AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880044488.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880044488.01.T01 MTR_8g464010 81.875 160 7 1 16 175 1 138 5.23e-92 273
MsG0880044488.01.T01 MTR_7g117530 45.679 81 38 4 90 166 91 169 9.20e-13 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880044488.01.T01 AT1G53250 52.000 75 28 2 69 143 81 147 1.20e-15 73.9
MsG0880044488.01.T01 AT1G53800 60.417 48 19 0 96 143 107 154 1.44e-13 68.2
MsG0880044488.01.T01 AT1G53800 60.417 48 19 0 96 143 107 154 1.44e-13 68.2
MsG0880044488.01.T01 AT1G53800 60.417 48 19 0 96 143 103 150 1.51e-13 68.2

Find 42 sgRNAs with CRISPR-Local

Find 106 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGAGACCCGTGAGCGAATT+AGG 0.225851 8:-43036998 MsG0880044488.01.T01:CDS
AGGAAGAGTACCTTGGAATA+AGG 0.265892 8:-43037114 MsG0880044488.01.T01:CDS
CTCTTACTTGACTTCACCTT+GGG 0.334743 8:+43036948 None:intergenic
TTCCCAACAATTATTATTCA+AGG 0.353791 8:-43037337 MsG0880044488.01.T01:CDS
AATGTTGATTTAGGGATTGT+TGG 0.376629 8:+43037266 None:intergenic
CTGAACATCCCCGTTGTCAT+AGG 0.379002 8:-43036549 MsG0880044488.01.T01:CDS
TTGTGTTTACCTATGACAAC+GGG 0.385549 8:+43036540 None:intergenic
GGAAGAGTACCTTGGAATAA+GGG 0.402627 8:-43037113 MsG0880044488.01.T01:CDS
TTGTTCAACATTGTGGTGTT+CGG 0.419568 8:+43037226 None:intergenic
AATTAGGATGAGAACATTAG+AGG 0.421479 8:-43036982 MsG0880044488.01.T01:CDS
TGCCTTGAATAATAATTGTT+GGG 0.454127 8:+43037335 None:intergenic
TGATTTAGGGATTGTTGGAG+GGG 0.458850 8:+43037271 None:intergenic
GAGAACATTAGAGGCTTTGA+AGG 0.459307 8:-43036973 MsG0880044488.01.T01:CDS
GTTGGTTGGAAAGAGCAGTT+AGG 0.475690 8:+43037933 None:intergenic
TGTTTCCTTCCCTTATTCCA+AGG 0.489715 8:+43037104 None:intergenic
TTGATTTAGGGATTGTTGGA+GGG 0.493657 8:+43037270 None:intergenic
AGAATGAGGAGAATGAGAAT+AGG 0.494493 8:-43037149 MsG0880044488.01.T01:CDS
TGTTCCCAAAACCGCAATTG+AGG 0.499931 8:+43036801 None:intergenic
TTGCCTTGAATAATAATTGT+TGG 0.504529 8:+43037334 None:intergenic
GAGCAGTTAGGAAGGTGAAA+AGG 0.514326 8:+43037945 None:intergenic
GTTGATTTAGGGATTGTTGG+AGG 0.515416 8:+43037269 None:intergenic
TTCTCATCCTAATTCGCTCA+CGG 0.524851 8:+43036991 None:intergenic
AAGAATCTTGTTCAACATTG+TGG 0.527596 8:+43037219 None:intergenic
GTTGGAAAGAGCAGTTAGGA+AGG 0.529033 8:+43037937 None:intergenic
ACTCTTACTTGACTTCACCT+TGG 0.548598 8:+43036947 None:intergenic
CAAACAAAGGAAGAGTACCT+TGG 0.550267 8:-43037121 MsG0880044488.01.T01:CDS
CTTGTGTTTACCTATGACAA+CGG 0.564622 8:+43036539 None:intergenic
GTTAAATGTGGCCTCAATTG+CGG 0.565001 8:-43036812 MsG0880044488.01.T01:intron
TTGTTGGGAATATGATTCAA+AGG 0.569799 8:+43037350 None:intergenic
TCTCATCCTAATTCGCTCAC+GGG 0.585592 8:+43036992 None:intergenic
CTCTTGATAAAGAGAGAATG+AGG 0.588623 8:-43037163 MsG0880044488.01.T01:CDS
TTGAAGTAGAGCATGTTGGT+TGG 0.602629 8:+43037919 None:intergenic
CGGAGAATCGCAGTTAAATG+TGG 0.611385 8:-43036824 MsG0880044488.01.T01:CDS
ATATGATTCAAAGGAGTGTG+TGG 0.612561 8:+43037359 None:intergenic
GAAAATGTTGTCAGTGTGAG+AGG 0.617334 8:-43037392 MsG0880044488.01.T01:intron
GAGTACCTTGGAATAAGGGA+AGG 0.624904 8:-43037109 MsG0880044488.01.T01:CDS
AGAGGCTTTGAAGGACCCCA+AGG 0.638810 8:-43036964 MsG0880044488.01.T01:CDS
TCTTACTTGACTTCACCTTG+GGG 0.641871 8:+43036949 None:intergenic
AAGGGAAGGAAACACACTGC+AGG 0.642716 8:-43037095 MsG0880044488.01.T01:intron
AGAATAGGACTAGCAAACAA+AGG 0.645416 8:-43037134 MsG0880044488.01.T01:CDS
TGAGTTGAAGTAGAGCATGT+TGG 0.645834 8:+43037915 None:intergenic
TGTGTTTACCTATGACAACG+GGG 0.785259 8:+43036541 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATTATGTCATTTTCTTTAA+GGG - Chr8:43036741-43036760 MsG0880044488.01.T01:intron 15.0%
!!! TTTTTTTTCTTTCTTTTACT+TGG - Chr8:43037836-43037855 MsG0880044488.01.T01:intron 15.0%
!! AACAACAATAAAGTTTAAAG+AGG + Chr8:43037018-43037037 None:intergenic 20.0%
!!! AAAAAGACAATGTTGATTTA+GGG + Chr8:43037241-43037260 None:intergenic 20.0%
!!! AAAATCAAGGTTTTAAATAG+TGG + Chr8:43037745-43037764 None:intergenic 20.0%
!!! CTATTTAAAACCTTGATTTT+AGG - Chr8:43037745-43037764 MsG0880044488.01.T01:intron 20.0%
!!! CTGAAAATTTTTTAGTTGAA+GGG + Chr8:43037911-43037930 None:intergenic 20.0%
!!! GAATTATGTCATTTTCTTTA+AGG - Chr8:43036740-43036759 MsG0880044488.01.T01:intron 20.0%
!!! TGAAAATTTTTTAGTTGAAG+GGG + Chr8:43037910-43037929 None:intergenic 20.0%
! ACAACAAAATGATCCAAAAA+TGG + Chr8:43037451-43037470 None:intergenic 25.0%
! ATTGCAAAATAATCCTTGAA+TGG - Chr8:43036828-43036847 MsG0880044488.01.T01:CDS 25.0%
! CCTAAATCATTTCAACAATA+AGG + Chr8:43037631-43037650 None:intergenic 25.0%
! CCTTATTGTTGAAATGATTT+AGG - Chr8:43037628-43037647 MsG0880044488.01.T01:intron 25.0%
! TGATGTGAACACAAAAATAA+AGG + Chr8:43037596-43037615 None:intergenic 25.0%
! TGCCTTGAATAATAATTGTT+GGG + Chr8:43037164-43037183 None:intergenic 25.0%
! TTATTTACTTTACTGTTGCA+CGG - Chr8:43036652-43036671 MsG0880044488.01.T01:intron 25.0%
! TTCCCAACAATTATTATTCA+AGG - Chr8:43037159-43037178 MsG0880044488.01.T01:CDS 25.0%
! TTGCCTTGAATAATAATTGT+TGG + Chr8:43037165-43037184 None:intergenic 25.0%
!! CCTTCAACTAAAAAATTTTC+AGG - Chr8:43037909-43037928 MsG0880044488.01.T01:CDS 25.0%
!!! CCTGAAAATTTTTTAGTTGA+AGG + Chr8:43037912-43037931 None:intergenic 25.0%
!!! CGAGTTTATTTTACCATTTT+TGG - Chr8:43037435-43037454 MsG0880044488.01.T01:intron 25.0%
!!! GAAAAAGACAATGTTGATTT+AGG + Chr8:43037242-43037261 None:intergenic 25.0%
AACACAATAAATACAGTGTG+AGG + Chr8:43036624-43036643 None:intergenic 30.0%
AAGAATCTTGTTCAACATTG+TGG + Chr8:43037280-43037299 None:intergenic 30.0%
AATTAGGATGAGAACATTAG+AGG - Chr8:43037514-43037533 MsG0880044488.01.T01:intron 30.0%
ACACAATAAATACAGTGTGA+GGG + Chr8:43036623-43036642 None:intergenic 30.0%
ATTGTTGAAATGATTTAGGC+AGG - Chr8:43037632-43037651 MsG0880044488.01.T01:intron 30.0%
TCAATATAATCACAAGTGTC+AGG + Chr8:43036722-43036741 None:intergenic 30.0%
TTGCAATTTATCTGCATTCA+AGG + Chr8:43036815-43036834 None:intergenic 30.0%
TTGTTGAAATGATTTAGGCA+GGG - Chr8:43037633-43037652 MsG0880044488.01.T01:intron 30.0%
TTGTTGGGAATATGATTCAA+AGG + Chr8:43037149-43037168 None:intergenic 30.0%
! GTAAGAGTCTTTGTTTAGAT+TGG - Chr8:43037564-43037583 MsG0880044488.01.T01:intron 30.0%
!! AATGTTGATTTAGGGATTGT+TGG + Chr8:43037233-43037252 None:intergenic 30.0%
!!! GAGATACTATTTTGGTTATG+TGG - Chr8:43037773-43037792 MsG0880044488.01.T01:intron 30.0%
AACTAGCATCTGACTAATGA+GGG + Chr8:43037806-43037825 None:intergenic 35.0%
AATGACCAGAAGTGAATCAT+GGG + Chr8:43037872-43037891 None:intergenic 35.0%
ACCAACAAGGTCTATATTCA+GGG - Chr8:43036948-43036967 MsG0880044488.01.T01:intron 35.0%
ACTAACAGAGTGTACATTCA+GGG + Chr8:43036908-43036927 None:intergenic 35.0%
ACTAACATAGTCTGCAATCA+AGG + Chr8:43036876-43036895 None:intergenic 35.0%
AGAATGAGGAGAATGAGAAT+AGG - Chr8:43037347-43037366 MsG0880044488.01.T01:CDS 35.0%
ATCTCAGAGTCCTAAAATCA+AGG + Chr8:43037758-43037777 None:intergenic 35.0%
CTCTTGATAAAGAGAGAATG+AGG - Chr8:43037333-43037352 MsG0880044488.01.T01:CDS 35.0%
TATAATCACAAGTGTCAGGA+CGG + Chr8:43036718-43036737 None:intergenic 35.0%
TTGATTTAGGGATTGTTGGA+GGG + Chr8:43037229-43037248 None:intergenic 35.0%
TTGCAATTTCTCTGCATTGA+GGG - Chr8:43036977-43036996 MsG0880044488.01.T01:CDS 35.0%
TTGTTCAACATTGTGGTGTT+CGG + Chr8:43037273-43037292 None:intergenic 35.0%
TTTGCAATTTCTCTGCATTG+AGG - Chr8:43036976-43036995 MsG0880044488.01.T01:CDS 35.0%
! ACAACTTTTGAGCAATAGGT+TGG - Chr8:43037184-43037203 MsG0880044488.01.T01:CDS 35.0%
! AGAATAGGACTAGCAAACAA+AGG - Chr8:43037362-43037381 MsG0880044488.01.T01:CDS 35.0%
! ATATGATTCAAAGGAGTGTG+TGG + Chr8:43037140-43037159 None:intergenic 35.0%
!!! AGGACTCTGAGATACTATTT+TGG - Chr8:43037765-43037784 MsG0880044488.01.T01:intron 35.0%
!!! AGGGTTTTAAATAGAGGTTG+CGG - Chr8:43037652-43037671 MsG0880044488.01.T01:intron 35.0%
!!! TTAGGCAGGGTTTTAAATAG+AGG - Chr8:43037646-43037665 MsG0880044488.01.T01:intron 35.0%
!!! TTTTCAGGTGAAGAAGAAGA+TGG - Chr8:43037924-43037943 MsG0880044488.01.T01:CDS 35.0%
ACTAACAGAGTCTCCATTCA+AGG + Chr8:43036844-43036863 None:intergenic 40.0%
ACTCTTACTTGACTTCACCT+TGG + Chr8:43037552-43037571 None:intergenic 40.0%
AGACCTTGTTGGTCAATTTC+AGG + Chr8:43036941-43036960 None:intergenic 40.0%
CAACTAGCATCTGACTAATG+AGG + Chr8:43037807-43037826 None:intergenic 40.0%
CTCATTAGTCAGATGCTAGT+TGG - Chr8:43037805-43037824 MsG0880044488.01.T01:intron 40.0%
CTCTTACTTGACTTCACCTT+GGG + Chr8:43037551-43037570 None:intergenic 40.0%
GAAAATGTTGTCAGTGTGAG+AGG - Chr8:43037104-43037123 MsG0880044488.01.T01:CDS 40.0%
GAATGACCAGAAGTGAATCA+TGG + Chr8:43037873-43037892 None:intergenic 40.0%
GACCAACAAGGTCTATATTC+AGG - Chr8:43036947-43036966 MsG0880044488.01.T01:intron 40.0%
GACCTTGTTGGTCAATTTCA+GGG + Chr8:43036940-43036959 None:intergenic 40.0%
GACGACTCATTTCCTATTCA+GGG + Chr8:43036784-43036803 None:intergenic 40.0%
GACTAACAGAGTGTACATTC+AGG + Chr8:43036909-43036928 None:intergenic 40.0%
GGTCAATTTCAGGGACTAAA+GGG + Chr8:43036931-43036950 None:intergenic 40.0%
GTTAAATGTGGCCTCAATTG+CGG - Chr8:43037684-43037703 MsG0880044488.01.T01:intron 40.0%
TCCCTGAATATAGACCTTGT+TGG + Chr8:43036952-43036971 None:intergenic 40.0%
TCTTACTTGACTTCACCTTG+GGG + Chr8:43037550-43037569 None:intergenic 40.0%
TGACGACTCATTTCCTATTC+AGG + Chr8:43036785-43036804 None:intergenic 40.0%
TGATTTAGGGATTGTTGGAG+GGG + Chr8:43037228-43037247 None:intergenic 40.0%
TGGTCAATTTCAGGGACTAA+AGG + Chr8:43036932-43036951 None:intergenic 40.0%
TGTTTCCTTCCCTTATTCCA+AGG + Chr8:43037395-43037414 None:intergenic 40.0%
TTAAGATTGAAGGCTTGTCC+CGG - Chr8:43036679-43036698 MsG0880044488.01.T01:intron 40.0%
TTCTCATCCTAATTCGCTCA+CGG + Chr8:43037508-43037527 None:intergenic 40.0%
TTGAAGTAGAGCATGTTGGT+TGG + Chr8:43036580-43036599 None:intergenic 40.0%
! AGTCACTTTAGACCCTGAAT+AGG - Chr8:43036769-43036788 MsG0880044488.01.T01:intron 40.0%
! GAGAACATTAGAGGCTTTGA+AGG - Chr8:43037523-43037542 MsG0880044488.01.T01:intron 40.0%
! GGCAACAACTTTTGAGCAAT+AGG - Chr8:43037180-43037199 MsG0880044488.01.T01:CDS 40.0%
! GTTGATTTAGGGATTGTTGG+AGG + Chr8:43037230-43037249 None:intergenic 40.0%
! TGAGTTGAAGTAGAGCATGT+TGG + Chr8:43036584-43036603 None:intergenic 40.0%
!! AGGAAGAGTACCTTGGAATA+AGG - Chr8:43037382-43037401 MsG0880044488.01.T01:intron 40.0%
!! CAAACAAAGGAAGAGTACCT+TGG - Chr8:43037375-43037394 MsG0880044488.01.T01:CDS 40.0%
!! GGAAGAGTACCTTGGAATAA+GGG - Chr8:43037383-43037402 MsG0880044488.01.T01:intron 40.0%
CATGTCCCATGATTCACTTC+TGG - Chr8:43037864-43037883 MsG0880044488.01.T01:intron 45.0%
CGGAGAATCGCAGTTAAATG+TGG - Chr8:43037672-43037691 MsG0880044488.01.T01:intron 45.0%
GAGCAGTTAGGAAGGTGAAA+AGG + Chr8:43036554-43036573 None:intergenic 45.0%
GAGTACCTTGGAATAAGGGA+AGG - Chr8:43037387-43037406 MsG0880044488.01.T01:intron 45.0%
GCACGGACACTTAAGATTGA+AGG - Chr8:43036669-43036688 MsG0880044488.01.T01:intron 45.0%
GTCCCTGAAATTGACCAACA+AGG - Chr8:43036935-43036954 MsG0880044488.01.T01:intron 45.0%
GTTGGAAAGAGCAGTTAGGA+AGG + Chr8:43036562-43036581 None:intergenic 45.0%
GTTGGTTGGAAAGAGCAGTT+AGG + Chr8:43036566-43036585 None:intergenic 45.0%
TCTCATCCTAATTCGCTCAC+GGG + Chr8:43037507-43037526 None:intergenic 45.0%
TGTTCCCAAAACCGCAATTG+AGG + Chr8:43037698-43037717 None:intergenic 45.0%
AAGGGAAGGAAACACACTGC+AGG - Chr8:43037401-43037420 MsG0880044488.01.T01:intron 50.0%
CTGAACATCCCCGTTGTCAT+AGG - Chr8:43037947-43037966 MsG0880044488.01.T01:CDS 50.0%
TCAGTGTCGTGTGTCGTGTA+TGG - Chr8:43037044-43037063 MsG0880044488.01.T01:intron 50.0%
! GTGGCCTCAATTGCGGTTTT+GGG - Chr8:43037691-43037710 MsG0880044488.01.T01:intron 50.0%
! TGTGGCCTCAATTGCGGTTT+TGG - Chr8:43037690-43037709 MsG0880044488.01.T01:intron 50.0%
CAGAGACCCGTGAGCGAATT+AGG - Chr8:43037498-43037517 MsG0880044488.01.T01:intron 55.0%
TTGAAGGCTTGTCCCGGTGT+CGG - Chr8:43036685-43036704 MsG0880044488.01.T01:intron 55.0%
!! AGAGGCTTTGAAGGACCCCA+AGG - Chr8:43037532-43037551 MsG0880044488.01.T01:intron 55.0%
CGCTCACGGGTCTCTGCAAT+TGG + Chr8:43037494-43037513 None:intergenic 60.0%
GACGGCAATTGTCCGACACC+GGG + Chr8:43036700-43036719 None:intergenic 60.0%
GGACGGCAATTGTCCGACAC+CGG + Chr8:43036701-43036720 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr8 gene 43036546 43037972 43036546 ID=MsG0880044488.01;Name=MsG0880044488.01
Chr8 mRNA 43036546 43037972 43036546 ID=MsG0880044488.01.T01;Parent=MsG0880044488.01;Name=MsG0880044488.01.T01;_AED=0.48;_eAED=0.60;_QI=0|0.25|0.4|1|0.5|0.4|5|0|176
Chr8 exon 43037908 43037972 43037908 ID=MsG0880044488.01.T01:exon:8096;Parent=MsG0880044488.01.T01
Chr8 exon 43037096 43037400 43037096 ID=MsG0880044488.01.T01:exon:8095;Parent=MsG0880044488.01.T01
Chr8 exon 43036955 43037017 43036955 ID=MsG0880044488.01.T01:exon:8094;Parent=MsG0880044488.01.T01
Chr8 exon 43036813 43036868 43036813 ID=MsG0880044488.01.T01:exon:8093;Parent=MsG0880044488.01.T01
Chr8 exon 43036546 43036587 43036546 ID=MsG0880044488.01.T01:exon:8092;Parent=MsG0880044488.01.T01
Chr8 CDS 43037908 43037972 43037908 ID=MsG0880044488.01.T01:cds;Parent=MsG0880044488.01.T01
Chr8 CDS 43037096 43037400 43037096 ID=MsG0880044488.01.T01:cds;Parent=MsG0880044488.01.T01
Chr8 CDS 43036955 43037017 43036955 ID=MsG0880044488.01.T01:cds;Parent=MsG0880044488.01.T01
Chr8 CDS 43036813 43036868 43036813 ID=MsG0880044488.01.T01:cds;Parent=MsG0880044488.01.T01
Chr8 CDS 43036546 43036587 43036546 ID=MsG0880044488.01.T01:cds;Parent=MsG0880044488.01.T01
Gene Sequence

>MsG0880044488.01.T01

ATGTTCCTTTTCACCTTCCTAACTGCTCTTTCCAACCAACATGCTCTACTTCAACTCAATGTAATTGTGAGAGGAATGTCTGTTCCACACACTCCTTTGAATCATATTCCCAACAATTATTATTCAAGGCAACAACTTTTGAGCAATAGGTTGGATTGCGCTTGTACATTTTCCCCTCCAACAATCCCTAAATCAACATTGTCTTTTTCTGTTGATGCCGAACACCACAATGTTGAACAAGATTCTTTTGATTATTTGAACAATGTCGACTCTCTAAAATCTCTTGATAAAGAGAGAATGAGGAGAATGAGAATAGGACTAGCAAACAAAGGAAGAGTACCTTGGAATAAGGGAAGGAAACACACTGCAGAGACCCGTGAGCGAATTAGGATGAGAACATTAGAGGCTTTGAAGGACCCCAAGGTGAAGTCAAGCAGGGTTTTAAATAGAGGTTGCGGAGAATCGCAGTTAAATGTGGCCTCAATTGCGGTGAAGAAGAAGATGGCTGAACATCCCCGTTGTCATAGGTAA

Protein sequence

>MsG0880044488.01.T01

MFLFTFLTALSNQHALLQLNVIVRGMSVPHTPLNHIPNNYYSRQQLLSNRLDCACTFSPPTIPKSTLSFSVDAEHHNVEQDSFDYLNNVDSLKSLDKERMRRMRIGLANKGRVPWNKGRKHTAETRERIRMRTLEALKDPKVKSSRVLNRGCGESQLNVASIAVKKKMAEHPRCHR*