AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene010958

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene010958.t1 MTR_7g050670 88.251 366 43 0 1 366 1 366 0.0 670
MS.gene010958.t1 MTR_7g076760 66.947 357 116 1 1 355 1 357 4.51e-175 495
MS.gene010958.t1 MTR_7g076570 69.577 355 101 2 1 355 29 376 5.46e-175 496
MS.gene010958.t1 MTR_4g088845 68.644 354 108 1 1 354 1 351 1.39e-174 494
MS.gene010958.t1 MTR_1g021820 25.177 282 166 10 5 274 16 264 2.97e-11 64.7
MS.gene010958.t1 MTR_0049s0110 24.719 356 213 15 24 346 13 346 5.34e-11 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene010958.t1 AT1G61330 30.678 339 230 4 24 358 15 352 2.87e-46 164
MS.gene010958.t1 AT1G61320 26.891 357 255 6 7 358 9 364 6.43e-39 144

Find 47 sgRNAs with CRISPR-Local

Find 69 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTCTCTTTCCTCAAGTAAT+TGG 0.148637 7.1:-51338521 None:intergenic
ACTACTTCATTCTCATTAAT+TGG 0.161534 7.1:+51339777 MS.gene010958:CDS
ACTACCAGAGGAAGCAATTT+TGG 0.163512 7.1:-51338544 None:intergenic
CCGATATAGCCAACAAAATT+TGG 0.166151 7.1:+51338707 MS.gene010958:CDS
CGAGAAGCACAATATTGTTT+TGG 0.280542 7.1:+51339633 MS.gene010958:CDS
TTCTCTTTCCTCAAGTAATT+GGG 0.333664 7.1:-51338520 None:intergenic
TTTCCTCAAGTAATTGGGTT+TGG 0.353663 7.1:-51338515 None:intergenic
CACTTGGAACATCTGGTAAC+TGG 0.354434 7.1:-51338965 None:intergenic
CCTTGAGCAATTCGAACAAT+TGG 0.372454 7.1:-51339239 None:intergenic
TGCAAACCACTTGGAACATC+TGG 0.415677 7.1:-51338972 None:intergenic
GTTATAATTGCATGTTTGAT+TGG 0.417480 7.1:-51338606 None:intergenic
ATGAACAATTTCACCAAAGA+TGG 0.432770 7.1:-51339738 None:intergenic
AGCTTCAATTGTTGATGGAT+GGG 0.435576 7.1:+51339667 MS.gene010958:CDS
AATCGATTGTTGTGAGGACT+TGG 0.438503 7.1:+51339160 MS.gene010958:CDS
CATTTATTCAATTCGCATGA+AGG 0.441661 7.1:+51338744 MS.gene010958:CDS
AGAAACATAGTTATATCGTA+TGG 0.451009 7.1:-51339705 None:intergenic
CAGTTACATATCGATCCTGT+TGG 0.451921 7.1:+51338786 MS.gene010958:CDS
AGCAAAACTTCAATCCCAAC+AGG 0.463500 7.1:-51338801 None:intergenic
CTGCAACAACAGTGTCTCCT+AGG 0.465886 7.1:+51338628 MS.gene010958:CDS
AGTCTCTATCAAACAAGAAT+CGG 0.472631 7.1:-51338677 None:intergenic
CCAATTGTTCGAATTGCTCA+AGG 0.473509 7.1:+51339239 MS.gene010958:CDS
GAGGGAGCTTCAATTGTTGA+TGG 0.475203 7.1:+51339662 MS.gene010958:CDS
GAGCTTCAATTGTTGATGGA+TGG 0.475394 7.1:+51339666 MS.gene010958:CDS
GAACCCAAAATTGCTTCCTC+TGG 0.478922 7.1:+51338540 MS.gene010958:CDS
TGCAAAAGTTGCAAACCACT+TGG 0.484261 7.1:-51338981 None:intergenic
ATACATGCAATCTACTCAGC+TGG 0.487471 7.1:+51339307 MS.gene010958:CDS
AGTTACATATCGATCCTGTT+GGG 0.489783 7.1:+51338787 MS.gene010958:CDS
CTCAATAAGTTGAGGTGTAG+TGG 0.510982 7.1:-51339369 None:intergenic
CACTACACCTCAACTTATTG+AGG 0.526106 7.1:+51339370 MS.gene010958:CDS
TTCCTCTGGTAGTCTTTCTG+AGG 0.527967 7.1:+51338554 MS.gene010958:CDS
CTCCTAGGTACAAAAGATCA+TGG 0.530531 7.1:+51338643 MS.gene010958:CDS
GCTTCAATTGTTGATGGATG+GGG 0.535016 7.1:+51339668 MS.gene010958:CDS
CACATCACTGAAGAAATGTC+TGG 0.537374 7.1:+51339026 MS.gene010958:CDS
TGGCTGTAAGGATTCGTGAT+GGG 0.538732 7.1:+51339604 MS.gene010958:CDS
GGCTGTAAGGATTCGTGATG+GGG 0.558929 7.1:+51339605 MS.gene010958:CDS
CAGACATTTCTTCAGTGATG+TGG 0.565836 7.1:-51339025 None:intergenic
CAATTGTTCGAATTGCTCAA+GGG 0.587482 7.1:+51339240 MS.gene010958:CDS
ATGCACTAACAAGGATCTAG+AGG 0.591437 7.1:+51338842 MS.gene010958:CDS
GTGGCTGTAAGGATTCGTGA+TGG 0.602284 7.1:+51339603 MS.gene010958:CDS
ATTCAATTGTGAAACCAGGT+TGG 0.602985 7.1:-51338884 None:intergenic
TTTGAGAATCGATTGTTGTG+AGG 0.603428 7.1:+51339154 MS.gene010958:CDS
AAACCAAACCCAATTACTTG+AGG 0.614535 7.1:+51338512 MS.gene010958:CDS
GTAAATTCAATTGTGAAACC+AGG 0.629720 7.1:-51338888 None:intergenic
CAGTTACCAGATGTTCCAAG+TGG 0.629758 7.1:+51338966 MS.gene010958:CDS
ATCCTCAGAAAGACTACCAG+AGG 0.635655 7.1:-51338556 None:intergenic
ATATATACCTCAATAAGTTG+AGG 0.643108 7.1:-51339377 None:intergenic
GTTGCAAATATGCACTAACA+AGG 0.665849 7.1:+51338833 MS.gene010958:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAATTTATGCATATTAATAA+AGG - chr7.1:51339561-51339580 None:intergenic 10.0%
!! ATAATAAATGCATATAGATT+TGG - chr7.1:51339517-51339536 None:intergenic 15.0%
!! ATAGATATATTGCATGATAT+AGG - chr7.1:51339479-51339498 None:intergenic 20.0%
!! CAAGTTAAAAACACTAAAAT+TGG + chr7.1:51338929-51338948 MS.gene010958:CDS 20.0%
!!! AATATTGTTTTGGAAATTTG+AGG + chr7.1:51339643-51339662 MS.gene010958:CDS 20.0%
!!! ATATTGTTTTGGAAATTTGA+GGG + chr7.1:51339644-51339663 MS.gene010958:CDS 20.0%
!!! TATTAAACCTTGTCATTTTA+GGG + chr7.1:51339579-51339598 MS.gene010958:intron 20.0%
!!! TTATTAAACCTTGTCATTTT+AGG + chr7.1:51339578-51339597 MS.gene010958:intron 20.0%
! ACTACTTCATTCTCATTAAT+TGG + chr7.1:51339777-51339796 MS.gene010958:CDS 25.0%
! AGAAACATAGTTATATCGTA+TGG - chr7.1:51339708-51339727 None:intergenic 25.0%
! ATATATACCTCAATAAGTTG+AGG - chr7.1:51339380-51339399 None:intergenic 25.0%
! GTTATAATTGCATGTTTGAT+TGG - chr7.1:51338609-51338628 None:intergenic 25.0%
! TAAAAAATTGAACGAAGAGT+TGG - chr7.1:51339206-51339225 None:intergenic 25.0%
!!! CTTCGTTCAATTTTTTATCA+TGG + chr7.1:51339209-51339228 MS.gene010958:CDS 25.0%
AGTCTCTATCAAACAAGAAT+CGG - chr7.1:51338680-51338699 None:intergenic 30.0%
ATGAACAATTTCACCAAAGA+TGG - chr7.1:51339741-51339760 None:intergenic 30.0%
CATTTATTCAATTCGCATGA+AGG + chr7.1:51338744-51338763 MS.gene010958:CDS 30.0%
GTAAATTCAATTGTGAAACC+AGG - chr7.1:51338891-51338910 None:intergenic 30.0%
TCTCAAAAATTGTCCATCTT+TGG + chr7.1:51339725-51339744 MS.gene010958:CDS 30.0%
TTCTCTTTCCTCAAGTAATT+GGG - chr7.1:51338523-51338542 None:intergenic 30.0%
! GATTGCATGTATTCTTTTGA+TGG - chr7.1:51339299-51339318 None:intergenic 30.0%
! TTGAAGTTTTGCTTAAGAGA+TGG + chr7.1:51338811-51338830 MS.gene010958:CDS 30.0%
!! CCAAATTTTGTTGGCTATAT+CGG - chr7.1:51338710-51338729 None:intergenic 30.0%
!!! TTGGGTTTGGTTTTCAAAAT+TGG - chr7.1:51338505-51338524 None:intergenic 30.0%
AAACCAAACCCAATTACTTG+AGG + chr7.1:51338512-51338531 MS.gene010958:CDS 35.0%
AGTTACATATCGATCCTGTT+GGG + chr7.1:51338787-51338806 MS.gene010958:CDS 35.0%
ATTCAATTGTGAAACCAGGT+TGG - chr7.1:51338887-51338906 None:intergenic 35.0%
CAATTGTTCGAATTGCTCAA+GGG + chr7.1:51339240-51339259 MS.gene010958:CDS 35.0%
CCGATATAGCCAACAAAATT+TGG + chr7.1:51338707-51338726 MS.gene010958:CDS 35.0%
GTTCTCTTTCCTCAAGTAAT+TGG - chr7.1:51338524-51338543 None:intergenic 35.0%
GTTGCAAATATGCACTAACA+AGG + chr7.1:51338833-51338852 MS.gene010958:CDS 35.0%
TTTCCTCAAGTAATTGGGTT+TGG - chr7.1:51338518-51338537 None:intergenic 35.0%
TTTGAGAATCGATTGTTGTG+AGG + chr7.1:51339154-51339173 MS.gene010958:CDS 35.0%
! AGCTTCAATTGTTGATGGAT+GGG + chr7.1:51339667-51339686 MS.gene010958:CDS 35.0%
! CTATTGCAGCCAAATTTTGT+TGG - chr7.1:51338719-51338738 None:intergenic 35.0%
! TACCATGATCTTTTGTACCT+AGG - chr7.1:51338648-51338667 None:intergenic 35.0%
!! CGAGAAGCACAATATTGTTT+TGG + chr7.1:51339633-51339652 MS.gene010958:CDS 35.0%
AATCGATTGTTGTGAGGACT+TGG + chr7.1:51339160-51339179 MS.gene010958:CDS 40.0%
AGCAAAACTTCAATCCCAAC+AGG - chr7.1:51338804-51338823 None:intergenic 40.0%
ATACATGCAATCTACTCAGC+TGG + chr7.1:51339307-51339326 MS.gene010958:CDS 40.0%
ATGCACTAACAAGGATCTAG+AGG + chr7.1:51338842-51338861 MS.gene010958:CDS 40.0%
CACATCACTGAAGAAATGTC+TGG + chr7.1:51339026-51339045 MS.gene010958:CDS 40.0%
CACTACACCTCAACTTATTG+AGG + chr7.1:51339370-51339389 MS.gene010958:CDS 40.0%
CAGACATTTCTTCAGTGATG+TGG - chr7.1:51339028-51339047 None:intergenic 40.0%
CAGTTACATATCGATCCTGT+TGG + chr7.1:51338786-51338805 MS.gene010958:CDS 40.0%
CCAATTGTTCGAATTGCTCA+AGG + chr7.1:51339239-51339258 MS.gene010958:CDS 40.0%
CCTTGAGCAATTCGAACAAT+TGG - chr7.1:51339242-51339261 None:intergenic 40.0%
CTCCTAGGTACAAAAGATCA+TGG + chr7.1:51338643-51338662 MS.gene010958:CDS 40.0%
TGCAAAAGTTGCAAACCACT+TGG - chr7.1:51338984-51339003 None:intergenic 40.0%
! ACTACCAGAGGAAGCAATTT+TGG - chr7.1:51338547-51338566 None:intergenic 40.0%
! CTACCAGAGGAAGCAATTTT+GGG - chr7.1:51338546-51338565 None:intergenic 40.0%
! CTCAATAAGTTGAGGTGTAG+TGG - chr7.1:51339372-51339391 None:intergenic 40.0%
! GAGATGACTTTTTACCAACC+TGG + chr7.1:51338870-51338889 MS.gene010958:CDS 40.0%
! GAGCTTCAATTGTTGATGGA+TGG + chr7.1:51339666-51339685 MS.gene010958:CDS 40.0%
! GCTTCAATTGTTGATGGATG+GGG + chr7.1:51339668-51339687 MS.gene010958:CDS 40.0%
!!! AACCTTGTCATTTTAGGGAG+TGG + chr7.1:51339584-51339603 MS.gene010958:intron 40.0%
AGCCACTCCCTAAAATGACA+AGG - chr7.1:51339589-51339608 None:intergenic 45.0%
ATCCTCAGAAAGACTACCAG+AGG - chr7.1:51338559-51338578 None:intergenic 45.0%
CACTTGGAACATCTGGTAAC+TGG - chr7.1:51338968-51338987 None:intergenic 45.0%
CAGTTACCAGATGTTCCAAG+TGG + chr7.1:51338966-51338985 MS.gene010958:CDS 45.0%
GAACCCAAAATTGCTTCCTC+TGG + chr7.1:51338540-51338559 MS.gene010958:CDS 45.0%
GAGGGAGCTTCAATTGTTGA+TGG + chr7.1:51339662-51339681 MS.gene010958:CDS 45.0%
TGCAAACCACTTGGAACATC+TGG - chr7.1:51338975-51338994 None:intergenic 45.0%
TGGCTGTAAGGATTCGTGAT+GGG + chr7.1:51339604-51339623 MS.gene010958:CDS 45.0%
TTCCTCTGGTAGTCTTTCTG+AGG + chr7.1:51338554-51338573 MS.gene010958:CDS 45.0%
!! CATTTTAGGGAGTGGCTGTA+AGG + chr7.1:51339592-51339611 MS.gene010958:intron 45.0%
CTGCAACAACAGTGTCTCCT+AGG + chr7.1:51338628-51338647 MS.gene010958:CDS 50.0%
GGCTGTAAGGATTCGTGATG+GGG + chr7.1:51339605-51339624 MS.gene010958:CDS 50.0%
GTGGCTGTAAGGATTCGTGA+TGG + chr7.1:51339603-51339622 MS.gene010958:CDS 50.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 51338498 51339809 51338498 ID=MS.gene010958
chr7.1 mRNA 51338498 51339809 51338498 ID=MS.gene010958.t1;Parent=MS.gene010958
chr7.1 exon 51338498 51339391 51338498 ID=MS.gene010958.t1.exon1;Parent=MS.gene010958.t1
chr7.1 CDS 51338498 51339391 51338498 ID=cds.MS.gene010958.t1;Parent=MS.gene010958.t1
chr7.1 exon 51339600 51339809 51339600 ID=MS.gene010958.t1.exon2;Parent=MS.gene010958.t1
chr7.1 CDS 51339600 51339809 51339600 ID=cds.MS.gene010958.t1;Parent=MS.gene010958.t1
Gene Sequence

>MS.gene010958

ATGGCCAATTTTGAAAACCAAACCCAATTACTTGAGGAAAGAGAACCCAAAATTGCTTCCTCTGGTAGTCTTTCTGAGGATATGATTCAAAACATTTTCACTTTTTTACCAATCAAACATGCAATTATAACTGCAACAACAGTGTCTCCTAGGTACAAAAGATCATGGTATCATAATCGCCGATTCTTGTTTGATAGAGACTTATGTTTCCGATATAGCCAACAAAATTTGGCTGCAATAGTTGATCATTTATTCAATTCGCATGAAGGTGACGAAATTAAAACGTTTCAGTTACATATCGATCCTGTTGGGATTGAAGTTTTGCTTAAGAGATGGTTGCAAATATGCACTAACAAGGATCTAGAGGATCTTGAGATGACTTTTTACCAACCTGGTTTCACAATTGAATTTACTGTTTTTAACGCACTGCACAAGTTAAAAACACTAAAATTGGCTCAATGTGTGATCCAGTTACCAGATGTTCCAAGTGGTTTGCAACTTTTGCAAAAGCTAAAGCTAGCTAACATCCACATCACTGAAGAAATGTCTGGTATGTTGATTGAGCATTGTAAGATGCTTGAAATGATTGTTTTAATTAATTGCTCAACAATTAAGAAATTGAAATTAATTGCTAGACAAAATAAATATTTCAAAAATTTGAGAATCGATTGTTGTGAGGACTTGGAAGAGATTGAAATCGATTCACCAACTCTTCGTTCAATTTTTTATCATGGAAAATTTCCAATTGTTCGAATTGCTCAAGGGATGCAATTGTACGATGCTTTCTTTCGCTTTACACCATCAAAAGAATACATGCAATCTACTCAGCTGGAAGCTCTTGCTAAAGATTTCTCACATGTCAGCATTCTCACCACTACACCTCAACTTATTGAGGTATATATATAATCAAGCATATGCTTATTCTTATTTATTTACATTTCACTATTTACTATTTTATTTAATTACTTACAAACTACTCCTATATCATGCAATATATCTATATACATTTTTTTTGACCAAATCTATATGCATTTATTATTATTATTTGAATTTATTGATGCCTTTATTAATATGCATAAATTATTAAACCTTGTCATTTTAGGGAGTGGCTGTAAGGATTCGTGATGGGGTATTTCGAGAAGCACAATATTGTTTTGGAAATTTGAGGGAGCTTCAATTGTTGATGGATGGGGCAATATTTTGCAATCCATACGATATAACTATGTTTCTCAAAAATTGTCCATCTTTGGTGAAATTGTTCATTGATGTAAGTACTACTACTACTTCATTCTCATTAATTGGTGAAGACTAA
Protein sequence

>MS.gene010958.t1

MANFENQTQLLEEREPKIASSGSLSEDMIQNIFTFLPIKHAIITATTVSPRYKRSWYHNRRFLFDRDLCFRYSQQNLAAIVDHLFNSHEGDEIKTFQLHIDPVGIEVLLKRWLQICTNKDLEDLEMTFYQPGFTIEFTVFNALHKLKTLKLAQCVIQLPDVPSGLQLLQKLKLANIHITEEMSGMLIEHCKMLEMIVLINCSTIKKLKLIARQNKYFKNLRIDCCEDLEEIEIDSPTLRSIFYHGKFPIVRIAQGMQLYDAFFRFTPSKEYMQSTQLEALAKDFSHVSILTTTPQLIEGVAVRIRDGVFREAQYCFGNLRELQLLMDGAIFCNPYDITMFLKNCPSLVKLFIDVSTTTTSFSLIGED