AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene06485


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene06485.t1 MTR_2g014120 96.517 201 7 0 1 201 1 201 5.68e-139 388
MS.gene06485.t1 MTR_7g108540 96.517 201 7 0 1 201 1 201 1.19e-138 387
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene06485.t1 AT2G27490 74.627 201 51 0 1 201 1 201 7.71e-109 311
MS.gene06485.t1 AT2G27490 74.627 201 51 0 1 201 1 201 7.71e-109 311
MS.gene06485.t1 AT2G27490 74.627 201 51 0 1 201 1 201 7.71e-109 311
MS.gene06485.t1 AT2G27490 74.627 201 51 0 1 201 1 201 7.71e-109 311

Find 53 sgRNAs with CRISPR-Local

Find 85 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTCTCTGAATCTGTGTTTC+AGG 0.209401 3.2:+79279485 None:intergenic
ATCAACCCACACAACAATTA+TGG 0.226242 3.2:+79279508 None:intergenic
ATATATCCTCGGGGATCTTT+TGG 0.227206 3.2:-79279622 MS.gene06485:CDS
TTGAGAAATTGACGCTTATC+AGG 0.303211 3.2:+79279746 None:intergenic
TGAACAATTTCAGAACGTTT+TGG 0.336190 3.2:-79279336 MS.gene06485:CDS
AGATGCCGCTGGATGGTAAA+AGG 0.351308 3.2:-79279409 MS.gene06485:CDS
TGACGTCCCTTTGTTATTTG+AGG 0.363223 3.2:-79279555 MS.gene06485:CDS
AAGATCCCCGAGGATATATA+TGG 0.384217 3.2:+79279626 None:intergenic
ATAGAATAAATGAGGATTGT+TGG 0.388584 3.2:-79280084 None:intergenic
ACTACATCAGCGTCGACAAC+AGG 0.406465 3.2:+79279997 None:intergenic
GTCGTGAGACTTGAATAAAT+TGG 0.409640 3.2:+79280023 None:intergenic
TCAACCCACACAACAATTAT+GGG 0.455800 3.2:+79279509 None:intergenic
TACTAGGATGCGTTGAAGAA+AGG 0.463219 3.2:-79279872 MS.gene06485:intron
TTGGCTCCATATATATCCTC+GGG 0.483634 3.2:-79279632 MS.gene06485:CDS
ACTAGGATGCGTTGAAGAAA+GGG 0.487032 3.2:-79279871 MS.gene06485:intron
ATAAGCGTCAATTTCTCAAT+CGG 0.497613 3.2:-79279742 MS.gene06485:intron
CTCATACCATGTCAAGGGTC+CGG 0.506695 3.2:+79279304 None:intergenic
GTTGGCTCCATATATATCCT+CGG 0.510068 3.2:-79279633 MS.gene06485:CDS
ATGAGGATTGTTGGACTGAC+TGG 0.512619 3.2:-79280075 MS.gene06485:CDS
AACACAGATTCAGAGACTCT+TGG 0.532676 3.2:-79279480 MS.gene06485:CDS
CGAAGCCCATAATTGTTGTG+TGG 0.541419 3.2:-79279514 MS.gene06485:CDS
TGAAGAAAGGGAGCGGCGGA+TGG 0.543910 3.2:-79279859 MS.gene06485:CDS
TCTTAGCCTCAAATAACAAA+GGG 0.545675 3.2:+79279549 None:intergenic
AGACTTGAATAAATTGGAAA+CGG 0.547925 3.2:+79280029 None:intergenic
AAAACGATTTGGCCAAGTCT+GGG 0.565501 3.2:+79279776 None:intergenic
GGTCAATGCTCAGATGCCGC+TGG 0.566232 3.2:-79279420 MS.gene06485:CDS
TTTGGGAAGTTGTGAAGCTG+TGG 0.578755 3.2:-79279604 MS.gene06485:CDS
CGAGGAGGATGGTCGGAACA+AGG 0.580768 3.2:-79279441 MS.gene06485:CDS
GTTGTGAAGCTGTGGTTGAA+AGG 0.585087 3.2:-79279596 MS.gene06485:CDS
ATCTTAGCCTCAAATAACAA+AGG 0.586193 3.2:+79279548 None:intergenic
CCAAAACTCATACCATGTCA+AGG 0.598156 3.2:+79279298 None:intergenic
AGTCTAGCGAGGAGGATGGT+CGG 0.598811 3.2:-79279448 MS.gene06485:CDS
AGTTGTTGCCGCGTTTGGGG+AGG 0.599566 3.2:-79279831 MS.gene06485:CDS
GAAGTTAACAGACCCAGACT+TGG 0.601753 3.2:-79279788 MS.gene06485:CDS
AAAAGTTGTTGCCGCGTTTG+GGG 0.604856 3.2:-79279834 MS.gene06485:CDS
GGGTCACCGGACCCTTGACA+TGG 0.606552 3.2:-79279310 MS.gene06485:intron
GAGGAAATTCTACTAGACAA+TGG 0.608332 3.2:-79279812 MS.gene06485:CDS
GATAAGTCTAGCGAGGAGGA+TGG 0.608356 3.2:-79279452 MS.gene06485:CDS
AATGCTCAGATGCCGCTGGA+TGG 0.610763 3.2:-79279416 MS.gene06485:CDS
GAAGCCCATAATTGTTGTGT+GGG 0.612377 3.2:-79279513 MS.gene06485:CDS
GCTGTGGTTGAAAGGTTACA+AGG 0.613383 3.2:-79279588 MS.gene06485:CDS
TAGAATTTCCTCCCCAAACG+CGG 0.631720 3.2:+79279823 None:intergenic
CAAAACTCATACCATGTCAA+GGG 0.641999 3.2:+79279299 None:intergenic
AGGATTGTTGGACTGACTGG+TGG 0.644760 3.2:-79280072 MS.gene06485:CDS
GGCAAGAGATAAGTCTAGCG+AGG 0.649336 3.2:-79279459 MS.gene06485:CDS
GATGCGTTGAAGAAAGGGAG+CGG 0.653195 3.2:-79279866 MS.gene06485:CDS
GATATAGTAATCGACAACAC+TGG 0.662812 3.2:-79279377 MS.gene06485:CDS
AAGAGATAAGTCTAGCGAGG+AGG 0.683714 3.2:-79279456 MS.gene06485:CDS
GCGTTGAAGAAAGGGAGCGG+CGG 0.690363 3.2:-79279863 MS.gene06485:CDS
CTACATCAGCGTCGACAACA+GGG 0.699636 3.2:+79279998 None:intergenic
TGGCTCCATATATATCCTCG+GGG 0.732858 3.2:-79279631 MS.gene06485:CDS
CTGACTGGTGGAATAGCAAG+TGG 0.743435 3.2:-79280060 MS.gene06485:CDS
AACTTCCCAAAAGATCCCCG+AGG 0.762062 3.2:+79279616 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTACTTTATTTTTGAAGTTT+CGG - chr3.2:79279622-79279641 MS.gene06485:CDS 15.0%
! AAATTATAAGCAAAGCCAAA+AGG + chr3.2:79279365-79279384 None:intergenic 25.0%
! AGACTTGAATAAATTGGAAA+CGG + chr3.2:79279273-79279292 None:intergenic 25.0%
! GGTATTCTAAATTTATGTTG+TGG - chr3.2:79279578-79279597 MS.gene06485:CDS 25.0%
! TTATTGGGATTTGAATTACT+AGG - chr3.2:79279411-79279430 MS.gene06485:CDS 25.0%
!!! TTTGGCTTTGCTTATAATTT+GGG - chr3.2:79279365-79279384 MS.gene06485:CDS 25.0%
!!! TTTTGGCTTTGCTTATAATT+TGG - chr3.2:79279364-79279383 MS.gene06485:CDS 25.0%
ATAAGCGTCAATTTCTCAAT+CGG - chr3.2:79279557-79279576 MS.gene06485:CDS 30.0%
ATCTTAGCCTCAAATAACAA+AGG + chr3.2:79279754-79279773 None:intergenic 30.0%
TCTTAGCCTCAAATAACAAA+GGG + chr3.2:79279753-79279772 None:intergenic 30.0%
! TGAACAATTTCAGAACGTTT+TGG - chr3.2:79279963-79279982 MS.gene06485:intron 30.0%
!! TTGGCTTTGCTTATAATTTG+GGG - chr3.2:79279366-79279385 MS.gene06485:CDS 30.0%
!!! AATTTCAGAACGTTTTGGTT+CGG - chr3.2:79279968-79279987 MS.gene06485:intron 30.0%
!!! TAATGGTTGTTTTAGGTTGT+TGG - chr3.2:79279648-79279667 MS.gene06485:intron 30.0%
!!! TTCGTGTTTTTTTCACCTTT+TGG - chr3.2:79279347-79279366 MS.gene06485:CDS 30.0%
!!! TTTTGAAGTTTCGGTTGTAA+TGG - chr3.2:79279631-79279650 MS.gene06485:CDS 30.0%
ATCAACCCACACAACAATTA+TGG + chr3.2:79279794-79279813 None:intergenic 35.0%
CAAAACTCATACCATGTCAA+GGG + chr3.2:79280003-79280022 None:intergenic 35.0%
GAGGAAATTCTACTAGACAA+TGG - chr3.2:79279487-79279506 MS.gene06485:CDS 35.0%
GATATAGTAATCGACAACAC+TGG - chr3.2:79279922-79279941 MS.gene06485:intron 35.0%
GTCGTGAGACTTGAATAAAT+TGG + chr3.2:79279279-79279298 None:intergenic 35.0%
TCAACCCACACAACAATTAT+GGG + chr3.2:79279793-79279812 None:intergenic 35.0%
TTGAGAAATTGACGCTTATC+AGG + chr3.2:79279556-79279575 None:intergenic 35.0%
!! TCGGTTGTAATGGTTGTTTT+AGG - chr3.2:79279641-79279660 MS.gene06485:intron 35.0%
!!! ATTTCAGAACGTTTTGGTTC+GGG - chr3.2:79279969-79279988 MS.gene06485:intron 35.0%
AAAAAAGTTGTTGCCGCGTT+TGG - chr3.2:79279463-79279482 MS.gene06485:CDS 40.0%
AAAAAGTTGTTGCCGCGTTT+GGG - chr3.2:79279464-79279483 MS.gene06485:CDS 40.0%
AACACAGATTCAGAGACTCT+TGG - chr3.2:79279819-79279838 MS.gene06485:CDS 40.0%
AAGATCCCCGAGGATATATA+TGG + chr3.2:79279676-79279695 None:intergenic 40.0%
ACTAGGATGCGTTGAAGAAA+GGG - chr3.2:79279428-79279447 MS.gene06485:CDS 40.0%
AGTCTCTGAATCTGTGTTTC+AGG + chr3.2:79279817-79279836 None:intergenic 40.0%
ATTCTCGCTTCATTTACCTC+AGG - chr3.2:79280048-79280067 MS.gene06485:CDS 40.0%
CAGGATCAGCAAAAACGATT+TGG + chr3.2:79279537-79279556 None:intergenic 40.0%
CATACATAGAACAACACCTG+AGG + chr3.2:79280067-79280086 None:intergenic 40.0%
CCAAAACTCATACCATGTCA+AGG + chr3.2:79280004-79280023 None:intergenic 40.0%
GAAGCCCATAATTGTTGTGT+GGG - chr3.2:79279786-79279805 MS.gene06485:CDS 40.0%
TACTAGGATGCGTTGAAGAA+AGG - chr3.2:79279427-79279446 MS.gene06485:CDS 40.0%
TTGGCTCCATATATATCCTC+GGG - chr3.2:79279667-79279686 MS.gene06485:intron 40.0%
! AAAAACGATTTGGCCAAGTC+TGG + chr3.2:79279527-79279546 None:intergenic 40.0%
! AAAACGATTTGGCCAAGTCT+GGG + chr3.2:79279526-79279545 None:intergenic 40.0%
! ATATATCCTCGGGGATCTTT+TGG - chr3.2:79279677-79279696 MS.gene06485:intron 40.0%
! CCTTGACATGGTATGAGTTT+TGG - chr3.2:79280001-79280020 MS.gene06485:CDS 40.0%
! GTTGGCTCCATATATATCCT+CGG - chr3.2:79279666-79279685 MS.gene06485:intron 40.0%
! TATATCCTCGGGGATCTTTT+GGG - chr3.2:79279678-79279697 MS.gene06485:intron 40.0%
! TTACTCCTTTTACCATCCAG+CGG + chr3.2:79279898-79279917 None:intergenic 40.0%
!! TGACGTCCCTTTGTTATTTG+AGG - chr3.2:79279744-79279763 MS.gene06485:CDS 40.0%
AAAAGTTGTTGCCGCGTTTG+GGG - chr3.2:79279465-79279484 MS.gene06485:CDS 45.0%
AAGAGATAAGTCTAGCGAGG+AGG - chr3.2:79279843-79279862 MS.gene06485:CDS 45.0%
AATAACCACCGACCATGAGA+GGG + chr3.2:79279396-79279415 None:intergenic 45.0%
ATGAGGATTGTTGGACTGAC+TGG - chr3.2:79279224-79279243 MS.gene06485:CDS 45.0%
ATTTGGGGAAAACCCTCTCA+TGG - chr3.2:79279381-79279400 MS.gene06485:CDS 45.0%
CGAAGCCCATAATTGTTGTG+TGG - chr3.2:79279785-79279804 MS.gene06485:CDS 45.0%
GAAGTTAACAGACCCAGACT+TGG - chr3.2:79279511-79279530 MS.gene06485:CDS 45.0%
GCTGTGGTTGAAAGGTTACA+AGG - chr3.2:79279711-79279730 MS.gene06485:intron 45.0%
GTTGTGAAGCTGTGGTTGAA+AGG - chr3.2:79279703-79279722 MS.gene06485:intron 45.0%
TAGAATTTCCTCCCCAAACG+CGG + chr3.2:79279479-79279498 None:intergenic 45.0%
TCTCATGGTCGGTGGTTATT+GGG - chr3.2:79279396-79279415 MS.gene06485:CDS 45.0%
TGGCTCCATATATATCCTCG+GGG - chr3.2:79279668-79279687 MS.gene06485:intron 45.0%
TTTGGGAAGTTGTGAAGCTG+TGG - chr3.2:79279695-79279714 MS.gene06485:intron 45.0%
!! GGTATGAGTTTTGGCGTTCT+AGG - chr3.2:79280010-79280029 MS.gene06485:CDS 45.0%
AACTTCCCAAAAGATCCCCG+AGG + chr3.2:79279686-79279705 None:intergenic 50.0%
AGATGCCGCTGGATGGTAAA+AGG - chr3.2:79279890-79279909 MS.gene06485:intron 50.0%
AGGATTGTTGGACTGACTGG+TGG - chr3.2:79279227-79279246 MS.gene06485:CDS 50.0%
CAATAACCACCGACCATGAG+AGG + chr3.2:79279397-79279416 None:intergenic 50.0%
CTCATACCATGTCAAGGGTC+CGG + chr3.2:79279998-79280017 None:intergenic 50.0%
CTCTCATGGTCGGTGGTTAT+TGG - chr3.2:79279395-79279414 MS.gene06485:CDS 50.0%
CTGACTGGTGGAATAGCAAG+TGG - chr3.2:79279239-79279258 MS.gene06485:intron 50.0%
GATAAGTCTAGCGAGGAGGA+TGG - chr3.2:79279847-79279866 MS.gene06485:CDS 50.0%
GATGCGTTGAAGAAAGGGAG+CGG - chr3.2:79279433-79279452 MS.gene06485:CDS 50.0%
GGCAAGAGATAAGTCTAGCG+AGG - chr3.2:79279840-79279859 MS.gene06485:CDS 50.0%
!! ACTACATCAGCGTCGACAAC+AGG + chr3.2:79279305-79279324 None:intergenic 50.0%
!! CTACATCAGCGTCGACAACA+GGG + chr3.2:79279304-79279323 None:intergenic 50.0%
!! GAGTTTTGGCGTTCTAGGCA+GGG - chr3.2:79280015-79280034 MS.gene06485:CDS 50.0%
!! TGAGTTTTGGCGTTCTAGGC+AGG - chr3.2:79280014-79280033 MS.gene06485:CDS 50.0%
!!! AACGTTTTGGTTCGGGTCAC+CGG - chr3.2:79279976-79279995 MS.gene06485:intron 50.0%
AATGCTCAGATGCCGCTGGA+TGG - chr3.2:79279883-79279902 MS.gene06485:intron 55.0%
AGTCTAGCGAGGAGGATGGT+CGG - chr3.2:79279851-79279870 MS.gene06485:CDS 55.0%
GAAAACCCTCTCATGGTCGG+TGG - chr3.2:79279388-79279407 MS.gene06485:CDS 55.0%
GGGGAAAACCCTCTCATGGT+CGG - chr3.2:79279385-79279404 MS.gene06485:CDS 55.0%
AGTTGTTGCCGCGTTTGGGG+AGG - chr3.2:79279468-79279487 MS.gene06485:CDS 60.0%
CGAGGAGGATGGTCGGAACA+AGG - chr3.2:79279858-79279877 MS.gene06485:CDS 60.0%
GCGTTGAAGAAAGGGAGCGG+CGG - chr3.2:79279436-79279455 MS.gene06485:CDS 60.0%
GGTCAATGCTCAGATGCCGC+TGG - chr3.2:79279879-79279898 MS.gene06485:intron 60.0%
TGAAGAAAGGGAGCGGCGGA+TGG - chr3.2:79279440-79279459 MS.gene06485:CDS 60.0%
GGGTCACCGGACCCTTGACA+TGG - chr3.2:79279989-79280008 MS.gene06485:intron 65.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 79279224 79280097 79279224 ID=MS.gene06485
chr3.2 mRNA 79279224 79280097 79279224 ID=MS.gene06485.t1;Parent=MS.gene06485
chr3.2 exon 79279990 79280097 79279990 ID=MS.gene06485.t1.exon1;Parent=MS.gene06485.t1
chr3.2 CDS 79279990 79280097 79279990 ID=cds.MS.gene06485.t1;Parent=MS.gene06485.t1
chr3.2 exon 79279743 79279888 79279743 ID=MS.gene06485.t1.exon2;Parent=MS.gene06485.t1
chr3.2 CDS 79279743 79279888 79279743 ID=cds.MS.gene06485.t1;Parent=MS.gene06485.t1
chr3.2 exon 79279311 79279658 79279311 ID=MS.gene06485.t1.exon3;Parent=MS.gene06485.t1
chr3.2 CDS 79279311 79279658 79279311 ID=cds.MS.gene06485.t1;Parent=MS.gene06485.t1
chr3.2 exon 79279224 79279251 79279224 ID=MS.gene06485.t1.exon4;Parent=MS.gene06485.t1
chr3.2 CDS 79279224 79279251 79279224 ID=cds.MS.gene06485.t1;Parent=MS.gene06485.t1
Gene Sequence

>MS.gene06485

ATGAGGATTGTTGGACTGACTGGTGGAATAGCAAGTGGCAAGAGCACCGTTTCCAATTTATTCAAGTCTCACGACATCCCTGTTGTCGACGCTGATGTAGTTGCTCGTGTATGTTTCTTTTTCTTCGTGTTTTTTTCACCTTTTGGCTTTGCTTATAATTTGGGGAAAACCCTCTCATGGTCGGTGGTTATTGGGATTTGAATTACTAGGATGCGTTGAAGAAAGGGAGCGGCGGATGGAAAAAAGTTGTTGCCGCGTTTGGGGAGGAAATTCTACTAGACAATGGAGAAGTTAACAGACCCAGACTTGGCCAAATCGTTTTTGCTGATCCTGATAAGCGTCAATTTCTCAATCGGTATTCTAAATTTATGTTGTGGTAATTATATTTGATTTCAATTTTACTTTATTTTTGAAGTTTCGGTTGTAATGGTTGTTTTAGGTTGTTGGCTCCATATATATCCTCGGGGATCTTTTGGGAAGTTGTGAAGCTGTGGTTGAAAGGTTACAAGGTCATTGTTCTTGACGTCCCTTTGTTATTTGAGGCTAAGATTGACAAGTTCACGAAGCCCATAATTGTTGTGTGGGTTGATCCTGAAACACAGATTCAGAGACTCTTGGCAAGAGATAAGTCTAGCGAGGAGGATGGTCGGAACAAGGTCAATGCTCAGATGCCGCTGGATGGTAAAAGGAGTAAAGCTGATATAGTAATCGACAACACTGGTTCACTAGATGACTTGAATGAACAATTTCAGAACGTTTTGGTTCGGGTCACCGGACCCTTGACATGGTATGAGTTTTGGCGTTCTAGGCAGGGAGTCTCAATCATTCTCGCTTCATTTACCTCAGGTGTTGTTCTATGTATGAAGACATTTAA

Protein sequence

>MS.gene06485.t1

MRIVGLTGGIASGKSTVSNLFKSHDIPVVDADVVARDALKKGSGGWKKVVAAFGEEILLDNGEVNRPRLGQIVFADPDKRQFLNRLLAPYISSGIFWEVVKLWLKGYKVIVLDVPLLFEAKIDKFTKPIIVVWVDPETQIQRLLARDKSSEEDGRNKVNAQMPLDGKRSKADIVIDNTGSLDDLNEQFQNVLVRVTGPLTWCCSMYEDI