AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene043664

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene043664.t1 MTR_7g050670 89.644 309 32 0 1 309 48 356 0.0 580
MS.gene043664.t1 MTR_4g088845 72.549 306 81 1 2 307 49 351 1.01e-159 454
MS.gene043664.t1 MTR_7g076570 71.753 308 82 1 1 308 74 376 7.89e-158 450
MS.gene043664.t1 MTR_7g076760 68.831 308 96 0 1 308 50 357 3.83e-156 445
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene043664.t1 AT1G61330 31.111 315 213 3 1 311 38 352 6.29e-43 154
MS.gene043664.t1 AT1G61320 27.937 315 223 4 1 311 50 364 5.43e-35 132

Find 37 sgRNAs with CRISPR-Local

Find 56 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTACTTCATTCTCATTAAT+TGG 0.161534 7.4:+51680728 MS.gene043664:CDS
CCGATATAGCCAACAAAATT+TGG 0.166151 7.4:+51679658 MS.gene043664:CDS
CGAGAAGCACAATATTGTTT+TGG 0.280542 7.4:+51680584 MS.gene043664:CDS
CACTTGGAACATCTGGTAAC+TGG 0.354434 7.4:-51679916 None:intergenic
CCTTGAGCAATTCGAACAAT+TGG 0.372454 7.4:-51680190 None:intergenic
TGCAAACCACTTGGAACATC+TGG 0.415677 7.4:-51679923 None:intergenic
ATGAACAATTTCACCAAAGA+TGG 0.432770 7.4:-51680689 None:intergenic
AGCTTCAATTGTTGATGGAT+GGG 0.435576 7.4:+51680618 MS.gene043664:CDS
AATCGATTGTTGTGAGGACT+TGG 0.438503 7.4:+51680111 MS.gene043664:CDS
CATTTATTCAATTCGCATGA+AGG 0.441661 7.4:+51679695 MS.gene043664:CDS
AGAAACATAGTTATATCGTA+TGG 0.451009 7.4:-51680656 None:intergenic
CAGTTACATATCGATCCTGT+TGG 0.451921 7.4:+51679737 MS.gene043664:CDS
CTGCAACAACAATGTCTCCT+AGG 0.461724 7.4:+51679579 None:intergenic
AGCAAAACTTCAATCCCAAC+AGG 0.463500 7.4:-51679752 None:intergenic
AGTCTCTATCAAACAAGAAT+CGG 0.472631 7.4:-51679628 None:intergenic
CCAATTGTTCGAATTGCTCA+AGG 0.473509 7.4:+51680190 MS.gene043664:CDS
GAGGGAGCTTCAATTGTTGA+TGG 0.475203 7.4:+51680613 MS.gene043664:CDS
GAGCTTCAATTGTTGATGGA+TGG 0.475394 7.4:+51680617 MS.gene043664:CDS
TGCAAAAGTTGCAAACCACT+TGG 0.484261 7.4:-51679932 None:intergenic
AGTTACATATCGATCCTGTT+GGG 0.489783 7.4:+51679738 MS.gene043664:CDS
CTCAATAAGTTGAGGTGTAG+TGG 0.510982 7.4:-51680320 None:intergenic
CACTACACCTCAACTTATTG+AGG 0.526106 7.4:+51680321 MS.gene043664:CDS
CTCCTAGGTACAAAAGATCA+TGG 0.530531 7.4:+51679594 MS.gene043664:CDS
GCTTCAATTGTTGATGGATG+GGG 0.535016 7.4:+51680619 MS.gene043664:CDS
CACATCACTGAAGAAATGTC+TGG 0.537374 7.4:+51679977 MS.gene043664:CDS
TGGCTGTAAGGATTCGTGAT+GGG 0.538732 7.4:+51680555 MS.gene043664:CDS
GGCTGTAAGGATTCGTGATG+GGG 0.558929 7.4:+51680556 MS.gene043664:CDS
CAGACATTTCTTCAGTGATG+TGG 0.565836 7.4:-51679976 None:intergenic
CAATTGTTCGAATTGCTCAA+GGG 0.587482 7.4:+51680191 MS.gene043664:CDS
ATGCACTAACAAGGATCTAG+AGG 0.591437 7.4:+51679793 MS.gene043664:CDS
GTGGCTGTAAGGATTCGTGA+TGG 0.602284 7.4:+51680554 MS.gene043664:CDS
ATTCAATTGTGAAACCAGGT+TGG 0.602985 7.4:-51679835 None:intergenic
TTTGAGAATCGATTGTTGTG+AGG 0.603428 7.4:+51680105 MS.gene043664:CDS
GTAAATTCAATTGTGAAACC+AGG 0.629720 7.4:-51679839 None:intergenic
CAGTTACCAGATGTTCCAAG+TGG 0.629758 7.4:+51679917 MS.gene043664:CDS
ATATATACCTCAATAAGTTG+AGG 0.643108 7.4:-51680328 None:intergenic
GTTGCAAATATGCACTAACA+AGG 0.665849 7.4:+51679784 MS.gene043664:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAATTTATGCATATTAATAA+AGG - chr7.4:51680512-51680531 None:intergenic 10.0%
!! ATAATAAATGCATATAGATT+TGG - chr7.4:51680468-51680487 None:intergenic 15.0%
!! ATAGATATATTGCATGATAT+AGG - chr7.4:51680430-51680449 None:intergenic 20.0%
!! CAAGTTAAAAACACTAAAAT+TGG + chr7.4:51679880-51679899 MS.gene043664:CDS 20.0%
!!! AATATTGTTTTGGAAATTTG+AGG + chr7.4:51680594-51680613 MS.gene043664:CDS 20.0%
!!! ATATTGTTTTGGAAATTTGA+GGG + chr7.4:51680595-51680614 MS.gene043664:CDS 20.0%
!!! TATTAAACCTTGTCATTTTA+GGG + chr7.4:51680530-51680549 MS.gene043664:intron 20.0%
!!! TTATTAAACCTTGTCATTTT+AGG + chr7.4:51680529-51680548 MS.gene043664:intron 20.0%
! ACTACTTCATTCTCATTAAT+TGG + chr7.4:51680728-51680747 MS.gene043664:CDS 25.0%
! AGAAACATAGTTATATCGTA+TGG - chr7.4:51680659-51680678 None:intergenic 25.0%
! ATATATACCTCAATAAGTTG+AGG - chr7.4:51680331-51680350 None:intergenic 25.0%
! TAAAAAATTGAACGAAGAGT+TGG - chr7.4:51680157-51680176 None:intergenic 25.0%
!!! CTTCGTTCAATTTTTTATCA+TGG + chr7.4:51680160-51680179 MS.gene043664:CDS 25.0%
AGTCTCTATCAAACAAGAAT+CGG - chr7.4:51679631-51679650 None:intergenic 30.0%
ATGAACAATTTCACCAAAGA+TGG - chr7.4:51680692-51680711 None:intergenic 30.0%
CATTTATTCAATTCGCATGA+AGG + chr7.4:51679695-51679714 MS.gene043664:CDS 30.0%
GTAAATTCAATTGTGAAACC+AGG - chr7.4:51679842-51679861 None:intergenic 30.0%
TCTCAAAAATTGTCCATCTT+TGG + chr7.4:51680676-51680695 MS.gene043664:CDS 30.0%
! GATTGCATGTATTCTTTTGA+TGG - chr7.4:51680250-51680269 None:intergenic 30.0%
! TTGAAGTTTTGCTTAAGAGA+TGG + chr7.4:51679762-51679781 MS.gene043664:CDS 30.0%
!! CCAAATTTTGTTGGCTATAT+CGG - chr7.4:51679661-51679680 None:intergenic 30.0%
AGTTACATATCGATCCTGTT+GGG + chr7.4:51679738-51679757 MS.gene043664:CDS 35.0%
ATTCAATTGTGAAACCAGGT+TGG - chr7.4:51679838-51679857 None:intergenic 35.0%
CAATTGTTCGAATTGCTCAA+GGG + chr7.4:51680191-51680210 MS.gene043664:CDS 35.0%
CCGATATAGCCAACAAAATT+TGG + chr7.4:51679658-51679677 MS.gene043664:CDS 35.0%
GTTGCAAATATGCACTAACA+AGG + chr7.4:51679784-51679803 MS.gene043664:CDS 35.0%
TTTGAGAATCGATTGTTGTG+AGG + chr7.4:51680105-51680124 MS.gene043664:CDS 35.0%
! AGCTTCAATTGTTGATGGAT+GGG + chr7.4:51680618-51680637 MS.gene043664:CDS 35.0%
! CTATTGCAGCCAAATTTTGT+TGG - chr7.4:51679670-51679689 None:intergenic 35.0%
! TACCATGATCTTTTGTACCT+AGG - chr7.4:51679599-51679618 None:intergenic 35.0%
!! CGAGAAGCACAATATTGTTT+TGG + chr7.4:51680584-51680603 MS.gene043664:CDS 35.0%
AATCGATTGTTGTGAGGACT+TGG + chr7.4:51680111-51680130 MS.gene043664:CDS 40.0%
AGCAAAACTTCAATCCCAAC+AGG - chr7.4:51679755-51679774 None:intergenic 40.0%
ATGCACTAACAAGGATCTAG+AGG + chr7.4:51679793-51679812 MS.gene043664:CDS 40.0%
CACATCACTGAAGAAATGTC+TGG + chr7.4:51679977-51679996 MS.gene043664:CDS 40.0%
CACTACACCTCAACTTATTG+AGG + chr7.4:51680321-51680340 MS.gene043664:CDS 40.0%
CAGACATTTCTTCAGTGATG+TGG - chr7.4:51679979-51679998 None:intergenic 40.0%
CAGTTACATATCGATCCTGT+TGG + chr7.4:51679737-51679756 MS.gene043664:CDS 40.0%
CCAATTGTTCGAATTGCTCA+AGG + chr7.4:51680190-51680209 MS.gene043664:CDS 40.0%
CCTTGAGCAATTCGAACAAT+TGG - chr7.4:51680193-51680212 None:intergenic 40.0%
CTCCTAGGTACAAAAGATCA+TGG + chr7.4:51679594-51679613 MS.gene043664:CDS 40.0%
TGCAAAAGTTGCAAACCACT+TGG - chr7.4:51679935-51679954 None:intergenic 40.0%
! CTCAATAAGTTGAGGTGTAG+TGG - chr7.4:51680323-51680342 None:intergenic 40.0%
! GAGATGACTTTTTACCAACC+TGG + chr7.4:51679821-51679840 MS.gene043664:CDS 40.0%
! GAGCTTCAATTGTTGATGGA+TGG + chr7.4:51680617-51680636 MS.gene043664:CDS 40.0%
! GCTTCAATTGTTGATGGATG+GGG + chr7.4:51680619-51680638 MS.gene043664:CDS 40.0%
!!! AACCTTGTCATTTTAGGGAG+TGG + chr7.4:51680535-51680554 MS.gene043664:intron 40.0%
AGCCACTCCCTAAAATGACA+AGG - chr7.4:51680540-51680559 None:intergenic 45.0%
CACTTGGAACATCTGGTAAC+TGG - chr7.4:51679919-51679938 None:intergenic 45.0%
CAGTTACCAGATGTTCCAAG+TGG + chr7.4:51679917-51679936 MS.gene043664:CDS 45.0%
GAGGGAGCTTCAATTGTTGA+TGG + chr7.4:51680613-51680632 MS.gene043664:CDS 45.0%
TGCAAACCACTTGGAACATC+TGG - chr7.4:51679926-51679945 None:intergenic 45.0%
TGGCTGTAAGGATTCGTGAT+GGG + chr7.4:51680555-51680574 MS.gene043664:CDS 45.0%
!! CATTTTAGGGAGTGGCTGTA+AGG + chr7.4:51680543-51680562 MS.gene043664:intron 45.0%
GGCTGTAAGGATTCGTGATG+GGG + chr7.4:51680556-51680575 MS.gene043664:CDS 50.0%
GTGGCTGTAAGGATTCGTGA+TGG + chr7.4:51680554-51680573 MS.gene043664:CDS 50.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 51679590 51680760 51679590 ID=MS.gene043664
chr7.4 mRNA 51679590 51680760 51679590 ID=MS.gene043664.t1;Parent=MS.gene043664
chr7.4 exon 51679590 51680342 51679590 ID=MS.gene043664.t1.exon1;Parent=MS.gene043664.t1
chr7.4 CDS 51679590 51680342 51679590 ID=cds.MS.gene043664.t1;Parent=MS.gene043664.t1
chr7.4 exon 51680551 51680760 51680551 ID=MS.gene043664.t1.exon2;Parent=MS.gene043664.t1
chr7.4 CDS 51680551 51680760 51680551 ID=cds.MS.gene043664.t1;Parent=MS.gene043664.t1
Gene Sequence

>MS.gene043664

ATGTCTCCTAGGTACAAAAGATCATGGTATCATAATCGCCGATTCTTGTTTGATAGAGACTTATGTTTCCGATATAGCCAACAAAATTTGGCTGCAATAGTTGATCATTTATTCAATTCGCATGAAGGTGACGAAATTAAAACGTTTCAGTTACATATCGATCCTGTTGGGATTGAAGTTTTGCTTAAGAGATGGTTGCAAATATGCACTAACAAGGATCTAGAGGATCTTGAGATGACTTTTTACCAACCTGGTTTCACAATTGAATTTACTGTTTTTAACGCACTGCACAAGTTAAAAACACTAAAATTGGCTCAATGTGTGATCCAGTTACCAGATGTTCCAAGTGGTTTGCAACTTTTGCAAAAGCTAAAGCTAGCTAACATCCACATCACTGAAGAAATGTCTGGTATGTTGATTGAGCATTGTAAGATGCTTGAAATGATTGTTTTAATTAATTGCTCTACAATTAAGAAATTGAAATTAATTGCTAGACAAAATAAATATTTCAAAAATTTGAGAATCGATTGTTGTGAGGACTTGGAAGAGATTGAAATCGATTCACCAACTCTTCGTTCAATTTTTTATCATGGAAAATTTCCAATTGTTCGAATTGCTCAAGGGATGCAATTGTACGATGCTTTCTTTCGCTTTACACCATCAAAAGAATACATGCAATCTACTCAGCTAGAAGCTCTTGCTAAAGATTTCTCACATGTCAGCATTCTCACCACTACACCTCAACTTATTGAGGTATATATATAAACAAGCATATGCTTATTCTTATTTATTTACATTTCACTATTTACTATTTTATTTAATTACTTACAAACTACTCCTATATCATGCAATATATCTATATACATTTTTTTTGACCAAATCTATATGCATTTATTATTATTATTTGAATTTATTGATGCCTTTATTAATATGCATAAATTATTAAACCTTGTCATTTTAGGGAGTGGCTGTAAGGATTCGTGATGGGGTATTTCGAGAAGCACAATATTGTTTTGGAAATTTGAGGGAGCTTCAATTGTTGATGGATGGGGCAATATTTTGCAATCCATACGATATAACTATGTTTCTCAAAAATTGTCCATCTTTGGTGAAATTGTTCATTGATGTAAGTACTACTACTACTTCATTCTCATTAATTGGTGAAGACTAA
Protein sequence

>MS.gene043664.t1

MSPRYKRSWYHNRRFLFDRDLCFRYSQQNLAAIVDHLFNSHEGDEIKTFQLHIDPVGIEVLLKRWLQICTNKDLEDLEMTFYQPGFTIEFTVFNALHKLKTLKLAQCVIQLPDVPSGLQLLQKLKLANIHITEEMSGMLIEHCKMLEMIVLINCSTIKKLKLIARQNKYFKNLRIDCCEDLEEIEIDSPTLRSIFYHGKFPIVRIAQGMQLYDAFFRFTPSKEYMQSTQLEALAKDFSHVSILTTTPQLIEGVAVRIRDGVFREAQYCFGNLRELQLLMDGAIFCNPYDITMFLKNCPSLVKLFIDVSTTTTSFSLIGED