AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene033121


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene033121.t1 MTR_0140s0010 59.361 219 34 6 30 210 1 202 8.94e-71 215
MS.gene033121.t1 MTR_3g435550 49.275 138 57 4 82 210 5 138 8.03e-34 119
MS.gene033121.t1 MTR_3g091700 57.534 73 28 2 133 203 159 230 4.44e-18 80.1
MS.gene033121.t1 MTR_5g024070 36.220 127 61 4 85 202 169 284 3.12e-17 79.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene033121.t1 AT1G18790 68.966 87 26 1 125 210 125 211 1.03e-32 119
MS.gene033121.t1 AT1G74480 38.967 213 110 6 16 210 8 218 4.02e-31 115
MS.gene033121.t1 AT5G66990 58.242 91 36 2 122 210 153 243 6.94e-26 101
MS.gene033121.t1 AT5G53040 61.905 63 24 0 133 195 153 215 1.15e-19 84.3
MS.gene033121.t1 AT4G35590 34.483 116 75 1 92 207 157 271 1.10e-15 74.7
MS.gene033121.t1 AT4G35590 34.483 116 75 1 92 207 207 321 1.41e-15 74.7
MS.gene033121.t1 AT5G16100 40.909 88 50 1 125 210 351 438 2.24e-14 71.2

Find 50 sgRNAs with CRISPR-Local

Find 94 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTCTTGCAGCTTGTGTTAT+TGG 0.135392 8.2:+17307109 None:intergenic
TGACTTACATGTTAGGAAAT+TGG 0.240258 8.2:+17307726 None:intergenic
GTTGATGGATATCGAGAAAT+TGG 0.245834 8.2:-17306816 MS.gene033121:CDS
AATTGGCGGTTATATGAAAA+TGG 0.251270 8.2:+17307743 None:intergenic
AACCTTGATCAATAATATTC+AGG 0.325902 8.2:-17306999 MS.gene033121:intron
CTGCAGACGACTATGAAATT+TGG 0.367816 8.2:-17307321 MS.gene033121:intron
ACTTAGTGTTGAAAAGTTGA+TGG 0.379342 8.2:-17306831 MS.gene033121:CDS
TATTATTGATCAAGGTTTGC+AGG 0.383508 8.2:+17307005 None:intergenic
ACCCATACACAATGATGGTT+TGG 0.385554 8.2:-17307581 MS.gene033121:CDS
TTCCAAACCATCATTGTGTA+TGG 0.398088 8.2:+17307579 None:intergenic
ACACAATGATGGTTTGGAAC+TGG 0.400074 8.2:-17307575 MS.gene033121:CDS
AGTTTCATGACTTACATGTT+AGG 0.403480 8.2:+17307719 None:intergenic
TACCTGAATATTATTGATCA+AGG 0.420609 8.2:+17306997 None:intergenic
TATGGTATGGAGAAAGGATT+TGG 0.421835 8.2:-17307298 MS.gene033121:CDS
TGATGATAACCTTCCAGCCT+TGG 0.426088 8.2:+17307490 None:intergenic
TGAAATTAACAAAGAGGTTG+TGG 0.431311 8.2:-17307218 MS.gene033121:CDS
GGCATTGGTTCAATGTATAG+AGG 0.437542 8.2:+17307511 None:intergenic
ATTTGGTATGGTATGGAGAA+AGG 0.442668 8.2:-17307304 MS.gene033121:CDS
TGTATAGAGGGTGATGATGA+GGG 0.456423 8.2:+17307524 None:intergenic
AGAGTATGCCACTTACTTGT+TGG 0.466970 8.2:-17307793 MS.gene033121:CDS
CATTGAACCAATGCCAAGGC+TGG 0.480155 8.2:-17307503 MS.gene033121:CDS
CTATGAAATTTGGTATGGTA+TGG 0.481213 8.2:-17307311 MS.gene033121:CDS
GTTGCAGGAGCTAGGGAAAG+AGG 0.496134 8.2:-17306861 MS.gene033121:intron
TGGATTTGGTTGCAGGAGCT+AGG 0.503102 8.2:-17306869 MS.gene033121:intron
GGAGTGGAGAGGATTAGTGA+TGG 0.512454 8.2:-17307181 MS.gene033121:CDS
GGATTTGGTTGCAGGAGCTA+GGG 0.512821 8.2:-17306868 MS.gene033121:intron
GGAGGTAAAGCTAGAAGGAG+TGG 0.514082 8.2:-17307197 MS.gene033121:CDS
ATGTATAGAGGGTGATGATG+AGG 0.517675 8.2:+17307523 None:intergenic
GTTGTGGAGGTAAAGCTAGA+AGG 0.522008 8.2:-17307202 MS.gene033121:CDS
TAAAAGCTCCAACAAGTAAG+TGG 0.525627 8.2:+17307785 None:intergenic
TAACCTTCCAGCCTTGGCAT+TGG 0.526844 8.2:+17307496 None:intergenic
TATTCACCCATACACAATGA+TGG 0.527857 8.2:-17307586 MS.gene033121:CDS
GGATATCGAGAAATTGGAAG+AGG 0.537710 8.2:-17306810 MS.gene033121:CDS
GACGACTATGAAATTTGGTA+TGG 0.546215 8.2:-17307316 MS.gene033121:CDS
CTTACATGTTAGGAAATTGG+CGG 0.547072 8.2:+17307729 None:intergenic
ATTGGAAGAGGAAATGAAGC+TGG 0.556172 8.2:-17306798 MS.gene033121:intron
TAAAGCTAGAAGGAGTGGAG+AGG 0.578999 8.2:-17307192 MS.gene033121:CDS
GAACCAATGCCAAGGCTGGA+AGG 0.579018 8.2:-17307499 MS.gene033121:intron
GTATAGAGGGTGATGATGAG+GGG 0.582910 8.2:+17307525 None:intergenic
TCCAAACCATCATTGTGTAT+GGG 0.593952 8.2:+17307580 None:intergenic
GCATTGGTTCAATGTATAGA+GGG 0.595733 8.2:+17307512 None:intergenic
TGGAAATGAAATTAACAAAG+AGG 0.597270 8.2:-17307224 MS.gene033121:CDS
AGCTGCAAGAGAACTGAATG+TGG 0.601755 8.2:-17307098 MS.gene033121:CDS
GTAGGGAGTTGGGTATTCGT+AGG 0.615855 8.2:-17307051 MS.gene033121:CDS
AATTAACAAAGAGGTTGTGG+AGG 0.641037 8.2:-17307215 MS.gene033121:CDS
GCTGCAAGAGAACTGAATGT+GGG 0.643443 8.2:-17307097 MS.gene033121:CDS
GGGAGTTGGGTATTCGTAGG+TGG 0.654663 8.2:-17307048 MS.gene033121:CDS
GTAACACAAAGAATTTGTCA+AGG 0.655690 8.2:-17307159 MS.gene033121:CDS
CAGGAGCTAGGGAAAGAGGA+TGG 0.660990 8.2:-17306857 MS.gene033121:CDS
TATACATTGAACCAATGCCA+AGG 0.667387 8.2:-17307507 MS.gene033121:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTATTCTCATTTTAAATTT+TGG - chr8.2:17306958-17306977 MS.gene033121:intron 10.0%
!!! AATTTATTTAATTTTTGCAG+TGG - chr8.2:17306755-17306774 MS.gene033121:intron 15.0%
!!! AGTTTTTTGTTTTTGTTTAT+GGG - chr8.2:17307733-17307752 MS.gene033121:intron 15.0%
!!! TAGTTTTTTGTTTTTGTTTA+TGG - chr8.2:17307732-17307751 MS.gene033121:intron 15.0%
!! ATGTACATTGATAAAAAAAC+AGG + chr8.2:17307788-17307807 None:intergenic 20.0%
!! CATATAAAAATACTGAGATA+TGG + chr8.2:17307248-17307267 None:intergenic 20.0%
!! CATGCAAAAATTTATTACTT+CGG - chr8.2:17306713-17306732 MS.gene033121:intron 20.0%
!!! AACATTATGTTGATTGTTTA+TGG - chr8.2:17307471-17307490 MS.gene033121:intron 20.0%
!!! GTTTTTTGTTTTTGTTTATG+GGG - chr8.2:17307734-17307753 MS.gene033121:CDS 20.0%
! AACCTTGATCAATAATATTC+AGG - chr8.2:17307378-17307397 MS.gene033121:intron 25.0%
! CTTATAAATAATTGGGAATG+TGG + chr8.2:17306926-17306945 None:intergenic 25.0%
! TACCTGAATATTATTGATCA+AGG + chr8.2:17307383-17307402 None:intergenic 25.0%
! TGAGTATATTATGTTGGATT+TGG - chr8.2:17307494-17307513 MS.gene033121:intron 25.0%
! TGGAAATGAAATTAACAAAG+AGG - chr8.2:17307153-17307172 MS.gene033121:CDS 25.0%
! TGTTCTTCTGATTAAAATTG+TGG - chr8.2:17307033-17307052 MS.gene033121:CDS 25.0%
! TTACAAGAAAAGAAAGCTTA+TGG - chr8.2:17307672-17307691 MS.gene033121:intron 25.0%
! TTATGGTGAGTATATTATGT+TGG - chr8.2:17307488-17307507 MS.gene033121:intron 25.0%
!! AAGCTTTCTTTTCTTGTAAT+TGG + chr8.2:17307671-17307690 None:intergenic 25.0%
!! CGAAGTAATAAATTTTTGCA+TGG + chr8.2:17306715-17306734 None:intergenic 25.0%
!!! CTCATTTTAAATTTTGGTTG+CGG - chr8.2:17306964-17306983 MS.gene033121:intron 25.0%
AATTGCAAGATCATACCAAA+AGG - chr8.2:17307623-17307642 MS.gene033121:intron 30.0%
AATTGGCGGTTATATGAAAA+TGG + chr8.2:17306637-17306656 None:intergenic 30.0%
ACATTTGAAAAAACGGTGTA+GGG - chr8.2:17307309-17307328 MS.gene033121:CDS 30.0%
AGTTTCATGACTTACATGTT+AGG + chr8.2:17306661-17306680 None:intergenic 30.0%
CTATGAAATTTGGTATGGTA+TGG - chr8.2:17307066-17307085 MS.gene033121:CDS 30.0%
GTAACACAAAGAATTTGTCA+AGG - chr8.2:17307218-17307237 MS.gene033121:CDS 30.0%
TATTATTGATCAAGGTTTGC+AGG + chr8.2:17307375-17307394 None:intergenic 30.0%
TGAAATTAACAAAGAGGTTG+TGG - chr8.2:17307159-17307178 MS.gene033121:CDS 30.0%
TGACTTACATGTTAGGAAAT+TGG + chr8.2:17306654-17306673 None:intergenic 30.0%
TGATCTTGCAATTGTATATC+TGG + chr8.2:17307616-17307635 None:intergenic 30.0%
! ACTTAGTGTTGAAAAGTTGA+TGG - chr8.2:17307546-17307565 MS.gene033121:CDS 30.0%
!! GCTTAGACAACATTGTTTTA+AGG - chr8.2:17307645-17307664 MS.gene033121:intron 30.0%
!!! GTTTTAAGGCATATGGATTA+TGG - chr8.2:17307708-17307727 MS.gene033121:intron 30.0%
!!! TGATCATGTTTTAAGGCATA+TGG - chr8.2:17307701-17307720 MS.gene033121:intron 30.0%
!!! TTTGTTTTTGTTTATGGGGT+GGG - chr8.2:17307738-17307757 MS.gene033121:CDS 30.0%
!!! TTTTGTTTTTGTTTATGGGG+TGG - chr8.2:17307737-17307756 MS.gene033121:CDS 30.0%
AATTAACAAAGAGGTTGTGG+AGG - chr8.2:17307162-17307181 MS.gene033121:CDS 35.0%
ATTTGGTATGGTATGGAGAA+AGG - chr8.2:17307073-17307092 MS.gene033121:CDS 35.0%
CACATTTGAAAAAACGGTGT+AGG - chr8.2:17307308-17307327 MS.gene033121:CDS 35.0%
CTTACATGTTAGGAAATTGG+CGG + chr8.2:17306651-17306670 None:intergenic 35.0%
GACGACTATGAAATTTGGTA+TGG - chr8.2:17307061-17307080 MS.gene033121:CDS 35.0%
GCCTCACACATTTGAAAAAA+CGG - chr8.2:17307302-17307321 MS.gene033121:CDS 35.0%
TAAAAGCTCCAACAAGTAAG+TGG + chr8.2:17306595-17306614 None:intergenic 35.0%
TATACATTGAACCAATGCCA+AGG - chr8.2:17306870-17306889 MS.gene033121:intron 35.0%
TATGGTATGGAGAAAGGATT+TGG - chr8.2:17307079-17307098 MS.gene033121:CDS 35.0%
TATTCACCCATACACAATGA+TGG - chr8.2:17306791-17306810 MS.gene033121:intron 35.0%
TCCAAACCATCATTGTGTAT+GGG + chr8.2:17306800-17306819 None:intergenic 35.0%
TTCCAAACCATCATTGTGTA+TGG + chr8.2:17306801-17306820 None:intergenic 35.0%
! ACAATGTTGTCTAAGCCTTT+TGG + chr8.2:17307641-17307660 None:intergenic 35.0%
! ATTATGTTGGATTTGGTTGC+AGG - chr8.2:17307501-17307520 MS.gene033121:CDS 35.0%
! GATCAGCTGATCATGTTTTA+AGG - chr8.2:17307694-17307713 MS.gene033121:intron 35.0%
! GCGTTTGATTCTGAAAAAAG+TGG - chr8.2:17307133-17307152 MS.gene033121:CDS 35.0%
! GTTGATGGATATCGAGAAAT+TGG - chr8.2:17307561-17307580 MS.gene033121:CDS 35.0%
!! GCATTGGTTCAATGTATAGA+GGG + chr8.2:17306868-17306887 None:intergenic 35.0%
!!! ACCGTTTTTTCAAATGTGTG+AGG + chr8.2:17307306-17307325 None:intergenic 35.0%
AAAAAACGGTGTAGGGAGTT+GGG - chr8.2:17307316-17307335 MS.gene033121:CDS 40.0%
ACCCATACACAATGATGGTT+TGG - chr8.2:17306796-17306815 MS.gene033121:intron 40.0%
ATTGGAAGAGGAAATGAAGC+TGG - chr8.2:17307579-17307598 MS.gene033121:CDS 40.0%
CTGCAGACGACTATGAAATT+TGG - chr8.2:17307056-17307075 MS.gene033121:CDS 40.0%
GGATATCGAGAAATTGGAAG+AGG - chr8.2:17307567-17307586 MS.gene033121:CDS 40.0%
TCTCTTGCAGCTTGTGTTAT+TGG + chr8.2:17307271-17307290 None:intergenic 40.0%
TTGGGAATGTGGCATGTATA+TGG + chr8.2:17306915-17306934 None:intergenic 40.0%
! ACACAATGATGGTTTGGAAC+TGG - chr8.2:17306802-17306821 MS.gene033121:CDS 40.0%
! AGAGTATGCCACTTACTTGT+TGG - chr8.2:17306584-17306603 MS.gene033121:intron 40.0%
! AGGCTCATGAGTTTTCTATG+GGG + chr8.2:17307355-17307374 None:intergenic 40.0%
! ATGTATAGAGGGTGATGATG+AGG + chr8.2:17306857-17306876 None:intergenic 40.0%
! CAGGCTCATGAGTTTTCTAT+GGG + chr8.2:17307356-17307375 None:intergenic 40.0%
! TGTATAGAGGGTGATGATGA+GGG + chr8.2:17306856-17306875 None:intergenic 40.0%
!! GGCATTGGTTCAATGTATAG+AGG + chr8.2:17306869-17306888 None:intergenic 40.0%
AGCTGCAAGAGAACTGAATG+TGG - chr8.2:17307279-17307298 MS.gene033121:CDS 45.0%
GAAAAAACGGTGTAGGGAGT+TGG - chr8.2:17307315-17307334 MS.gene033121:CDS 45.0%
GCTGCAAGAGAACTGAATGT+GGG - chr8.2:17307280-17307299 MS.gene033121:CDS 45.0%
GTTGTGGAGGTAAAGCTAGA+AGG - chr8.2:17307175-17307194 MS.gene033121:CDS 45.0%
TAAAGCTAGAAGGAGTGGAG+AGG - chr8.2:17307185-17307204 MS.gene033121:CDS 45.0%
TGATGATAACCTTCCAGCCT+TGG + chr8.2:17306890-17306909 None:intergenic 45.0%
! GCAGGCTCATGAGTTTTCTA+TGG + chr8.2:17307357-17307376 None:intergenic 45.0%
! GTATAGAGGGTGATGATGAG+GGG + chr8.2:17306855-17306874 None:intergenic 45.0%
!! ATATAAACTTATAAATAATT+GGG + chr8.2:17306933-17306952 None:intergenic 5.0%
!! TATATAAACTTATAAATAAT+TGG + chr8.2:17306934-17306953 None:intergenic 5.0%
!!! GTTATTATTATTATTATTTT+TGG + chr8.2:17307454-17307473 None:intergenic 5.0%
AGAGGAAATGAAGCTGGTGG+AGG - chr8.2:17307585-17307604 MS.gene033121:CDS 50.0%
ATGGGGTGGGCATGTTATTG+TGG - chr8.2:17307751-17307770 MS.gene033121:CDS 50.0%
CATTGAACCAATGCCAAGGC+TGG - chr8.2:17306874-17306893 MS.gene033121:intron 50.0%
GGAAGAGGAAATGAAGCTGG+TGG - chr8.2:17307582-17307601 MS.gene033121:CDS 50.0%
GGAGGTAAAGCTAGAAGGAG+TGG - chr8.2:17307180-17307199 MS.gene033121:CDS 50.0%
GTAGGGAGTTGGGTATTCGT+AGG - chr8.2:17307326-17307345 MS.gene033121:intron 50.0%
TAACCTTCCAGCCTTGGCAT+TGG + chr8.2:17306884-17306903 None:intergenic 50.0%
! GGAGTGGAGAGGATTAGTGA+TGG - chr8.2:17307196-17307215 MS.gene033121:CDS 50.0%
! GGATTTGGTTGCAGGAGCTA+GGG - chr8.2:17307509-17307528 MS.gene033121:CDS 50.0%
! TGGATTTGGTTGCAGGAGCT+AGG - chr8.2:17307508-17307527 MS.gene033121:CDS 50.0%
CAGGAGCTAGGGAAAGAGGA+TGG - chr8.2:17307520-17307539 MS.gene033121:CDS 55.0%
GAACCAATGCCAAGGCTGGA+AGG - chr8.2:17306878-17306897 MS.gene033121:intron 55.0%
GGGAGTTGGGTATTCGTAGG+TGG - chr8.2:17307329-17307348 MS.gene033121:intron 55.0%
GTTGCAGGAGCTAGGGAAAG+AGG - chr8.2:17307516-17307535 MS.gene033121:CDS 55.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 17306580 17307819 17306580 ID=MS.gene033121
chr8.2 mRNA 17306580 17307819 17306580 ID=MS.gene033121.t1;Parent=MS.gene033121
chr8.2 exon 17307734 17307819 17307734 ID=MS.gene033121.t1.exon1;Parent=MS.gene033121.t1
chr8.2 CDS 17307734 17307819 17307734 ID=cds.MS.gene033121.t1;Parent=MS.gene033121.t1
chr8.2 exon 17307500 17307624 17307500 ID=MS.gene033121.t1.exon2;Parent=MS.gene033121.t1
chr8.2 CDS 17307500 17307624 17307500 ID=cds.MS.gene033121.t1;Parent=MS.gene033121.t1
chr8.2 exon 17307000 17307337 17307000 ID=MS.gene033121.t1.exon3;Parent=MS.gene033121.t1
chr8.2 CDS 17307000 17307337 17307000 ID=cds.MS.gene033121.t1;Parent=MS.gene033121.t1
chr8.2 exon 17306799 17306876 17306799 ID=MS.gene033121.t1.exon4;Parent=MS.gene033121.t1
chr8.2 CDS 17306799 17306876 17306799 ID=cds.MS.gene033121.t1;Parent=MS.gene033121.t1
chr8.2 exon 17306580 17306585 17306580 ID=MS.gene033121.t1.exon5;Parent=MS.gene033121.t1
chr8.2 CDS 17306580 17306585 17306580 ID=cds.MS.gene033121.t1;Parent=MS.gene033121.t1
Gene Sequence

>MS.gene033121

ATGGAGAGTATGCCACTTACTTGTTGGAGCTTTTACAATGACATAGATGAAAAGCCATTTTCATATAACCGCCAATTTCCTAACATGTAAGTCATGAAACTTGTGTTTACATCTCTTTTTTACATTATGTTGCCATGCAAAAATTTATTACTTCGGTTTTTGAGTACTCATTAGAAATTTATTTAATTTTTGCAGTGGAATCATTAGTGAGTATTCACCCATACACAATGATGGTTTGGAACTGGATTTTGATTCTCTTATGAAGTGTAATTCCCCTCATCATCACCCTCTATACATTGAACCAATGCCAAGGCTGGAAGGTTATCATCAAACCATATACATGCCACATTCCCAATTATTTATAAGTTTATATATTCTATTATTCTCATTTTAAATTTTGGTTGCGGTAATGATTGCAAACTTTTATATTGTAATAAATACAAAGCAATTATATGTTCTTCTGATTAAAATTGTGGCTGCAGACGACTATGAAATTTGGTATGGTATGGAGAAAGGATTTGGTGACTTGAGCGAAATGATCGATGATTATGCAGCGTTTGATTCTGAAAAAAGTGGAAATGAAATTAACAAAGAGGTTGTGGAGGTAAAGCTAGAAGGAGTGGAGAGGATTAGTGATGGTAACACAAAGAATTTGTCAAGGAAGACCATATCTCAGTATTTTTATATGCCAATAACACAAGCTGCAAGAGAACTGAATGTGGGCCTCACACATTTGAAAAAACGGTGTAGGGAGTTGGGTATTCGTAGGTGGCCCCATAGAAAACTCATGAGCCTGCAAACCTTGATCAATAATATTCAGGTACTTGAAAAAGAAACTTTTTAGTATATAAATGTCATTATGTTGTTGTTACCAAAAATAATAATAATAATAACATTATGTTGATTGTTTATGGTGAGTATATTATGTTGGATTTGGTTGCAGGAGCTAGGGAAAGAGGATGGTCTACTTAGTGTTGAAAAGTTGATGGATATCGAGAAATTGGAAGAGGAAATGAAGCTGGTGGAGGAGATGCCAGATATACAATTGCAAGATCATACCAAAAGGCTTAGACAACATTGTTTTAAGGCCAATTACAAGAAAAGAAAGCTTATGGATCAGCTGATCATGTTTTAAGGCATATGGATTATGGATAGTTTTTTGTTTTTGTTTATGGGGTGGGCATGTTATTGTGGACAATCTTTGTCCTGTTTTTTTATCAATGTACATGTCCAGATTTGA

Protein sequence

>MS.gene033121.t1

MESMPLTCWSFYNDIDEKPFSYNRQFPNIGIISEYSPIHNDGLELDFDSLMKCNSPHHHPLYIEPMPRLEDDYEIWYGMEKGFGDLSEMIDDYAAFDSEKSGNEINKEVVEVKLEGVERISDGNTKNLSRKTISQYFYMPITQAARELNVGLTHLKKRCRELGIRRWPHRKLMSLQTLINNIQELGKEDGLLSVEKLMDIEKLEEEMKLI