AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene76830


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76830.t1 MTR_1g106955 98.592 213 3 0 1 213 1 213 1.35e-155 429
MS.gene76830.t1 MTR_8g076890 42.038 157 89 2 25 180 105 260 2.49e-38 134
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76830.t1 AT2G18990 77.404 208 46 1 6 213 5 211 2.86e-119 337
MS.gene76830.t1 AT3G25580 76.923 208 46 2 6 213 5 210 2.12e-118 335
MS.gene76830.t1 AT3G25580 76.585 205 46 2 9 213 3 205 1.90e-116 330
MS.gene76830.t1 AT5G66410 37.073 205 122 4 7 209 28 227 7.32e-39 134
MS.gene76830.t1 AT3G50960 42.667 150 84 2 23 171 40 188 2.83e-37 130
MS.gene76830.t1 AT3G50960 42.667 150 84 2 23 171 40 188 2.83e-37 130

Find 45 sgRNAs with CRISPR-Local

Find 78 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGACAAGCATTTAAGTATTT+TGG 0.171906 1.1:+76684600 MS.gene76830:CDS
GTTGCAGCCTCCTTTCTCTT+AGG 0.207376 1.1:-76683936 None:intergenic
TGACTTTAGCACCGAGGTTT+TGG 0.292143 1.1:+76684913 MS.gene76830:CDS
GTCATTTCTTCCGCGAAAAT+TGG 0.299383 1.1:+76684079 MS.gene76830:CDS
CGAAATTGTGCGAACCTTGC+AGG 0.328390 1.1:-76684103 None:intergenic
TTGCAGCCTCCTTTCTCTTA+GGG 0.338559 1.1:-76683935 None:intergenic
GCTCTGCCGAACACTTCTTT+TGG 0.354451 1.1:-76685014 None:intergenic
TCAATACACCGTGCAAGGTC+CGG 0.384757 1.1:+76684983 MS.gene76830:CDS
GCTGCAACAAATGAAGAAAA+TGG 0.402598 1.1:+76683951 MS.gene76830:CDS
CTTGATTCTCGATCACCTCT+TGG 0.414878 1.1:-76683828 None:intergenic
CAATACACCGTGCAAGGTCC+GGG 0.429480 1.1:+76684984 MS.gene76830:CDS
TTTGCGCCCCGGACCTTGCA+CGG 0.490890 1.1:-76684991 None:intergenic
CGAAGCAGCATGTTGAGACT+CGG 0.494218 1.1:+76684623 MS.gene76830:CDS
GTCTTTCTCTGACGGAATCT+CGG 0.495284 1.1:-76684019 None:intergenic
CGCAAACCAAAAGAAGTGTT+CGG 0.506657 1.1:+76685008 MS.gene76830:CDS
CGGTGTAATCTCCGTGTCCG+AGG 0.513907 1.1:-76683999 None:intergenic
CGTCATCGTCGAGACGTTCA+AGG 0.517999 1.1:-76683903 None:intergenic
ATCTTGAAGCCCTAAGAGAA+AGG 0.527404 1.1:+76683926 MS.gene76830:CDS
TTCTTTATGAGAGCAATAGT+AGG 0.546329 1.1:-76684709 None:intergenic
CCGCGAAAATTGGCCCTGCA+AGG 0.557879 1.1:+76684089 MS.gene76830:CDS
TACCAAAGTGGATGATTATG+TGG 0.558275 1.1:+76684732 MS.gene76830:CDS
GAAATTGTGCGAACCTTGCA+GGG 0.562815 1.1:-76684102 None:intergenic
GTCATCGTCGAGACGTTCAA+GGG 0.565214 1.1:-76683902 None:intergenic
GAGAAGAAGTCTTTCTCTGA+CGG 0.577836 1.1:-76684027 None:intergenic
AATCGTCAATACACCGTGCA+AGG 0.582115 1.1:+76684978 MS.gene76830:CDS
CGTTGGATCTCCCTCGGACA+CGG 0.582223 1.1:+76683988 MS.gene76830:CDS
TACCACATAATCATCCACTT+TGG 0.582640 1.1:-76684734 None:intergenic
CGTAGCCGTTGGATCTCCCT+CGG 0.582964 1.1:+76683982 MS.gene76830:CDS
GACGGTGGCTCAAGCAGTCG+AGG 0.591671 1.1:+76683855 MS.gene76830:CDS
TGGCGGAGAAGCGTAGCCGT+TGG 0.601854 1.1:+76683971 MS.gene76830:CDS
CAATCTTTCTTCCAAAACCT+CGG 0.602383 1.1:-76684924 None:intergenic
ACGATCACTTGCTTTAACGA+CGG 0.607682 1.1:-76684049 None:intergenic
GGTGTAATCTCCGTGTCCGA+GGG 0.608291 1.1:-76683998 None:intergenic
TACAAGTTACTCAGAATCTG+AGG 0.610014 1.1:-76685050 None:intergenic
CGTGTCCGAGGGAGATCCAA+CGG 0.633581 1.1:-76683987 None:intergenic
AATACACCGTGCAAGGTCCG+GGG 0.653754 1.1:+76684985 MS.gene76830:CDS
GATCGAGAATCAAGTACTGA+CGG 0.657827 1.1:+76683837 MS.gene76830:CDS
TCTCATAAAGAATACCAAAG+TGG 0.658073 1.1:+76684720 MS.gene76830:CDS
TCGGTTTGTGAAAATAAATG+CGG 0.667614 1.1:+76684642 MS.gene76830:CDS
TTGAAGCCCTAAGAGAAAGG+AGG 0.672465 1.1:+76683929 MS.gene76830:CDS
TACTGATGACTTTAGCACCG+AGG 0.705317 1.1:+76684907 MS.gene76830:CDS
GCAACAAATGAAGAAAATGG+CGG 0.709368 1.1:+76683954 MS.gene76830:CDS
AAGTGTTCGGCAGAGCACAA+CGG 0.717985 1.1:+76685021 MS.gene76830:CDS
GGACAAAGGAAAGATCCAAG+AGG 0.724397 1.1:+76683813 MS.gene76830:CDS
CGAGAATCAAGTACTGACGG+TGG 0.724611 1.1:+76683840 MS.gene76830:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GAACTTTATAAAAATATTAT+TGG + chr1.1:76684355-76684374 MS.gene76830:intron 10.0%
!!! AAGAATTTTAATTTAAACGT+AGG + chr1.1:76684333-76684352 MS.gene76830:intron 15.0%
!! ACATGTGATTACATAATTAT+CGG + chr1.1:76684219-76684238 MS.gene76830:intron 20.0%
!! TAGAATTATCTGTTTATCAT+TGG + chr1.1:76684450-76684469 MS.gene76830:intron 20.0%
!! TATTGACATGAATTCTATAT+TGG + chr1.1:76684796-76684815 MS.gene76830:intron 20.0%
! AATTATCTGTTTATCATTGG+AGG + chr1.1:76684453-76684472 MS.gene76830:intron 25.0%
! AATTATGTAATCACATGTGT+AGG - chr1.1:76684217-76684236 None:intergenic 25.0%
! ATATAAAAACTGTAAGTCTG+CGG - chr1.1:76684524-76684543 None:intergenic 25.0%
! ATTATCTGTTTATCATTGGA+GGG + chr1.1:76684454-76684473 MS.gene76830:intron 25.0%
! TACTAACATCAAGATGATAA+TGG + chr1.1:76684849-76684868 MS.gene76830:intron 25.0%
!!! ATGATAATGGTATGTGTTTT+AGG + chr1.1:76684862-76684881 MS.gene76830:intron 25.0%
ACATGAATTCTATATTGGAC+AGG + chr1.1:76684801-76684820 MS.gene76830:intron 30.0%
ATTATGTGGTATGTGCTTAA+AGG + chr1.1:76684746-76684765 MS.gene76830:intron 30.0%
CATGAATTCTATATTGGACA+GGG + chr1.1:76684802-76684821 MS.gene76830:intron 30.0%
CGGAATTCAAATTCAAATTG+TGG - chr1.1:76684504-76684523 None:intergenic 30.0%
TCTCATAAAGAATACCAAAG+TGG + chr1.1:76684720-76684739 MS.gene76830:CDS 30.0%
TGATTACATAATTATCGGTG+TGG + chr1.1:76684224-76684243 MS.gene76830:intron 30.0%
TTCTTTATGAGAGCAATAGT+AGG - chr1.1:76684712-76684731 None:intergenic 30.0%
! GGACAAGCATTTAAGTATTT+TGG + chr1.1:76684600-76684619 MS.gene76830:CDS 30.0%
! TAAAGCTCAAGTCATCTTTT+TGG + chr1.1:76684949-76684968 MS.gene76830:CDS 30.0%
! TATTTTCTTTCGCTGAAATG+AGG + chr1.1:76684541-76684560 MS.gene76830:intron 30.0%
! TCGGTTTGTGAAAATAAATG+CGG + chr1.1:76684642-76684661 MS.gene76830:CDS 30.0%
!! ATAATGGTATGTGTTTTAGG+TGG + chr1.1:76684865-76684884 MS.gene76830:intron 30.0%
!! TAATGGTATGTGTTTTAGGT+GGG + chr1.1:76684866-76684885 MS.gene76830:intron 30.0%
ATATTATTGGCAGTGCATAC+TGG + chr1.1:76684368-76684387 MS.gene76830:intron 35.0%
CAATCTTTCTTCCAAAACCT+CGG - chr1.1:76684927-76684946 None:intergenic 35.0%
GCAACAAATGAAGAAAATGG+CGG + chr1.1:76683954-76683973 MS.gene76830:CDS 35.0%
GCTGCAACAAATGAAGAAAA+TGG + chr1.1:76683951-76683970 MS.gene76830:CDS 35.0%
TACCAAAGTGGATGATTATG+TGG + chr1.1:76684732-76684751 MS.gene76830:CDS 35.0%
TACCACATAATCATCCACTT+TGG - chr1.1:76684737-76684756 None:intergenic 35.0%
TTGAGCTTCTCAGCTAAAAA+TGG - chr1.1:76684676-76684695 None:intergenic 35.0%
ACGATCACTTGCTTTAACGA+CGG - chr1.1:76684052-76684071 None:intergenic 40.0%
ATCTTGAAGCCCTAAGAGAA+AGG + chr1.1:76683926-76683945 MS.gene76830:CDS 40.0%
GAGAAGAAGTCTTTCTCTGA+CGG - chr1.1:76684030-76684049 None:intergenic 40.0%
GTAATCACATGTGTAGGTGT+CGG - chr1.1:76684211-76684230 None:intergenic 40.0%
GTCATTTCTTCCGCGAAAAT+TGG + chr1.1:76684079-76684098 MS.gene76830:CDS 40.0%
! AGCTCAAGTCATCTTTTTGG+AGG + chr1.1:76684952-76684971 MS.gene76830:CDS 40.0%
! GCTCAAGTCATCTTTTTGGA+GGG + chr1.1:76684953-76684972 MS.gene76830:CDS 40.0%
! TGCATTCAGTTTGCTTAGCT+TGG + chr1.1:76684305-76684324 MS.gene76830:intron 40.0%
!! CGCAAACCAAAAGAAGTGTT+CGG + chr1.1:76685008-76685027 MS.gene76830:CDS 40.0%
!! GATCGAGAATCAAGTACTGA+CGG + chr1.1:76683837-76683856 MS.gene76830:CDS 40.0%
!! TAGGTGGGTTTTGATGAACT+TGG + chr1.1:76684881-76684900 MS.gene76830:intron 40.0%
!!! CGAGGTTTTGGAAGAAAGAT+TGG + chr1.1:76684925-76684944 MS.gene76830:CDS 40.0%
AATCGTCAATACACCGTGCA+AGG + chr1.1:76684978-76684997 MS.gene76830:CDS 45.0%
CACAGTTCATTCACAGGTTG+TGG + chr1.1:76684579-76684598 MS.gene76830:intron 45.0%
CTTGATTCTCGATCACCTCT+TGG - chr1.1:76683831-76683850 None:intergenic 45.0%
GAAATTGTGCGAACCTTGCA+GGG - chr1.1:76684105-76684124 None:intergenic 45.0%
GGACAAAGGAAAGATCCAAG+AGG + chr1.1:76683813-76683832 MS.gene76830:CDS 45.0%
GTCTTTCTCTGACGGAATCT+CGG - chr1.1:76684022-76684041 None:intergenic 45.0%
TACTGATGACTTTAGCACCG+AGG + chr1.1:76684907-76684926 MS.gene76830:CDS 45.0%
TGTGCTCACAGTTCATTCAC+AGG + chr1.1:76684573-76684592 MS.gene76830:intron 45.0%
TTGAAGCCCTAAGAGAAAGG+AGG + chr1.1:76683929-76683948 MS.gene76830:CDS 45.0%
TTGCAGCCTCCTTTCTCTTA+GGG - chr1.1:76683938-76683957 None:intergenic 45.0%
!! GTGGGTTTTGATGAACTTGG+TGG + chr1.1:76684884-76684903 MS.gene76830:CDS 45.0%
!! TGACTTTAGCACCGAGGTTT+TGG + chr1.1:76684913-76684932 MS.gene76830:CDS 45.0%
AAGTGTTCGGCAGAGCACAA+CGG + chr1.1:76685021-76685040 MS.gene76830:CDS 50.0%
CGAAATTGTGCGAACCTTGC+AGG - chr1.1:76684106-76684125 None:intergenic 50.0%
CGAAGCAGCATGTTGAGACT+CGG + chr1.1:76684623-76684642 MS.gene76830:CDS 50.0%
CGGTGTGGATGTGTAGTGTT+AGG + chr1.1:76684239-76684258 MS.gene76830:intron 50.0%
GTCATCGTCGAGACGTTCAA+GGG - chr1.1:76683905-76683924 None:intergenic 50.0%
GTTGCAGCCTCCTTTCTCTT+AGG - chr1.1:76683939-76683958 None:intergenic 50.0%
TCAATACACCGTGCAAGGTC+CGG + chr1.1:76684983-76685002 MS.gene76830:CDS 50.0%
! GCTCTGCCGAACACTTCTTT+TGG - chr1.1:76685017-76685036 None:intergenic 50.0%
!! CGAGAATCAAGTACTGACGG+TGG + chr1.1:76683840-76683859 MS.gene76830:CDS 50.0%
!!! ACTTCTTTTGGTTTGCGCCC+CGG - chr1.1:76685005-76685024 None:intergenic 50.0%
AATACACCGTGCAAGGTCCG+GGG + chr1.1:76684985-76685004 MS.gene76830:CDS 55.0%
CAATACACCGTGCAAGGTCC+GGG + chr1.1:76684984-76685003 MS.gene76830:CDS 55.0%
CGTCATCGTCGAGACGTTCA+AGG - chr1.1:76683906-76683925 None:intergenic 55.0%
GGTGTAATCTCCGTGTCCGA+GGG - chr1.1:76684001-76684020 None:intergenic 55.0%
! CCTTGCAGGGCCAATTTTCG+CGG - chr1.1:76684092-76684111 None:intergenic 55.0%
CCGCGAAAATTGGCCCTGCA+AGG + chr1.1:76684089-76684108 MS.gene76830:CDS 60.0%
CGGTGTAATCTCCGTGTCCG+AGG - chr1.1:76684002-76684021 None:intergenic 60.0%
CGTAGCCGTTGGATCTCCCT+CGG + chr1.1:76683982-76684001 MS.gene76830:CDS 60.0%
CGTGTCCGAGGGAGATCCAA+CGG - chr1.1:76683990-76684009 None:intergenic 60.0%
CGTTGGATCTCCCTCGGACA+CGG + chr1.1:76683988-76684007 MS.gene76830:CDS 60.0%
GACGGTGGCTCAAGCAGTCG+AGG + chr1.1:76683855-76683874 MS.gene76830:CDS 65.0%
TTTGCGCCCCGGACCTTGCA+CGG - chr1.1:76684994-76685013 None:intergenic 65.0%
! TGGCGGAGAAGCGTAGCCGT+TGG + chr1.1:76683971-76683990 MS.gene76830:CDS 65.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 76683811 76685066 76683811 ID=MS.gene76830
chr1.1 mRNA 76683811 76685066 76683811 ID=MS.gene76830.t1;Parent=MS.gene76830
chr1.1 exon 76683811 76684110 76683811 ID=MS.gene76830.t1.exon1;Parent=MS.gene76830.t1
chr1.1 CDS 76683811 76684110 76683811 ID=cds.MS.gene76830.t1;Parent=MS.gene76830.t1
chr1.1 exon 76684595 76684753 76684595 ID=MS.gene76830.t1.exon2;Parent=MS.gene76830.t1
chr1.1 CDS 76684595 76684753 76684595 ID=cds.MS.gene76830.t1;Parent=MS.gene76830.t1
chr1.1 exon 76684884 76685066 76684884 ID=MS.gene76830.t1.exon3;Parent=MS.gene76830.t1
chr1.1 CDS 76684884 76685066 76684884 ID=cds.MS.gene76830.t1;Parent=MS.gene76830.t1
Gene Sequence

>MS.gene76830

ATGGACAAAGGAAAGATCCAAGAGGTGATCGAGAATCAAGTACTGACGGTGGCTCAAGCAGTCGAGGATAAGATCGACGAAGAGATTGCTGCCCTTGAACGTCTCGACGATGACGATCTTGAAGCCCTAAGAGAAAGGAGGCTGCAACAAATGAAGAAAATGGCGGAGAAGCGTAGCCGTTGGATCTCCCTCGGACACGGAGATTACACCGAGATTCCGTCAGAGAAAGACTTCTTCTCCGTCGTTAAAGCAAGTGATCGTGTTGTTTGTCATTTCTTCCGCGAAAATTGGCCCTGCAAGGTTCGCACAATTTCGTGTTCATAATCATTTTATGTAGAAATTGAATGTTCAATCAACTTCGCAATTGTGAAATTAAATGTAAATTGCGACTCAGAGTCCGACACCTACACATGTGATTACATAATTATCGGTGTGGATGTGTAGTGTTAGGATATATTAGTGTCTGTCTGTGTTAGTGCTTCATAGAATTGCGATGCATTCAGTTTGCTTAGCTTGGCGATAAAGAATTTTAATTTAAACGTAGGAACTTTATAAAAATATTATTGGCAGTGCATACTGGTATGTTCATTGTTGTTATTGTCAATAATAACATAATGAACAATGTGCAGCTATTTCATTTAGAATTATCTGTTTATCATTGGAGGGAAAGCAACTTAGACACTAGATGTACCACAATTTGAATTTGAATTCCGCAGACTTACAGTTTTTATATTTTCTTTCGCTGAAATGAGGTGAAACATCTGTGCTCACAGTTCATTCACAGGTTGTGGACAAGCATTTAAGTATTTTGGCGAAGCAGCATGTTGAGACTCGGTTTGTGAAAATAAATGCGGAAAAAAGTCCATTTTTAGCTGAGAAGCTCAAGATCATTGTTCTTCCTACTATTGCTCTCATAAAGAATACCAAAGTGGATGATTATGTGGTATGTGCTTAAAGGATTTTACTTATTCATAAAGTTGATAGATATTGACATGAATTCTATATTGGACAGGGTTTTTCTCTTTATTTAAGTAATTTTACTAACATCAAGATGATAATGGTATGTGTTTTAGGTGGGTTTTGATGAACTTGGTGGTACTGATGACTTTAGCACCGAGGTTTTGGAAGAAAGATTGGCTAAAGCTCAAGTCATCTTTTTGGAGGGTGAATCGTCAATACACCGTGCAAGGTCCGGGGCGCAAACCAAAAGAAGTGTTCGGCAGAGCACAACGGCTGACTCCTCAGATTCTGAGTAA

Protein sequence

>MS.gene76830.t1

MDKGKIQEVIENQVLTVAQAVEDKIDEEIAALERLDDDDLEALRERRLQQMKKMAEKRSRWISLGHGDYTEIPSEKDFFSVVKASDRVVCHFFRENWPCKVVDKHLSILAKQHVETRFVKINAEKSPFLAEKLKIIVLPTIALIKNTKVDDYVVGFDELGGTDDFSTEVLEERLAKAQVIFLEGESSIHRARSGAQTKRSVRQSTTADSSDSE