRNA 94643911 94646333 94643911 ID=MsG0580029276.01.T01;Parent=MsG0580029276.01;Name=MsG0580029276.01.T01;_AED=0.46;_eAED=0.46;_QI=0|0.5|0.66|0.66|1|1|3|317|100
Chr5 exon 94643911 94644373 94643911 ID=MsG0580029276.01.T01:exon:49931;Parent=MsG0580029276.01.T01
Chr5 exon 94644617 94644692 94644617 ID=MsG0580029276.01.T01:exon:49930;Parent=MsG0580029276.01.T01
Chr5 exon 94646253 94646333 94646253 ID=MsG0580029276.01.T01:exon:49929;Parent=MsG0580029276.01.T01
Chr5 CDS 94646253 94646333 94646253 ID=MsG0580029276.01.T01:cds;Parent=MsG0580029276.01.T01
Chr5 CDS 94644617 94644692 94644617 ID=MsG0580029276.01.T01:cds;Parent=MsG0580029276.01.T01
Chr5 CDS 94644228 94644373 94644228 ID=MsG0580029276.01.T01:cds;Parent=MsG0580029276.01.T01
Chr5 three_prime_UTR 94643911 94644227 94643911 ID=MsG0580029276.01.T01:three_prime_utr;Parent=MsG0580029276.01.T01
Gene Sequence

>MsG0580029276.01.T01

ATGGGTTTGATGAAAAAGATGATGGCAAAGATTGATGATGATGATGATGATGATGATGGTGAAGATGATGAACGTGAGAAGGTGGTGGAAGTGAAGGTTGGTTTACATTGCGATGAGTGTATCAAGAAAATTCTCAAGGCCATCAAGAAAATCGAAGATATCGAGACATATAATGTCGACAAGCAATTGAACAAGGTCATTGTTACGGGAAACGTCACCAATGAAGAAGTGATTGGAGTTCTACATAAGATTGGCAAGACTGCAACTGTGTGGGAAAATGTTCAAGAAAATGTTCAATGTTGA

Protein sequence

>MsG0580029276.01.T01

MGLMKKMMAKIDDDDDDDDGEDDEREKVVEVKVGLHCDECIKKILKAIKKIEDIETYNVDKQLNKVIVTGNVTNEEVIGVLHKIGKTATVWENVQENVQC*