AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene052067

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene052067.t1 MTR_2g097870 100.000 82 0 0 1 82 1 82 1.10e-57 171
MS.gene052067.t1 MTR_2g097870 100.000 70 0 0 13 82 15 84 1.66e-48 148
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene052067.t1 AT2G29530 65.823 79 27 0 1 79 1 79 9.29e-38 121
MS.gene052067.t1 AT2G29530 65.823 79 27 0 1 79 1 79 9.29e-38 121
MS.gene052067.t1 AT2G29530 49.515 103 28 1 1 79 1 103 2.21e-31 105

Find 27 sgRNAs with CRISPR-Local

Find 101 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTTAATTTGAACAGATATT+TGG 0.172661 2.2:+4740515 MS.gene052067:intron
ACATCTTACATGCCAGTATT+TGG 0.206917 2.2:-4741568 None:intergenic
CAAGGAGTCCGAGCTAAATA+TGG 0.278151 2.2:+4741515 MS.gene052067:CDS
AATCTAATTGGTCAGCTTCT+TGG 0.297313 2.2:+4742116 MS.gene052067:CDS
ACCGCTGTGTTTCCAAATAC+TGG 0.321334 2.2:+4741556 MS.gene052067:CDS
TGTCAGGTGACTAATCTAAT+TGG 0.348592 2.2:+4742104 MS.gene052067:intron
ATTGGTCAGCTTCTTGGTAC+TGG 0.406086 2.2:+4742122 MS.gene052067:CDS
TGAAAAGGAGATGGAGTATA+GGG 0.409805 2.2:+4740544 MS.gene052067:CDS
CTGAAAAGGAGATGGAGTAT+AGG 0.420828 2.2:+4740543 MS.gene052067:CDS
GATATTTGGAATGGCTGAAA+AGG 0.432718 2.2:+4740529 MS.gene052067:intron
CACACTTATTGAAGCAGGAC+TGG 0.454382 2.2:-4741387 None:intergenic
TTCTGGTCTCGATAAAGATC+AGG 0.485540 2.2:+4740287 MS.gene052067:CDS
GTCAACACACTTATTGAAGC+AGG 0.497289 2.2:-4741392 None:intergenic
GTCAGCTTCTTGGTACTGGC+GGG 0.500273 2.2:+4742126 MS.gene052067:CDS
ACTTTATCTTCTCAGGTACA+AGG 0.510118 2.2:+4741497 MS.gene052067:intron
GGAAACACAGCGGTCAATGC+AGG 0.526463 2.2:-4741547 None:intergenic
ATTTGAACAGATATTTGGAA+TGG 0.527257 2.2:+4740520 MS.gene052067:intron
AAGGAGTCCGAGCTAAATAT+GGG 0.527587 2.2:+4741516 MS.gene052067:CDS
TGGAATGGCTGAAAAGGAGA+TGG 0.540959 2.2:+4740535 MS.gene052067:CDS
TGATCTTTATCGAGACCAGA+AGG 0.553623 2.2:-4740285 None:intergenic
GGTCAGCTTCTTGGTACTGG+CGG 0.562832 2.2:+4742125 MS.gene052067:CDS
ATCTTTATCGAGACCAGAAG+GGG 0.578296 2.2:-4740283 None:intergenic
GATCTTTATCGAGACCAGAA+GGG 0.615418 2.2:-4740284 None:intergenic
ACACTTATTGAAGCAGGACT+GGG 0.620696 2.2:-4741386 None:intergenic
GGTCTCGATAAAGATCAGGC+AGG 0.638970 2.2:+4740291 MS.gene052067:CDS
TCTTTATCGAGACCAGAAGG+GGG 0.742894 2.2:-4740282 None:intergenic
GCCAGTATTTGGAAACACAG+CGG 0.771787 2.2:-4741557 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAGTTTTTATTTTTATTTTC+TGG + chr2.2:4740423-4740442 MS.gene052067:intron 10.0%
!!! AGTTTTTATTTTTATTTTCT+GGG + chr2.2:4740424-4740443 MS.gene052067:intron 10.0%
!!! ATTTTATTTTTTTTTCATTC+TGG + chr2.2:4740472-4740491 MS.gene052067:intron 10.0%
!! AACTGATAAAAAAGTAAAAA+AGG - chr2.2:4740627-4740646 None:intergenic 15.0%
!! AATTATATTTATGCAGTTTA+GGG + chr2.2:4741123-4741142 MS.gene052067:intron 15.0%
!! GTTAAAAAAATATGCTAAAA+TGG - chr2.2:4741947-4741966 None:intergenic 15.0%
!! TAATTATATTTATGCAGTTT+AGG + chr2.2:4741122-4741141 MS.gene052067:intron 15.0%
!! TAAAAACTTGAAATCACAAA+CGG - chr2.2:4740412-4740431 None:intergenic 20.0%
!! TGTTGGCATAATTATTAATT+TGG + chr2.2:4741330-4741349 MS.gene052067:intron 20.0%
!! TTTCTTCAACTTAATTTCAT+AGG - chr2.2:4740846-4740865 None:intergenic 20.0%
!!! TGTTAATTTGAACAGATATT+TGG + chr2.2:4740515-4740534 MS.gene052067:intron 20.0%
!!! TTTTTTGCAAATCCAATATT+TGG + chr2.2:4741643-4741662 MS.gene052067:intron 20.0%
! AAACAAAGTTGAGATCAAAA+TGG - chr2.2:4740367-4740386 None:intergenic 25.0%
! AACAAAGTTGAGATCAAAAT+GGG - chr2.2:4740366-4740385 None:intergenic 25.0%
! AAGAAGTTATGATCTGAATA+TGG + chr2.2:4741818-4741837 MS.gene052067:intron 25.0%
! AATAAGTTGTTTATCCAAAC+AGG - chr2.2:4740679-4740698 None:intergenic 25.0%
! AATTTCTGCAGCAAAAAAAT+TGG - chr2.2:4740339-4740358 None:intergenic 25.0%
! AGAAACAAACAACCAAATAT+TGG - chr2.2:4741658-4741677 None:intergenic 25.0%
! ATAGTTTCTCAAATGTCTAA+AGG + chr2.2:4741687-4741706 MS.gene052067:intron 25.0%
! ATTTGAACAGATATTTGGAA+TGG + chr2.2:4740520-4740539 MS.gene052067:intron 25.0%
! CTGAATGGTATAAACAAAAA+GGG - chr2.2:4741361-4741380 None:intergenic 25.0%
! GACAGATTTCATATACTTTA+GGG + chr2.2:4741097-4741116 MS.gene052067:intron 25.0%
! TAGTTTAGAGATTGAATTGA+TGG + chr2.2:4741167-4741186 MS.gene052067:intron 25.0%
! TGAATGGTATAAACAAAAAG+GGG - chr2.2:4741360-4741379 None:intergenic 25.0%
! TGACAGATTTCATATACTTT+AGG + chr2.2:4741096-4741115 MS.gene052067:intron 25.0%
! TTTGCAACTAGTTATAATGA+AGG + chr2.2:4741302-4741321 MS.gene052067:intron 25.0%
!! TCTGAATATGGTTTTTACTT+TGG + chr2.2:4741830-4741849 MS.gene052067:intron 25.0%
!!! GGATTTTCATATATTTTGAC+AGG + chr2.2:4741049-4741068 MS.gene052067:intron 25.0%
!!! TCTAAAGGTACAATTTTAGT+TGG + chr2.2:4741702-4741721 MS.gene052067:intron 25.0%
!!! TTATAATGAAGGTTTGTTGT+TGG + chr2.2:4741313-4741332 MS.gene052067:intron 25.0%
AAAACACCAGTTAGACAATA+AGG - chr2.2:4742077-4742096 None:intergenic 30.0%
ACAAAGTTGAGATCAAAATG+GGG - chr2.2:4740365-4740384 None:intergenic 30.0%
AGATGTTTCAAAAGCTATCT+TGG + chr2.2:4740816-4740835 MS.gene052067:intron 30.0%
CATGATTCCAAAAGTAAAAG+AGG - chr2.2:4742025-4742044 None:intergenic 30.0%
CCTGAATGGTATAAACAAAA+AGG - chr2.2:4741362-4741381 None:intergenic 30.0%
TACACCATGGCTATTAAATA+CGG + chr2.2:4741915-4741934 MS.gene052067:intron 30.0%
TATCACTCATAAGTCATAAC+AGG - chr2.2:4741464-4741483 None:intergenic 30.0%
TGCAAAACAATTTAAGTGCT+TGG + chr2.2:4741791-4741810 MS.gene052067:intron 30.0%
TGCAGCAAAAAAATTGGAAT+CGG - chr2.2:4740333-4740352 None:intergenic 30.0%
TTAGGGACTAAGTTAGATAA+AGG + chr2.2:4741140-4741159 MS.gene052067:intron 30.0%
TTCGAATAAACCATAGATGT+TGG + chr2.2:4740652-4740671 MS.gene052067:intron 30.0%
! ATGTTCCTTATGTCTCTTTT+AGG + chr2.2:4741587-4741606 MS.gene052067:intron 30.0%
! TAGCAATCCTCTTTTACTTT+TGG + chr2.2:4742015-4742034 MS.gene052067:intron 30.0%
! TGAAACACAAGAACGATTTT+TGG + chr2.2:4741883-4741902 MS.gene052067:intron 30.0%
!! ATAAGTTTTGTGAGGCTATT+TGG - chr2.2:4740908-4740927 None:intergenic 30.0%
!! CCTTTTTGTTTATACCATTC+AGG + chr2.2:4741359-4741378 MS.gene052067:intron 30.0%
!! GAAAATACTGATTTGTACGA+TGG + chr2.2:4741852-4741871 MS.gene052067:intron 30.0%
!! TAAGTTTTGTGAGGCTATTT+GGG - chr2.2:4740907-4740926 None:intergenic 30.0%
!!! CTCTTTTACTTTTGGAATCA+TGG + chr2.2:4742023-4742042 MS.gene052067:intron 30.0%
!!! GCTTACATAAGCTACTTTTA+TGG + chr2.2:4740751-4740770 MS.gene052067:intron 30.0%
!!! TAAGCTACTTTTATGGCAAA+TGG + chr2.2:4740758-4740777 MS.gene052067:intron 30.0%
AATCTAATTGGTCAGCTTCT+TGG + chr2.2:4742116-4742135 MS.gene052067:CDS 35.0%
ACATCTTACATGCCAGTATT+TGG - chr2.2:4741571-4741590 None:intergenic 35.0%
ACGAAGTTACTGAACACAAA+AGG - chr2.2:4741989-4742008 None:intergenic 35.0%
ACTTTATCTTCTCAGGTACA+AGG + chr2.2:4741497-4741516 MS.gene052067:intron 35.0%
AGACAATAAGGCAGTGATTA+TGG - chr2.2:4742065-4742084 None:intergenic 35.0%
AGAGTTAGAGATCAAACTGA+TGG + chr2.2:4741028-4741047 MS.gene052067:intron 35.0%
ATGTCCGTATTTAATAGCCA+TGG - chr2.2:4741922-4741941 None:intergenic 35.0%
CCAATCCTAAAAGAGACATA+AGG - chr2.2:4741595-4741614 None:intergenic 35.0%
GAACTATAGTTTAGAGACCA+GGG - chr2.2:4740968-4740987 None:intergenic 35.0%
GGCTTATTTGAGCTTATCTA+CGG - chr2.2:4740933-4740952 None:intergenic 35.0%
GGTTGAATTGTTCAACAAGT+AGG + chr2.2:4740565-4740584 MS.gene052067:intron 35.0%
TGAAAAGGAGATGGAGTATA+GGG + chr2.2:4740544-4740563 MS.gene052067:CDS 35.0%
TGTCAGGTGACTAATCTAAT+TGG + chr2.2:4742104-4742123 MS.gene052067:intron 35.0%
! GATATTTGGAATGGCTGAAA+AGG + chr2.2:4740529-4740548 MS.gene052067:intron 35.0%
!! GTTTGTCACTTTATCTTCTC+AGG + chr2.2:4741490-4741509 MS.gene052067:intron 35.0%
!!! ATGTCTCTTTTAGGATTGGA+TGG + chr2.2:4741596-4741615 MS.gene052067:intron 35.0%
!!! CCTTATGTCTCTTTTAGGAT+TGG + chr2.2:4741592-4741611 MS.gene052067:intron 35.0%
!!! TGGTGTTTTTTGTTGTTGTC+AGG + chr2.2:4742088-4742107 MS.gene052067:intron 35.0%
!!! TGTCTCTTTTAGGATTGGAT+GGG + chr2.2:4741597-4741616 MS.gene052067:intron 35.0%
AAGGAGTCCGAGCTAAATAT+GGG + chr2.2:4741516-4741535 MS.gene052067:CDS 40.0%
ACACTTATTGAAGCAGGACT+GGG - chr2.2:4741389-4741408 None:intergenic 40.0%
ATCTTTATCGAGACCAGAAG+GGG - chr2.2:4740286-4740305 None:intergenic 40.0%
CGAACTATAGTTTAGAGACC+AGG - chr2.2:4740969-4740988 None:intergenic 40.0%
CTGAAAAGGAGATGGAGTAT+AGG + chr2.2:4740543-4740562 MS.gene052067:CDS 40.0%
CTGTCATGTTCTCTTGCTTT+CGG + chr2.2:4741235-4741254 MS.gene052067:intron 40.0%
GATCTTTATCGAGACCAGAA+GGG - chr2.2:4740287-4740306 None:intergenic 40.0%
GTCAACACACTTATTGAAGC+AGG - chr2.2:4741395-4741414 None:intergenic 40.0%
TGATCTTTATCGAGACCAGA+AGG - chr2.2:4740288-4740307 None:intergenic 40.0%
TTCTGGTCTCGATAAAGATC+AGG + chr2.2:4740287-4740306 MS.gene052067:CDS 40.0%
! GTTTTCGCCCATATTTAGCT+CGG - chr2.2:4741526-4741545 None:intergenic 40.0%
! TCACTGCCTTATTGTCTAAC+TGG + chr2.2:4742068-4742087 MS.gene052067:intron 40.0%
!! CTACGGTCATAAGTTTTGTG+AGG - chr2.2:4740916-4740935 None:intergenic 40.0%
!! TTGGCTGTTGATTTACACCA+TGG + chr2.2:4741902-4741921 MS.gene052067:intron 40.0%
ACCGCTGTGTTTCCAAATAC+TGG + chr2.2:4741556-4741575 MS.gene052067:CDS 45.0%
ATTGGTCAGCTTCTTGGTAC+TGG + chr2.2:4742122-4742141 MS.gene052067:CDS 45.0%
CAAGGAGTCCGAGCTAAATA+TGG + chr2.2:4741515-4741534 MS.gene052067:CDS 45.0%
CACACTTATTGAAGCAGGAC+TGG - chr2.2:4741390-4741409 None:intergenic 45.0%
CCAAACAGGTCCAACATCTA+TGG - chr2.2:4740665-4740684 None:intergenic 45.0%
CCATAGATGTTGGACCTGTT+TGG + chr2.2:4740662-4740681 MS.gene052067:intron 45.0%
GCCAGTATTTGGAAACACAG+CGG - chr2.2:4741560-4741579 None:intergenic 45.0%
TCTTTATCGAGACCAGAAGG+GGG - chr2.2:4740285-4740304 None:intergenic 45.0%
TGGAATGGCTGAAAAGGAGA+TGG + chr2.2:4740535-4740554 MS.gene052067:CDS 45.0%
! TTTAGAGACCAGGGCTTGTT+TGG - chr2.2:4740959-4740978 None:intergenic 45.0%
AAGCCAATCCAAACAAGCCC+TGG + chr2.2:4740948-4740967 MS.gene052067:intron 50.0%
GGTCTCGATAAAGATCAGGC+AGG + chr2.2:4740291-4740310 MS.gene052067:CDS 50.0%
! AGACCAGGGCTTGTTTGGAT+TGG - chr2.2:4740954-4740973 None:intergenic 50.0%
CAGGACTGGGTCATCCTGAA+TGG - chr2.2:4741376-4741395 None:intergenic 55.0%
GGAAACACAGCGGTCAATGC+AGG - chr2.2:4741550-4741569 None:intergenic 55.0%
! GGTCAGCTTCTTGGTACTGG+CGG + chr2.2:4742125-4742144 MS.gene052067:CDS 55.0%
!! GTCAGCTTCTTGGTACTGGC+GGG + chr2.2:4742126-4742145 MS.gene052067:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 4740274 4742157 4740274 ID=MS.gene052067
chr2.2 mRNA 4740274 4742157 4740274 ID=MS.gene052067.t1;Parent=MS.gene052067
chr2.2 exon 4740274 4740312 4740274 ID=MS.gene052067.t1.exon1;Parent=MS.gene052067.t1
chr2.2 CDS 4740274 4740312 4740274 ID=cds.MS.gene052067.t1;Parent=MS.gene052067.t1
chr2.2 exon 4740530 4740582 4740530 ID=MS.gene052067.t1.exon2;Parent=MS.gene052067.t1
chr2.2 CDS 4740530 4740582 4740530 ID=cds.MS.gene052067.t1;Parent=MS.gene052067.t1
chr2.2 exon 4741381 4741419 4741381 ID=MS.gene052067.t1.exon3;Parent=MS.gene052067.t1
chr2.2 CDS 4741381 4741419 4741381 ID=cds.MS.gene052067.t1;Parent=MS.gene052067.t1
chr2.2 exon 4741512 4741581 4741512 ID=MS.gene052067.t1.exon4;Parent=MS.gene052067.t1
chr2.2 CDS 4741512 4741581 4741512 ID=cds.MS.gene052067.t1;Parent=MS.gene052067.t1
chr2.2 exon 4742110 4742157 4742110 ID=MS.gene052067.t1.exon5;Parent=MS.gene052067.t1
chr2.2 CDS 4742110 4742157 4742110 ID=cds.MS.gene052067.t1;Parent=MS.gene052067.t1
Gene Sequence

>MS.gene052067

ATGGAATGCCCCCTTCTGGTCTCGATAAAGATCAGGCAGGTATCTCTTCTTTTTCTCCGATTCCAATTTTTTTGCTGCAGAAATTGATCCCCATTTTGATCTCAACTTTGTTTCATTTTTTATTTTTGTGTATTACCGTTTGTGATTTCAAGTTTTTATTTTTATTTTCTGGGTATTATTGTTATGATTCATTGTTTGATTTTATTTTTTTTTCATTCTGGATTTGTTTAAATAATTTATTTGTTAATTTGAACAGATATTTGGAATGGCTGAAAAGGAGATGGAGTATAGGGTTGAATTGTTCAACAAGTAGGTTTTCTTCAACTTGTTTTCACAGTTATTGCATTAGTCCTTTTTTACTTTTTTATCAGTTAGATTTTCGAATAAACCATAGATGTTGGACCTGTTTGGATAAACAACTTATTTGCAGCTTAAAGCACAAGTGCTTATGATGTTAAATTAAATGCTTATGTATAAGCTTACATAAGCTACTTTTATGGCAAATGGTAACATAAAGTTAAATTGTTTTTGTATATGCTATAAGATGTTTCAAAAGCTATCTTGGAAAACCTATGAAATTAAGTTGAAGAAAGCTTATGAGAAATGTCATAAGCTGTTTTCAAAATTTCTCCCAAATAGCCTCACAAAACTTATGACCGTAGATAAGCTCAAATAAGCCAATCCAAACAAGCCCTGGTCTCTAAACTATAGTTCGTAAAGTATATAAAATCTGTCAATTTAGTCGCTGCTATTAAGAGTTAGAGATCAAACTGATGGATTTTCATATATTTTGACAGGTTTCATATAATTTATAGACTAAATTGACAGATTTCATATACTTTAGGGACTAATTATATTTATGCAGTTTAGGGACTAAGTTAGATAAAGGCTGATAGTTTAGAGATTGAATTGATGGTTTATTCTAGATTTTTTTATTGAACATACATAGATTTCTATGTCACTGTCATGTTCTCTTGCTTTCGGTATTAACTAGAATATTTATCTTGTTGTGCATTTCTTGTGTGATTTTTGCAACTAGTTATAATGAAGGTTTGTTGTTGGCATAATTATTAATTTGGCTTACCCCTTTTTGTTTATACCATTCAGGATGACCCAGTCCTGCTTCAATAAGTGTGTTGACAATAAGTAAGAAAAAGCTCTTTTTCTGTTGCGTTAATTGTTCGACTCCTGTTATGACTTATGAGTGATATAATTTGTTTGTCACTTTATCTTCTCAGGTACAAGGAGTCCGAGCTAAATATGGGCGAAAACACCTGCATTGACCGCTGTGTTTCCAAATACTGGCATGTAAGATGTTCCTTATGTCTCTTTTAGGATTGGATGGGTCAGAGTTTTTTTTTTTTTTTTTTTTTTTGCAAATCCAATATTTGGTTGTTTGTTTCTCATGCTAAAATAGTTTCTCAAATGTCTAAAGGTACAATTTTAGTTGGTTTACTATCTGTTAAAATGTGCTCTTTTTGAAGTGTACTGTTTTTTGACTTGATAGTTTGATGCAATGCAAAACAATTTAAGTGCTTGGATCAAAGAAGTTATGATCTGAATATGGTTTTTACTTTGGAAAATACTGATTTGTACGATGGTGCAGTGATGAAACACAAGAACGATTTTTGGCTGTTGATTTACACCATGGCTATTAAATACGGACATTACCATTTTAGCATATTTTTTTAACGAAACATGTACAATTCTTACCTTTTGTGTTCAGTAACTTCGTAATATTTAGCAATCCTCTTTTACTTTTGGAATCATGGAAACTGCACTTGTTAACCATAATCACTGCCTTATTGTCTAACTGGTGTTTTTTGTTGTTGTCAGGTGACTAATCTAATTGGTCAGCTTCTTGGTACTGGCGGGAAGCAATGA
Protein sequence

>MS.gene052067.t1

MECPLLVSIKIRQIFGMAEKEMEYRVELFNKMTQSCFNKCVDNKYKESELNMGENTCIDRCVSKYWHVTNLIGQLLGTGGKQ