AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene055623


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055623.t1 MTR_4g064903 100.000 98 0 0 1 98 1 98 7.47e-71 206
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055623.t1 AT5G59140 76.596 94 22 0 5 98 3 96 4.84e-51 155

Find 15 sgRNAs with CRISPR-Local

Find 57 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCTCAAGTATGTAGATAAT+TGG 0.305137 4.4:+41437698 None:intergenic
AAAGTTAATTCAGGTTCAAT+AGG 0.336432 4.4:+41437738 None:intergenic
ATTAACTCCAAAGTTAATTC+AGG 0.360632 4.4:+41437729 None:intergenic
CGCAACATGCTTACCTCTCC+AGG 0.383198 4.4:-41438515 MS.gene055623:intron
TATTGAACCTGAATTAACTT+TGG 0.389241 4.4:-41437736 MS.gene055623:CDS
ACAAATCTTCTCAAGAATAG+TGG 0.454935 4.4:+41438318 None:intergenic
ATTAACTTTGGAGTTAATGA+TGG 0.475652 4.4:-41437724 MS.gene055623:CDS
AGAATAGTGGAACTAATCTC+AGG 0.494240 4.4:+41438331 None:intergenic
ATTGGCATCTTGAATTTGCT+AGG 0.521974 4.4:-41438285 MS.gene055623:intron
AACAAAAGAAAAGATGAAGA+AGG 0.540972 4.4:-41438618 None:intergenic
CGTTGACAAAGAAGCTGCCA+TGG 0.556586 4.4:-41438552 MS.gene055623:CDS
AGAGGTAAGCATGTTGCGAA+TGG 0.589014 4.4:+41438520 None:intergenic
GTTAAACTGATCAGTTCCGA+TGG 0.614103 4.4:-41438587 MS.gene055623:CDS
GCGAATGGTTTGTGAAACCA+TGG 0.671918 4.4:+41438535 None:intergenic
AACGACGAATTCGAATCCAT+CGG 0.681941 4.4:+41438571 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAACACTAAAATAAAATTT+AGG + chr4.4:41438489-41438508 None:intergenic 10.0%
!! TAACACTAAAATAAAATTTA+GGG + chr4.4:41438488-41438507 None:intergenic 10.0%
!! AATGTAAACTAAAAATGGTA+AGG + chr4.4:41438319-41438338 None:intergenic 20.0%
!! AATTAGCGTTAATTCATATA+AGG - chr4.4:41437879-41437898 MS.gene055623:intron 20.0%
!!! AGATTTGTCAGTATTTTTAT+TGG - chr4.4:41438003-41438022 MS.gene055623:intron 20.0%
!!! CTAATCGAAAAAGTATAAAA+AGG + chr4.4:41437843-41437862 None:intergenic 20.0%
!!! TAGTTGTAAAAGTTTGTTTT+AGG - chr4.4:41438419-41438438 MS.gene055623:intron 20.0%
!!! TTTTTCGATTAGTTCAATTA+GGG - chr4.4:41437851-41437870 MS.gene055623:intron 20.0%
! ATAAAAAGGTAAAGTGATAG+AGG + chr4.4:41437829-41437848 None:intergenic 25.0%
! ATTAACTCCAAAGTTAATTC+AGG + chr4.4:41438580-41438599 None:intergenic 25.0%
! GGTCAAATGTAAACTAAAAA+TGG + chr4.4:41438324-41438343 None:intergenic 25.0%
! TATTGAACCTGAATTAACTT+TGG - chr4.4:41438570-41438589 MS.gene055623:CDS 25.0%
! TTTCTTGTTAGAATTGCAAT+TGG - chr4.4:41438060-41438079 MS.gene055623:intron 25.0%
!! AAAGTTAATTCAGGTTCAAT+AGG + chr4.4:41438571-41438590 None:intergenic 25.0%
!!! ATTAACTTTGGAGTTAATGA+TGG - chr4.4:41438582-41438601 MS.gene055623:CDS 25.0%
!!! CTTTTTCGATTAGTTCAATT+AGG - chr4.4:41437850-41437869 MS.gene055623:intron 25.0%
ACAAATCTTCTCAAGAATAG+TGG + chr4.4:41437991-41438010 None:intergenic 30.0%
TGAATTGCAATGAGAATGTT+TGG - chr4.4:41438137-41438156 MS.gene055623:intron 30.0%
!! TAGTGTTGATGTGTTTATGT+TGG - chr4.4:41438517-41438536 MS.gene055623:CDS 30.0%
!!! AGATGTGATCTGTTTTTGTT+AGG - chr4.4:41437915-41437934 MS.gene055623:intron 30.0%
!!! GATGTGATCTGTTTTTGTTA+GGG - chr4.4:41437916-41437935 MS.gene055623:intron 30.0%
CTAAAAATGGTAAGGTTGCT+TGG + chr4.4:41438311-41438330 None:intergenic 35.0%
TAGAGGAAGAAAAACAAACC+TGG + chr4.4:41437812-41437831 None:intergenic 35.0%
TTGTAAACAGTGTTCAACTC+CGG - chr4.4:41438207-41438226 MS.gene055623:intron 35.0%
! AGAATAGTGGAACTAATCTC+AGG + chr4.4:41437978-41437997 None:intergenic 35.0%
! ATTGGCATCTTGAATTTGCT+AGG - chr4.4:41438021-41438040 MS.gene055623:intron 35.0%
!!! GTTTATGTTGGTTTTGCTAG+TGG - chr4.4:41438529-41438548 MS.gene055623:CDS 35.0%
AACACTGTTTACAACGCATC+TGG + chr4.4:41438201-41438220 None:intergenic 40.0%
AACGACGAATTCGAATCCAT+CGG + chr4.4:41437738-41437757 None:intergenic 40.0%
ATGTGAATGTTTCCATGCCA+CGG + chr4.4:41438360-41438379 None:intergenic 40.0%
CACAAAAGCAATCACGAGAA+AGG + chr4.4:41438398-41438417 None:intergenic 40.0%
GAAGAAAAACAAACCTGGAG+AGG + chr4.4:41437807-41437826 None:intergenic 40.0%
GTTAAACTGATCAGTTCCGA+TGG - chr4.4:41437719-41437738 MS.gene055623:CDS 40.0%
TGTTAACCTTCGATTCCCAA+GGG + chr4.4:41438250-41438269 None:intergenic 40.0%
! AGTTTTGCTGAAAGGGAACA+CGG - chr4.4:41437939-41437958 MS.gene055623:intron 40.0%
! GTTAGGGAGTTTTGCTGAAA+GGG - chr4.4:41437932-41437951 MS.gene055623:intron 40.0%
! TGTTAGGGAGTTTTGCTGAA+AGG - chr4.4:41437931-41437950 MS.gene055623:intron 40.0%
!! CTTTCTCGTGATTGCTTTTG+TGG - chr4.4:41438396-41438415 MS.gene055623:intron 40.0%
!!! TGTTGGTTTTGCTAGTGGAA+AGG - chr4.4:41438534-41438553 MS.gene055623:CDS 40.0%
AGAGGTAAGCATGTTGCGAA+TGG + chr4.4:41437789-41437808 None:intergenic 45.0%
GTGTTAACCTTCGATTCCCA+AGG + chr4.4:41438251-41438270 None:intergenic 45.0%
TGTTCAACTCCGGATTACCA+GGG - chr4.4:41438217-41438236 MS.gene055623:intron 45.0%
! GCGAATGGTTTGTGAAACCA+TGG + chr4.4:41437774-41437793 None:intergenic 45.0%
CACTTTCCCTTGGGAATCGA+AGG - chr4.4:41438241-41438260 MS.gene055623:intron 50.0%
CGTTGACAAAGAAGCTGCCA+TGG - chr4.4:41437754-41437773 MS.gene055623:CDS 50.0%
CTTCGATTCCCAAGGGAAAG+TGG + chr4.4:41438243-41438262 None:intergenic 50.0%
GTGTTCAACTCCGGATTACC+AGG - chr4.4:41438216-41438235 MS.gene055623:intron 50.0%
CGCAACATGCTTACCTCTCC+AGG - chr4.4:41437791-41437810 MS.gene055623:intron 55.0%
GGAAAGTGGCCCTGGTAATC+CGG + chr4.4:41438229-41438248 None:intergenic 55.0%
! TACCAGGGCCACTTTCCCTT+GGG - chr4.4:41438232-41438251 MS.gene055623:intron 55.0%
! TTACCAGGGCCACTTTCCCT+TGG - chr4.4:41438231-41438250 MS.gene055623:intron 55.0%
TGTTTCCATGCCACGGACGC+AGG + chr4.4:41438353-41438372 None:intergenic 60.0%
TTCCCAAGGGAAAGTGGCCC+TGG + chr4.4:41438237-41438256 None:intergenic 60.0%
ATGCCACGGACGCAGGCTAG+CGG + chr4.4:41438346-41438365 None:intergenic 65.0%
TGCCACGGACGCAGGCTAGC+GGG + chr4.4:41438345-41438364 None:intergenic 70.0%
! GCTAGCCTGCGTCCGTGGCA+TGG - chr4.4:41438345-41438364 MS.gene055623:CDS 70.0%
! GACCCGCTAGCCTGCGTCCG+TGG - chr4.4:41438340-41438359 MS.gene055623:CDS 75.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 41437701 41438627 41437701 ID=MS.gene055623
chr4.4 mRNA 41437701 41438627 41437701 ID=MS.gene055623.t1;Parent=MS.gene055623
chr4.4 exon 41438516 41438627 41438516 ID=MS.gene055623.t1.exon1;Parent=MS.gene055623.t1
chr4.4 CDS 41438516 41438627 41438516 ID=cds.MS.gene055623.t1;Parent=MS.gene055623.t1
chr4.4 exon 41438286 41438391 41438286 ID=MS.gene055623.t1.exon2;Parent=MS.gene055623.t1
chr4.4 CDS 41438286 41438391 41438286 ID=cds.MS.gene055623.t1;Parent=MS.gene055623.t1
chr4.4 exon 41437701 41437779 41437701 ID=MS.gene055623.t1.exon3;Parent=MS.gene055623.t1
chr4.4 CDS 41437701 41437779 41437701 ID=cds.MS.gene055623.t1;Parent=MS.gene055623.t1
Gene Sequence

>MS.gene055623

ATGAAGAAGGAAGACACAGTTAAACTGATCAGTTCCGATGGATTCGAATTCGTCGTTGACAAAGAAGCTGCCATGGTTTCACAAACCATTCGCAACATGCTTACCTCTCCAGGTTTGTTTTTCTTCCTCTATCACTTTACCTTTTTATACTTTTTCGATTAGTTCAATTAGGGTTACGAATTAGCGTTAATTCATATAAGGTTAAGATTGTTGAAGATGTGATCTGTTTTTGTTAGGGAGTTTTGCTGAAAGGGAACACGGACAAGTGACTTTTCCTGAGATTAGTTCCACTATTCTTGAGAAGATTTGTCAGTATTTTTATTGGCATCTTGAATTTGCTAGGTATTTCATTTTCTTATTTTCTTGTTAGAATTGCAATTGGAGAAAAATCTGAAATTTATGCACATTCATACACTTTACAATGAAATCTGAAATCTGAATTGCAATGAGAATGTTTGGCTGTTTTAAGCTCAAAAAAAGTTATTGTTTGTGTGAATCCAGATGCGTTGTAAACAGTGTTCAACTCCGGATTACCAGGGCCACTTTCCCTTGGGAATCGAAGGTTAACACAAAATATTGAAAATTATTGAGTGACTTGAAATTATAACCAAGCAACCTTACCATTTTTAGTTTACATTTGACCCGCTAGCCTGCGTCCGTGGCATGGAAACATTCACATCATCATTTTATAATACCTTTCTCGTGATTGCTTTTGTGGTAGTTGTAAAAGTTTGTTTTAGGTATTAGAGTTATGTTTTTCTTACAGAAGTTAAGCTTTTTAAATCCCTAAATTTTATTTTAGTGTTATTTAAATTATAGTGTTGATGTGTTTATGTTGGTTTTGCTAGTGGAAAGGACAGAGAGTTTCCTATTGAACCTGAATTAACTTTGGAGTTAATGATGGCTGCCAATTATCTACATACTTGA

Protein sequence

>MS.gene055623.t1

MKKEDTVKLISSDGFEFVVDKEAAMVSQTIRNMLTSPGSFAEREHGQVTFPEISSTILEKICQYFYWHLEFASGKDREFPIEPELTLELMMAANYLHT