AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene57645


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 49 sgRNAs with CRISPR-Local

Find 95 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCAACTGGGTTTGATAATT+TGG 0.172846 8.4:-8692612 MS.gene57645:CDS
CTTGGAGGTCTAGGCCAATT+TGG 0.234892 8.4:-8693921 MS.gene57645:CDS
ATGCGAGGTTGATCAATTTC+TGG 0.237168 8.4:+8693276 None:intergenic
TCAATGAGATTAAATGTTCT+TGG 0.259196 8.4:+8693382 None:intergenic
TGATGTAGATTATGCCATAT+TGG 0.273247 8.4:+8693238 None:intergenic
GAACATGTTACTTACCCTTT+TGG 0.283606 8.4:+8693860 None:intergenic
ACTTACTTTGTTCGGTTCAT+TGG 0.299489 8.4:+8692772 None:intergenic
TTGGAGGTCTAGGCCAATTT+GGG 0.311083 8.4:-8693920 MS.gene57645:CDS
CCCGGGTTATAATCCCAAAT+TGG 0.317668 8.4:+8693907 None:intergenic
TGGTTAGACCTATTTGTTCC+AGG 0.317776 8.4:-8692880 MS.gene57645:CDS
ACGTAGAAAATTTCTTCATT+AGG 0.319059 8.4:+8692650 None:intergenic
CACTAAGGGCACAAGGGCTT+TGG 0.322463 8.4:-8692918 MS.gene57645:CDS
GATGTAGATTATGCCATATT+GGG 0.334379 8.4:+8693239 None:intergenic
ACTTCCTTGGTAACCCAATA+TGG 0.343635 8.4:-8693252 MS.gene57645:CDS
AATGCACCTAATTATGTAGA+AGG 0.361571 8.4:-8693342 MS.gene57645:CDS
TACAGAATTGCAATATTTGT+TGG 0.363574 8.4:+8692570 None:intergenic
CTTACTTTGTTCGGTTCATT+GGG 0.402378 8.4:+8692773 None:intergenic
CTCTCAAGATCATGTTGATC+AGG 0.409029 8.4:-8693187 MS.gene57645:intron
GAACATTTAATCTCATTGAA+TGG 0.419334 8.4:-8693378 MS.gene57645:CDS
TATGCGGTTCTTGGAGGTCT+AGG 0.420552 8.4:-8693930 MS.gene57645:CDS
ACTAAGGGCACAAGGGCTTT+GGG 0.426367 8.4:-8692917 MS.gene57645:CDS
CTCTTGGACCTGCACCCAAA+AGG 0.431378 8.4:-8693875 MS.gene57645:CDS
GTCCAAGAGCTATTCTTGCC+CGG 0.443689 8.4:+8693889 None:intergenic
TTTGGGATATCCCACATCCT+TGG 0.453084 8.4:-8692900 MS.gene57645:CDS
AATTCAGACATTCTAGATCC+TGG 0.456400 8.4:+8692862 None:intergenic
AGAAGTCGTTGTAAAGTAAA+CGG 0.480233 8.4:+8693421 None:intergenic
ATTTAATGAAGGTGTGTTCA+AGG 0.481817 8.4:-8692842 MS.gene57645:CDS
TTCTAGATCCTGGAACAAAT+AGG 0.484678 8.4:+8692872 None:intergenic
TTAATTTCTTGTAGGTAAAG+TGG 0.485135 8.4:-8693446 MS.gene57645:intron
TCAACCTCGCATAACTTCCT+TGG 0.491369 8.4:-8693265 MS.gene57645:CDS
TCTTGGACCTGCACCCAAAA+GGG 0.495846 8.4:-8693874 MS.gene57645:intron
AATAGGTCTAACCAAGGATG+TGG 0.503374 8.4:+8692889 None:intergenic
ACCCGGGCAAGAATAGCTCT+TGG 0.507789 8.4:-8693891 MS.gene57645:CDS
GCCAATTTGGGATTATAACC+CGG 0.514228 8.4:-8693908 MS.gene57645:CDS
TCCAAGAGCTATTCTTGCCC+GGG 0.517850 8.4:+8693890 None:intergenic
AACTGGGTTTGATAATTTGG+AGG 0.517975 8.4:-8692609 MS.gene57645:CDS
CCAATTTGGGATTATAACCC+GGG 0.522205 8.4:-8693907 MS.gene57645:CDS
TTTCATAGGGAAAGGAGACT+TGG 0.523319 8.4:-8693988 None:intergenic
AGAATGTCTGAATTTAATGA+AGG 0.553370 8.4:-8692853 MS.gene57645:CDS
CTTAAACAAAACATTACAGC+AGG 0.556213 8.4:-8692811 MS.gene57645:CDS
TTTAATGAAGGTGTGTTCAA+GGG 0.557994 8.4:-8692841 MS.gene57645:CDS
TACTGATGAGCTAACACTAA+GGG 0.595369 8.4:-8692932 MS.gene57645:CDS
ATACTGATGAGCTAACACTA+AGG 0.611848 8.4:-8692933 MS.gene57645:CDS
GAGCTAACACTAAGGGCACA+AGG 0.614915 8.4:-8692925 MS.gene57645:CDS
TATGCCATATTGGGTTACCA+AGG 0.624328 8.4:+8693248 None:intergenic
AGCTAACACTAAGGGCACAA+GGG 0.649584 8.4:-8692924 MS.gene57645:CDS
ATAGGTCTAACCAAGGATGT+GGG 0.663453 8.4:+8692890 None:intergenic
GGAACAAATAGGTCTAACCA+AGG 0.693806 8.4:+8692883 None:intergenic
GTTACCAAGGAAGTTATGCG+AGG 0.707702 8.4:+8693261 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAGAATTTACAAAAATTTA+AGG + chr8.4:8692856-8692875 None:intergenic 10.0%
!! GTTTAATTAGTAATTTAATT+TGG + chr8.4:8693077-8693096 None:intergenic 10.0%
!!! TTGTAAATTCTTTTATTATA+GGG - chr8.4:8692863-8692882 MS.gene57645:CDS 10.0%
!!! TTTGTAAATTCTTTTATTAT+AGG - chr8.4:8692862-8692881 MS.gene57645:CDS 10.0%
!! AATATATTTACTTATTCGTA+TGG - chr8.4:8692723-8692742 MS.gene57645:intron 15.0%
!! TATACTTTGAATTAATTCAT+AGG - chr8.4:8693853-8693872 MS.gene57645:intron 15.0%
!! AAAAAACCTTCTACATAATT+AGG + chr8.4:8693220-8693239 None:intergenic 20.0%
!! CAAATGTAGAAATAATGTAT+TGG + chr8.4:8693006-8693025 None:intergenic 20.0%
!! TTGTTTGATTAATTTCTTGT+AGG - chr8.4:8693099-8693118 MS.gene57645:intron 20.0%
!!! AGTAATTTAATTTGGGATAA+AGG + chr8.4:8693069-8693088 None:intergenic 20.0%
!!! CAATACATTATTTCTACATT+TGG - chr8.4:8693004-8693023 MS.gene57645:CDS 20.0%
!!! CTTTTTCGAATTTAAAAGTA+GGG + chr8.4:8693567-8693586 None:intergenic 20.0%
!!! GTAATTTAATTTGGGATAAA+GGG + chr8.4:8693068-8693087 None:intergenic 20.0%
!!! TCTTTTTCGAATTTAAAAGT+AGG + chr8.4:8693568-8693587 None:intergenic 20.0%
!!! TTTTCAAAACTTACTTTGTT+CGG + chr8.4:8693792-8693811 None:intergenic 20.0%
! AATTGAATGCACAAAGTTTA+AGG + chr8.4:8692946-8692965 None:intergenic 25.0%
! ACGTAGAAAATTTCTTCATT+AGG + chr8.4:8693906-8693925 None:intergenic 25.0%
! ACTTTGAATTAATTCATAGG+TGG - chr8.4:8693856-8693875 MS.gene57645:intron 25.0%
! AGAATGTCTGAATTTAATGA+AGG - chr8.4:8693700-8693719 MS.gene57645:intron 25.0%
! ATTGAATGCACAAAGTTTAA+GGG + chr8.4:8692945-8692964 None:intergenic 25.0%
! CTTTGAATTAATTCATAGGT+GGG - chr8.4:8693857-8693876 MS.gene57645:intron 25.0%
! GAACATTTAATCTCATTGAA+TGG - chr8.4:8693175-8693194 MS.gene57645:intron 25.0%
! TCAATGAGATTAAATGTTCT+TGG + chr8.4:8693174-8693193 None:intergenic 25.0%
! TTAATTTCTTGTAGGTAAAG+TGG - chr8.4:8693107-8693126 MS.gene57645:intron 25.0%
!! GAAATTGAAATTTTGCTTCA+GGG - chr8.4:8693529-8693548 MS.gene57645:intron 25.0%
!! TTGATCAATTTCTGGAAAAA+AGG + chr8.4:8693272-8693291 None:intergenic 25.0%
!!! GAACTCAGAATTATTTTATG+CGG - chr8.4:8692607-8692626 MS.gene57645:CDS 25.0%
!!! TATCGTTTTGTTTCTTGAAT+AGG - chr8.4:8693507-8693526 MS.gene57645:intron 25.0%
AATGCACCTAATTATGTAGA+AGG - chr8.4:8693211-8693230 MS.gene57645:CDS 30.0%
ACCAACAAATATTGCAATTC+TGG - chr8.4:8693982-8694001 MS.gene57645:CDS 30.0%
AGAAGTCGTTGTAAAGTAAA+CGG + chr8.4:8693135-8693154 None:intergenic 30.0%
CTTAAACAAAACATTACAGC+AGG - chr8.4:8693742-8693761 MS.gene57645:intron 30.0%
GATGTAGATTATGCCATATT+GGG + chr8.4:8693317-8693336 None:intergenic 30.0%
TGAAAATAGCATGACTACTT+TGG + chr8.4:8693445-8693464 None:intergenic 30.0%
TGATGTAGATTATGCCATAT+TGG + chr8.4:8693318-8693337 None:intergenic 30.0%
TTTCTAAACTTGTGCCTTAA+GGG - chr8.4:8693027-8693046 MS.gene57645:CDS 30.0%
! AGAGTTTTCGTCGTAATATT+TGG + chr8.4:8693350-8693369 None:intergenic 30.0%
! ATTTAATGAAGGTGTGTTCA+AGG - chr8.4:8693711-8693730 MS.gene57645:intron 30.0%
! CAATTTCTGGAAAAAAGGAT+AGG + chr8.4:8693267-8693286 None:intergenic 30.0%
! GGAAATTGAAATTTTGCTTC+AGG - chr8.4:8693528-8693547 MS.gene57645:intron 30.0%
! TGAAGAAATTTTCTACGTTG+TGG - chr8.4:8693908-8693927 MS.gene57645:CDS 30.0%
! TTTAATGAAGGTGTGTTCAA+GGG - chr8.4:8693712-8693731 MS.gene57645:intron 30.0%
!! AACATGTTACTTACCCTTTT+GGG + chr8.4:8692695-8692714 None:intergenic 30.0%
!! GAATTATTTTATGCGGTTCT+TGG - chr8.4:8692614-8692633 MS.gene57645:CDS 30.0%
!!! CTGCTGTAATGTTTTGTTTA+AGG + chr8.4:8693744-8693763 None:intergenic 30.0%
AATTCAGACATTCTAGATCC+TGG + chr8.4:8693694-8693713 None:intergenic 35.0%
ACTTACTTTGTTCGGTTCAT+TGG + chr8.4:8693784-8693803 None:intergenic 35.0%
ATACTGATGAGCTAACACTA+AGG - chr8.4:8693620-8693639 MS.gene57645:intron 35.0%
ATTTCTTAACATGTGCCCTA+AGG + chr8.4:8692905-8692924 None:intergenic 35.0%
CTTACTTTGTTCGGTTCATT+GGG + chr8.4:8693783-8693802 None:intergenic 35.0%
GTTTCTAAACTTGTGCCTTA+AGG - chr8.4:8693026-8693045 MS.gene57645:CDS 35.0%
TACTGATGAGCTAACACTAA+GGG - chr8.4:8693621-8693640 MS.gene57645:intron 35.0%
TTCTAGATCCTGGAACAAAT+AGG + chr8.4:8693684-8693703 None:intergenic 35.0%
TTTCTTAACATGTGCCCTAA+GGG + chr8.4:8692904-8692923 None:intergenic 35.0%
! AACTGGGTTTGATAATTTGG+AGG - chr8.4:8693944-8693963 MS.gene57645:CDS 35.0%
! CTTCATATGACGAGTCTTTT+TGG + chr8.4:8693419-8693438 None:intergenic 35.0%
! TGCAACTGGGTTTGATAATT+TGG - chr8.4:8693941-8693960 MS.gene57645:CDS 35.0%
!! GAACATGTTACTTACCCTTT+TGG + chr8.4:8692696-8692715 None:intergenic 35.0%
!! TTATTTTATGCGGTTCTTGG+AGG - chr8.4:8692617-8692636 MS.gene57645:CDS 35.0%
AAAAAGGATAGGTCTAGTGG+TGG + chr8.4:8693256-8693275 None:intergenic 40.0%
AATAGGTCTAACCAAGGATG+TGG + chr8.4:8693667-8693686 None:intergenic 40.0%
AATGTTAACGTGTGCCCTTA+AGG + chr8.4:8693044-8693063 None:intergenic 40.0%
ATAGGTCTAACCAAGGATGT+GGG + chr8.4:8693666-8693685 None:intergenic 40.0%
CTCTCAAGATCATGTTGATC+AGG - chr8.4:8693366-8693385 MS.gene57645:CDS 40.0%
GGAAAAAAGGATAGGTCTAG+TGG + chr8.4:8693259-8693278 None:intergenic 40.0%
GGAACAAATAGGTCTAACCA+AGG + chr8.4:8693673-8693692 None:intergenic 40.0%
TATGCCATATTGGGTTACCA+AGG + chr8.4:8693308-8693327 None:intergenic 40.0%
TGGTTAGACCTATTTGTTCC+AGG - chr8.4:8693673-8693692 MS.gene57645:intron 40.0%
! AACGACTTCTCTGCATTTTC+TGG - chr8.4:8693145-8693164 MS.gene57645:intron 40.0%
! ACTTCCTTGGTAACCCAATA+TGG - chr8.4:8693301-8693320 MS.gene57645:CDS 40.0%
! AGTGTTAACTTGAGCCCTTA+GGG - chr8.4:8692887-8692906 MS.gene57645:CDS 40.0%
! ATGCGAGGTTGATCAATTTC+TGG + chr8.4:8693280-8693299 None:intergenic 40.0%
! CCAATTTGGGATTATAACCC+GGG - chr8.4:8692646-8692665 MS.gene57645:CDS 40.0%
! GCCAATTTGGGATTATAACC+CGG - chr8.4:8692645-8692664 MS.gene57645:CDS 40.0%
! TAGTGTTAACTTGAGCCCTT+AGG - chr8.4:8692886-8692905 MS.gene57645:CDS 40.0%
!!! TGGATTTTTTGCGTGCAACT+GGG - chr8.4:8693928-8693947 MS.gene57645:CDS 40.0%
CCCGGGTTATAATCCCAAAT+TGG + chr8.4:8692649-8692668 None:intergenic 45.0%
GTTACCAAGGAAGTTATGCG+AGG + chr8.4:8693295-8693314 None:intergenic 45.0%
TCAACCTCGCATAACTTCCT+TGG - chr8.4:8693288-8693307 MS.gene57645:CDS 45.0%
TTGGAGGTCTAGGCCAATTT+GGG - chr8.4:8692633-8692652 MS.gene57645:CDS 45.0%
! AGCTAACACTAAGGGCACAA+GGG - chr8.4:8693629-8693648 MS.gene57645:intron 45.0%
! TTTGGGATATCCCACATCCT+TGG - chr8.4:8693653-8693672 MS.gene57645:intron 45.0%
!! TTACTTACCCTTTTGGGTGC+AGG + chr8.4:8692689-8692708 None:intergenic 45.0%
!!! GTGGATTTTTTGCGTGCAAC+TGG - chr8.4:8693927-8693946 MS.gene57645:CDS 45.0%
!!! TTTAATTAGTAATTTAATTT+GGG + chr8.4:8693076-8693095 None:intergenic 5.0%
CTTGGAGGTCTAGGCCAATT+TGG - chr8.4:8692632-8692651 MS.gene57645:CDS 50.0%
GTCCAAGAGCTATTCTTGCC+CGG + chr8.4:8692667-8692686 None:intergenic 50.0%
TATGCGGTTCTTGGAGGTCT+AGG - chr8.4:8692623-8692642 MS.gene57645:CDS 50.0%
TCCAAGAGCTATTCTTGCCC+GGG + chr8.4:8692666-8692685 None:intergenic 50.0%
TCTTGGACCTGCACCCAAAA+GGG - chr8.4:8692679-8692698 MS.gene57645:CDS 50.0%
! ACTAAGGGCACAAGGGCTTT+GGG - chr8.4:8693636-8693655 MS.gene57645:intron 50.0%
! GAGCTAACACTAAGGGCACA+AGG - chr8.4:8693628-8693647 MS.gene57645:intron 50.0%
ACCCGGGCAAGAATAGCTCT+TGG - chr8.4:8692662-8692681 MS.gene57645:CDS 55.0%
CTCTTGGACCTGCACCCAAA+AGG - chr8.4:8692678-8692697 MS.gene57645:CDS 55.0%
! CACTAAGGGCACAAGGGCTT+TGG - chr8.4:8693635-8693654 MS.gene57645:intron 55.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 8692573 8694002 8692573 ID=MS.gene57645
chr8.4 mRNA 8692573 8694002 8692573 ID=MS.gene57645.t1;Parent=MS.gene57645
chr8.4 exon 8693875 8694002 8693875 ID=MS.gene57645.t1.exon1;Parent=MS.gene57645.t1
chr8.4 CDS 8693875 8694002 8693875 ID=cds.MS.gene57645.t1;Parent=MS.gene57645.t1
chr8.4 exon 8693188 8693454 8693188 ID=MS.gene57645.t1.exon2;Parent=MS.gene57645.t1
chr8.4 CDS 8693188 8693454 8693188 ID=cds.MS.gene57645.t1;Parent=MS.gene57645.t1
chr8.4 exon 8692778 8693046 8692778 ID=MS.gene57645.t1.exon3;Parent=MS.gene57645.t1
chr8.4 CDS 8692778 8693046 8692778 ID=cds.MS.gene57645.t1;Parent=MS.gene57645.t1
chr8.4 exon 8692573 8692700 8692573 ID=MS.gene57645.t1.exon4;Parent=MS.gene57645.t1
chr8.4 CDS 8692573 8692700 8692573 ID=cds.MS.gene57645.t1;Parent=MS.gene57645.t1
Gene Sequence

>MS.gene57645

GGAAAGGAGACTTGGTGACTTGTTCTACAGAGAAGAACTCAGAATTATTTTATGCGGTTCTTGGAGGTCTAGGCCAATTTGGGATTATAACCCGGGCAAGAATAGCTCTTGGACCTGCACCCAAAAGGGTAAGTAACATGTTCTCTAATTAATATATTTACTTATTCGTATGGTTTCTTGTTCGTATGTCACAATCATAATAATAGTTGTTTGCTATTTGCTATAATGCGTATTTGCAAGTCAAACTTAGAAAAATATGCATTAATCATGAATATATTATCCTTAAATTTTTGTAAATTCTTTTATTATAGGGTAGTGTTAACTTGAGCCCTTAGGGCACATGTTAAGAAATCTAAAAAAAGAAATATTCCCTTAAACTTTGTGCATTCAATTCATTAAAACATTAAAGATTAAATTTAATGCACGCATTCCAATACATTATTTCTACATTTGGTTTCTAAACTTGTGCCTTAAGGGCACACGTTAACATTTCCCTTTATCCCAAATTAAATTACTAATTAAACAATTGTTTGATTAATTTCTTGTAGGTAAAGTGGCTCCGTTTACTTTACAACGACTTCTCTGCATTTTCTGGAGACCAAGAACATTTAATCTCATTGAATGGAATAGATGAAACTAATGCACCTAATTATGTAGAAGGTTTTTTGCTTCTAAATCAGCCACCACTAGACCTATCCTTTTTTCCAGAAATTGATCAACCTCGCATAACTTCCTTGGTAACCCAATATGGCATAATCTACATCATTGAACTTGCCAAATATTACGACGAAAACTCTCAAGATCATGTTGATCAGGTAATTATTTTTTTAAGATTCTTGCATTCCAAAAAGACTCGTCATATGAAGAAACCAAAGTAGTCATGCTATTTTCATTTCTTCTTTGTTTGTATGATTAATTTATCTACTAACATAGATATCGTTTTGTTTCTTGAATAGGAAATTGAAATTTTGCTTCAGGGATTAAAGTTTGTCCCTACTTTTAAATTCGAAAAAGACGCGTCGTACGAAGAATTTCTAGATAGAGTTCATACTGATGAGCTAACACTAAGGGCACAAGGGCTTTGGGATATCCCACATCCTTGGTTAGACCTATTTGTTCCAGGATCTAGAATGTCTGAATTTAATGAAGGTGTGTTCAAGGGTATTATCCTTAAACAAAACATTACAGCAGGACTTGTAATAGTGTACCCAATGAACCGAACAAAGTAAGTTTTGAAAAATTATTTAATTAATTATAATGATGAAATTCACAAGCATATTTATACTTTGAATTAATTCATAGGTGGGATGATAAGATGTCAGCTGTTACACCTAATGAAGAAATTTTCTACGTTGTGGATTTTTTGCGTGCAACTGGGTTTGATAATTTGGAGGCATATCAGTCTCAAAACCAACAAATATTGCAATTCT

Protein sequence

>MS.gene57645.t1

GKETWULVLQRRTQNYFMRFLEVUANLGLUPGQEULLDLHPKGUSGSVYFTTTSLHFLETKNIUSHUMEUMKLMHLIMUKVFCFUISHHUTYPFFQKLINLAULPWUPNMAUSTSLNLPNITTKTLKIMLIRKLKFCFRDUSLSLLLNSKKTRRTKNFUIEFILMSUHUGHKGFGISHILGUTYLFQDLECLNLMKVCSRVLSLNKTLQQDLUUCTQUTEQSGMIRCQLLHLMKKFSTLWIFCVQLGLIIWRHISLKTNKYCNS