AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene46300


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene46300.t1 MTR_7g095930 92.265 181 12 1 1 179 1 181 3.05e-107 304
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene46300.t1 AT3G51510 66.165 133 39 2 47 179 54 180 6.22e-53 167

Find 38 sgRNAs with CRISPR-Local

Find 87 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGATTCACATACTCAAATA+TGG 0.236469 7.3:+15330919 None:intergenic
TCACAACCCACAACCTTTCT+AGG 0.242009 7.3:-15331292 MS.gene46300:CDS
AAGAAGAAGTGGGTTTGTTT+TGG 0.258797 7.3:+15331101 None:intergenic
AACAAACCCACTTCTTCTTC+TGG 0.278305 7.3:-15331097 MS.gene46300:CDS
ACTTGACTCTGCTGAGCCTT+TGG 0.330126 7.3:+15331198 None:intergenic
GGAGGAGGTTCTTCTGAGTC+AGG 0.395874 7.3:+15331142 None:intergenic
TTGTTCCTCAGCTTCCTTGT+TGG 0.401097 7.3:+15330233 None:intergenic
GTGAATCAAAAGCCAGTGTT+TGG 0.428557 7.3:-15330905 MS.gene46300:CDS
GCAAGTAAATAAACATAAAA+CGG 0.478470 7.3:+15331058 None:intergenic
GGGAATGCCTAGAAAGGTTG+TGG 0.484085 7.3:+15331285 None:intergenic
CCCACTTCTTCTTCTGGACA+AGG 0.489189 7.3:-15331091 MS.gene46300:CDS
ACTCAGAAGAACCTCCTCCA+TGG 0.530018 7.3:-15331138 MS.gene46300:CDS
CTTCACCGGTGTTCCCACTT+CGG 0.535339 7.3:-15330831 MS.gene46300:intron
ACATAGGGGAATGCCTAGAA+AGG 0.551745 7.3:+15331279 None:intergenic
AGTTGACAGTGATGAGGAGA+AGG 0.557021 7.3:+15331342 None:intergenic
CTCAGAAGAACCTCCTCCAT+GGG 0.557982 7.3:-15331137 MS.gene46300:CDS
GTCTGTTCAAGCAGCCAACA+AGG 0.565704 7.3:-15330247 MS.gene46300:CDS
CGAAGTGGGAACACCGGTGA+AGG 0.578885 7.3:+15330832 None:intergenic
GGAATGCCTAGAAAGGTTGT+GGG 0.583378 7.3:+15331286 None:intergenic
GATGAAAGTAATTACCGAAG+TGG 0.584458 7.3:+15330817 None:intergenic
ATGAAAGTAATTACCGAAGT+GGG 0.587934 7.3:+15330818 None:intergenic
TTAACAGTGGCAGTGACCAA+AGG 0.589461 7.3:-15331214 MS.gene46300:CDS
GAGTCAGGCTTAGCCCATGA+AGG 0.590685 7.3:+15331157 None:intergenic
CTTGAACAGACTTGAACCAC+AGG 0.591556 7.3:+15330259 None:intergenic
ATTCAATTCAGGCCTTCCTG+TGG 0.597191 7.3:-15330275 MS.gene46300:intron
TCCTTGTCCAGAAGAAGAAG+TGG 0.598183 7.3:+15331090 None:intergenic
AGCTGAGGAACAAGACAAGA+GGG 0.603125 7.3:-15330223 MS.gene46300:CDS
GAAGGTAGCAGCTACTGCCA+TGG 0.605058 7.3:+15331360 None:intergenic
AGCAGCCAACAAGGAAGCTG+AGG 0.612169 7.3:-15330238 MS.gene46300:CDS
CCTTGTCCAGAAGAAGAAGT+GGG 0.612408 7.3:+15331091 None:intergenic
TTGTGGGTTGTGATGCATGT+CGG 0.613731 7.3:+15331302 None:intergenic
GAGCTCAAAACTCCAAACAC+TGG 0.621937 7.3:+15330893 None:intergenic
AACAGACTTGAACCACAGGA+AGG 0.628717 7.3:+15330263 None:intergenic
AAGCTGAGGAACAAGACAAG+AGG 0.642384 7.3:-15330224 MS.gene46300:CDS
GGCAATTGCAGTGATAGCAG+AGG 0.656195 7.3:+15331036 None:intergenic
GAGGAACAAGACAAGAGGGA+TGG 0.660419 7.3:-15330219 MS.gene46300:CDS
AATTACCGAAGTGGGAACAC+CGG 0.661017 7.3:+15330826 None:intergenic
ACATACAGTTGACAGTGATG+AGG 0.672865 7.3:+15331336 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATAAGTTGAAAATATTTTA+TGG - chr7.3:15330941-15330960 MS.gene46300:intron 10.0%
!! AAATAGTAGAATGAAGAATA+TGG + chr7.3:15331139-15331158 None:intergenic 20.0%
!! AATCAGTTTATACACTTTAT+AGG - chr7.3:15330848-15330867 MS.gene46300:CDS 20.0%
!! GATAACGAATAATCATAAAA+TGG + chr7.3:15330780-15330799 None:intergenic 20.0%
!! GCAAGTAAATAAACATAAAA+CGG + chr7.3:15330515-15330534 None:intergenic 20.0%
!!! ATTTGTTATGTTAGTTAACT+TGG - chr7.3:15331077-15331096 MS.gene46300:CDS 20.0%
!!! TTTGTTATGTTAGTTAACTT+GGG - chr7.3:15331078-15331097 MS.gene46300:CDS 20.0%
!!! TTTTTTCATAAGCTATTATG+CGG - chr7.3:15330909-15330928 MS.gene46300:CDS 20.0%
! ACTGCATTAATTGTTAGATA+TGG - chr7.3:15330999-15331018 MS.gene46300:intron 25.0%
! ATGAAGAATATGGTTCAATT+AGG + chr7.3:15331129-15331148 None:intergenic 25.0%
! ATTCAACCTTAACAAACATA+TGG + chr7.3:15330802-15330821 None:intergenic 25.0%
! ATTCATTTACACGAATTGAA+TGG - chr7.3:15331232-15331251 MS.gene46300:CDS 25.0%
! CATTAATTGTTAGATATGGT+AGG - chr7.3:15331003-15331022 MS.gene46300:intron 25.0%
! GAGTTAATGTTATTCAATTC+AGG - chr7.3:15331284-15331303 MS.gene46300:CDS 25.0%
! GTTAGAAGTTAGTTATGATT+AGG - chr7.3:15331049-15331068 MS.gene46300:CDS 25.0%
! TGAAGAATATGGTTCAATTA+GGG + chr7.3:15331128-15331147 None:intergenic 25.0%
! TTGAATTTGATGTTACAGAT+TGG - chr7.3:15330626-15330645 MS.gene46300:intron 25.0%
! TTGATTCACATACTCAAATA+TGG + chr7.3:15330654-15330673 None:intergenic 25.0%
!! AAGAGATTAGTTATTTACAG+CGG + chr7.3:15330558-15330577 None:intergenic 25.0%
!! CTCAATTTATTTCTCTTAGT+CGG - chr7.3:15331169-15331188 MS.gene46300:CDS 25.0%
!! TCAATTTATTTCTCTTAGTC+GGG - chr7.3:15331170-15331189 MS.gene46300:CDS 25.0%
ACTAACTTCTAACTACCTTA+AGG + chr7.3:15331042-15331061 None:intergenic 30.0%
AGAAGTTAGTTATGATTAGG+TGG - chr7.3:15331052-15331071 MS.gene46300:CDS 30.0%
ATGAAAGTAATTACCGAAGT+GGG + chr7.3:15330755-15330774 None:intergenic 30.0%
CGATGAAAAAATACCTTCAT+GGG - chr7.3:15330400-15330419 MS.gene46300:intron 30.0%
! CGTTATCCATATGTTTGTTA+AGG - chr7.3:15330793-15330812 MS.gene46300:intron 30.0%
!!! CCATGAAGGTATTTTTTCAT+CGG + chr7.3:15330402-15330421 None:intergenic 30.0%
!!! TGGTGATTTTTTGTTACTGA+GGG + chr7.3:15330327-15330346 None:intergenic 30.0%
AACTTGGGATCACTGTATAA+AGG - chr7.3:15331093-15331112 MS.gene46300:CDS 35.0%
AATGCAGTTTGCATGAACTA+TGG + chr7.3:15330987-15331006 None:intergenic 35.0%
ATCAACATTGTTGAGAAGCA+TGG + chr7.3:15331201-15331220 None:intergenic 35.0%
CCGATGAAAAAATACCTTCA+TGG - chr7.3:15330399-15330418 MS.gene46300:intron 35.0%
GAATATGGTTCAATTAGGGT+AGG + chr7.3:15331124-15331143 None:intergenic 35.0%
GATGAAAGTAATTACCGAAG+TGG + chr7.3:15330756-15330775 None:intergenic 35.0%
GTAACAAAAAATCACCACAC+AGG - chr7.3:15330330-15330349 MS.gene46300:intron 35.0%
GTTTATACACTTTATAGGCC+TGG - chr7.3:15330853-15330872 MS.gene46300:CDS 35.0%
! GGAGATTTGTTTAAGCCTTA+AGG - chr7.3:15331024-15331043 MS.gene46300:intron 35.0%
!! AAGAAGAAGTGGGTTTGTTT+TGG + chr7.3:15330472-15330491 None:intergenic 35.0%
!! AGAAGAAGTGGGTTTGTTTT+GGG + chr7.3:15330471-15330490 None:intergenic 35.0%
!!! GTGGTGATTTTTTGTTACTG+AGG + chr7.3:15330328-15330347 None:intergenic 35.0%
AACAAACCCACTTCTTCTTC+TGG - chr7.3:15330473-15330492 MS.gene46300:intron 40.0%
AAGGCGAAAAAACCAAGCAA+AGG + chr7.3:15330722-15330741 None:intergenic 40.0%
ACACTTTATAGGCCTGGTTT+GGG - chr7.3:15330859-15330878 MS.gene46300:CDS 40.0%
ACATACAGTTGACAGTGATG+AGG + chr7.3:15330237-15330256 None:intergenic 40.0%
GTGAATCAAAAGCCAGTGTT+TGG - chr7.3:15330665-15330684 MS.gene46300:intron 40.0%
TACACTTTATAGGCCTGGTT+TGG - chr7.3:15330858-15330877 MS.gene46300:CDS 40.0%
! ACCACACAGGTTTTTAACAG+TGG - chr7.3:15330343-15330362 MS.gene46300:intron 40.0%
! GTTTTCTATGCTCCTTTGCT+TGG - chr7.3:15330707-15330726 MS.gene46300:intron 40.0%
AACAGACTTGAACCACAGGA+AGG + chr7.3:15331310-15331329 None:intergenic 45.0%
AAGCTGAGGAACAAGACAAG+AGG - chr7.3:15331346-15331365 MS.gene46300:CDS 45.0%
AATTACCGAAGTGGGAACAC+CGG + chr7.3:15330747-15330766 None:intergenic 45.0%
ACATAGGGGAATGCCTAGAA+AGG + chr7.3:15330294-15330313 None:intergenic 45.0%
AGCTGAGGAACAAGACAAGA+GGG - chr7.3:15331347-15331366 MS.gene46300:CDS 45.0%
AGTTGACAGTGATGAGGAGA+AGG + chr7.3:15330231-15330250 None:intergenic 45.0%
ATTCAATTCAGGCCTTCCTG+TGG - chr7.3:15331295-15331314 MS.gene46300:CDS 45.0%
CCTTGTCCAGAAGAAGAAGT+GGG + chr7.3:15330482-15330501 None:intergenic 45.0%
CTTGAACAGACTTGAACCAC+AGG + chr7.3:15331314-15331333 None:intergenic 45.0%
GAGCTCAAAACTCCAAACAC+TGG + chr7.3:15330680-15330699 None:intergenic 45.0%
GCCACTGTTAAAAACCTGTG+TGG + chr7.3:15330347-15330366 None:intergenic 45.0%
GGAATGCCTAGAAAGGTTGT+GGG + chr7.3:15330287-15330306 None:intergenic 45.0%
TCACAACCCACAACCTTTCT+AGG - chr7.3:15330278-15330297 MS.gene46300:intron 45.0%
TCCTTGTCCAGAAGAAGAAG+TGG + chr7.3:15330483-15330502 None:intergenic 45.0%
TTAACAGTGGCAGTGACCAA+AGG - chr7.3:15330356-15330375 MS.gene46300:intron 45.0%
TTGTTCCTCAGCTTCCTTGT+TGG + chr7.3:15331340-15331359 None:intergenic 45.0%
TTTATCTCACCACCCAAACC+AGG + chr7.3:15330874-15330893 None:intergenic 45.0%
! AGGGACGTTTTCTGACATAG+GGG + chr7.3:15330308-15330327 None:intergenic 45.0%
! GAGGGACGTTTTCTGACATA+GGG + chr7.3:15330309-15330328 None:intergenic 45.0%
! TGAGGGACGTTTTCTGACAT+AGG + chr7.3:15330310-15330329 None:intergenic 45.0%
! TTGTGGGTTGTGATGCATGT+CGG + chr7.3:15330271-15330290 None:intergenic 45.0%
!!! CTTGGTTTTTTCGCCTTCAC+CGG - chr7.3:15330725-15330744 MS.gene46300:intron 45.0%
ACTCAGAAGAACCTCCTCCA+TGG - chr7.3:15330432-15330451 MS.gene46300:intron 50.0%
ACTTGACTCTGCTGAGCCTT+TGG + chr7.3:15330375-15330394 None:intergenic 50.0%
CCCACTTCTTCTTCTGGACA+AGG - chr7.3:15330479-15330498 MS.gene46300:intron 50.0%
CTCAGAAGAACCTCCTCCAT+GGG - chr7.3:15330433-15330452 MS.gene46300:intron 50.0%
GAGGAACAAGACAAGAGGGA+TGG - chr7.3:15331351-15331370 MS.gene46300:CDS 50.0%
GGCAATTGCAGTGATAGCAG+AGG + chr7.3:15330537-15330556 None:intergenic 50.0%
GGGAATGCCTAGAAAGGTTG+TGG + chr7.3:15330288-15330307 None:intergenic 50.0%
GTCTGTTCAAGCAGCCAACA+AGG - chr7.3:15331323-15331342 MS.gene46300:CDS 50.0%
! GCTTCATTTTGAGCCCATGG+AGG + chr7.3:15330449-15330468 None:intergenic 50.0%
! TCATTTTGAGCCCATGGAGG+AGG + chr7.3:15330446-15330465 None:intergenic 50.0%
! TGGGCTTCATTTTGAGCCCA+TGG + chr7.3:15330452-15330471 None:intergenic 50.0%
!! CTTTATAGGCCTGGTTTGGG+TGG - chr7.3:15330862-15330881 MS.gene46300:CDS 50.0%
AGCAGCCAACAAGGAAGCTG+AGG - chr7.3:15331332-15331351 MS.gene46300:CDS 55.0%
CTTCACCGGTGTTCCCACTT+CGG - chr7.3:15330739-15330758 MS.gene46300:intron 55.0%
GAGTCAGGCTTAGCCCATGA+AGG + chr7.3:15330416-15330435 None:intergenic 55.0%
GGAGGAGGTTCTTCTGAGTC+AGG + chr7.3:15330431-15330450 None:intergenic 55.0%
CGAAGTGGGAACACCGGTGA+AGG + chr7.3:15330741-15330760 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 15330212 15331380 15330212 ID=MS.gene46300
chr7.3 mRNA 15330212 15331380 15330212 ID=MS.gene46300.t1;Parent=MS.gene46300
chr7.3 exon 15331033 15331380 15331033 ID=MS.gene46300.t1.exon1;Parent=MS.gene46300.t1
chr7.3 CDS 15331033 15331380 15331033 ID=cds.MS.gene46300.t1;Parent=MS.gene46300.t1
chr7.3 exon 15330832 15330948 15330832 ID=MS.gene46300.t1.exon2;Parent=MS.gene46300.t1
chr7.3 CDS 15330832 15330948 15330832 ID=cds.MS.gene46300.t1;Parent=MS.gene46300.t1
chr7.3 exon 15330212 15330286 15330212 ID=MS.gene46300.t1.exon3;Parent=MS.gene46300.t1
chr7.3 CDS 15330212 15330286 15330212 ID=cds.MS.gene46300.t1;Parent=MS.gene46300.t1
Gene Sequence

>MS.gene46300

ATGGCAGTAGCTGCTACCTTCTCCTCATCACTGTCAACTGTATGTTTGTTACAAAACCGACATGCATCACAACCCACAACCTTTCTAGGCATTCCCCTATGTCAGAAAACGTCCCTCAGTAACAAAAAATCACCACACAGGTTTTTAACAGTGGCAGTGACCAAAGGCTCAGCAGAGTCAAGTAAATCCGATGAAAAAATACCTTCATGGGCTAAGCCTGACTCAGAAGAACCTCCTCCATGGGCTCAAAATGAAGCCCAAAACAAACCCACTTCTTCTTCTGGACAAGGATTTGTTATTCCGTTTTATGTTTATTTACTTGCCTCTGCTATCACTGCAATTGCCGCTGTAAATAACTAATCTCTTTTCTCTTTTTACTTTTCTGCTACTTTTGTAACTGTGTTATATGATGTTTTGAATTTGATGTTACAGATTGGTTCCATATTTGAGTATGTGAATCAAAAGCCAGTGTTTGGAGTTTTGAGCTCTGATAGTGTTTTCTATGCTCCTTTGCTTGGTTTTTTCGCCTTCACCGGTGTTCCCACTTCGGTAATTACTTTCATCACCATTTTATGATTATTCGTTATCCATATGTTTGTTAAGGTTGAATGTAATAATAATCTACTTAATTTGTGAAATCAGTTTATACACTTTATAGGCCTGGTTTGGGTGGTGAGATAAAATAATGTCTTAATATTTTTTTCATAAGCTATTATGCGGACTTGTGAAAATAAGTTGAAAATATTTTATGGACAAGTGTTTATGTGAATGACCATAGTTCATGCAAACTGCATTAATTGTTAGATATGGTAGGAGATTTGTTTAAGCCTTAAGGTAGTTAGAAGTTAGTTATGATTAGGTGGAAATTTGTTATGTTAGTTAACTTGGGATCACTGTATAAAGGTGTATCCTACCCTAATTGAACCATATTCTTCATTCTACTATTTTTAAAATTCTCTCAATTTATTTCTCTTAGTCGGGCTCAACCATGCTTCTCAACAATGTTGATATGAGATAGTTATTCATTTACACGAATTGAATGGCATTTTAGTTGAATCTTTTGTGAGCTAATGAGTTAATGTTATTCAATTCAGGCCTTCCTGTGGTTCAAGTCTGTTCAAGCAGCCAACAAGGAAGCTGAGGAACAAGACAAGAGGGATGGTTATTAA

Protein sequence

>MS.gene46300.t1

MAVAATFSSSLSTVCLLQNRHASQPTTFLGIPLCQKTSLSNKKSPHRFLTVAVTKGSAESSKSDEKIPSWAKPDSEEPPPWAQNEAQNKPTSSSGQGFVIPFYVYLLASAITAIAAIGSIFEYVNQKPVFGVLSSDSVFYAPLLGFFAFTGVPTSAFLWFKSVQAANKEAEEQDKRDGY