AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene056374


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene056374.t1 MTR_4g067150 97.348 264 7 0 1 264 1 264 0.0 526
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene056374.t1 AT3G59400 60.847 189 67 3 79 264 81 265 2.50e-75 230

Find 65 sgRNAs with CRISPR-Local

Find 72 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTTATGTTGGTGGGGTTGA+TGG 0.278584 4.1:-34144553 None:intergenic
CCTTGTTAAATAATTTCTTT+TGG 0.283862 4.1:-34144878 None:intergenic
TTGTCTCTTCATCGGCTTCT+CGG 0.317241 4.1:-34144707 None:intergenic
GGTTGATGGTGGTTGGTTTG+AGG 0.356236 4.1:-34144539 None:intergenic
GTCAGAGGTAAATGACCTTC+TGG 0.364131 4.1:-34145026 None:intergenic
ATGGTGTGGATGATGTTGTT+TGG 0.368599 4.1:-34144623 None:intergenic
GACCATAGTGACAACAAGTT+TGG 0.377134 4.1:+34144846 MS.gene056374:CDS
GACGAAGTTGAAGTTTCATT+TGG 0.378588 4.1:+34145116 MS.gene056374:CDS
TTGGTGGGGTTGATGGTGGT+TGG 0.383998 4.1:-34144546 None:intergenic
TTGAATTGAGTGAAGAGAAT+TGG 0.413727 4.1:-34144442 None:intergenic
TTTGGTGGCACTGAGGGAAA+TGG 0.415272 4.1:+34145134 MS.gene056374:CDS
TGGTGTGGATGATGTTGTTT+GGG 0.423170 4.1:-34144622 None:intergenic
TGGAAGAGGAAGAGTGGGAA+AGG 0.433263 4.1:-34144575 None:intergenic
TATGTTGGTGGGGTTGATGG+TGG 0.435437 4.1:-34144550 None:intergenic
TCAAAACAATTGACCAGCTC+TGG 0.440096 4.1:+34144820 MS.gene056374:CDS
ATCCAAACTTGTTGTCACTA+TGG 0.441920 4.1:-34144848 None:intergenic
AGAAAATGTGACAAAGGAGT+TGG 0.445425 4.1:-34144595 None:intergenic
AGGAGTTGGAAGAGGAAGAG+TGG 0.448305 4.1:-34144581 None:intergenic
TCTGAGCTGCTTCGCCTGCT+AGG 0.457028 4.1:-34144746 None:intergenic
GGAGTTGGAAGAGGAAGAGT+GGG 0.460311 4.1:-34144580 None:intergenic
CTGGAGGAGTTCAAAGGAGC+TGG 0.460854 4.1:-34144661 None:intergenic
ATGAAACTTCAACTTCGTCT+TGG 0.463961 4.1:-34145112 None:intergenic
CGTCTTCTCATCGTCCTAGC+AGG 0.467340 4.1:+34144732 MS.gene056374:CDS
CACTATGGTCTCTCCAGAGC+TGG 0.482449 4.1:-34144833 None:intergenic
CTTCACCAAGTTCTTCATCA+AGG 0.483845 4.1:+34144911 MS.gene056374:CDS
GTGGGAAAGGGTTATGTTGG+TGG 0.485083 4.1:-34144562 None:intergenic
GTTTCATTTGGTGGCACTGA+GGG 0.487844 4.1:+34145128 MS.gene056374:CDS
TGTGACAAAGGAGTTGGAAG+AGG 0.494362 4.1:-34144589 None:intergenic
ACCAAGTTCTTCATCAAGGT+TGG 0.494609 4.1:+34144915 MS.gene056374:CDS
AAAAGATTCATCAAAACCAT+TGG 0.496372 4.1:+34145172 MS.gene056374:CDS
AGTTCTTCATCAAGGTTGGT+TGG 0.506590 4.1:+34144919 MS.gene056374:CDS
TCTTGGACTGCATCAAAAGC+TGG 0.506697 4.1:-34145095 None:intergenic
GGAAGAGGAAGAGTGGGAAA+GGG 0.507715 4.1:-34144574 None:intergenic
GGCGAAGCAGCTCAGAAGCG+TGG 0.511684 4.1:+34144753 MS.gene056374:CDS
CTGGTTTGAGAGGTTGATGA+TGG 0.511778 4.1:-34144642 None:intergenic
AAGACGTCTTGTCTCTTCAT+CGG 0.512265 4.1:-34144715 None:intergenic
AGATGGAACAATATAACTAT+AGG 0.512780 4.1:+34144961 MS.gene056374:CDS
TTGAAGATCTTGGTAGCCAA+TGG 0.513830 4.1:-34145188 None:intergenic
TGGGAAAGGGTTATGTTGGT+GGG 0.515839 4.1:-34144561 None:intergenic
AGAGTGGGAAAGGGTTATGT+TGG 0.523394 4.1:-34144565 None:intergenic
TTCAAAGGAGCTGGTTTGAG+AGG 0.533319 4.1:-34144652 None:intergenic
GAAGTTGAAGTTTCATTTGG+TGG 0.538306 4.1:+34145119 MS.gene056374:CDS
ACCAACCTTGATGAAGAACT+TGG 0.545583 4.1:-34144916 None:intergenic
CCAAAAGAAATTATTTAACA+AGG 0.554192 4.1:+34144878 MS.gene056374:CDS
GGAGATAGAAAATGTGACAA+AGG 0.554776 4.1:-34144601 None:intergenic
TTGAGAGGTTGATGATGGTG+TGG 0.562770 4.1:-34144637 None:intergenic
CAGTTTCAGAAGGGTAGTAG+TGG 0.564931 4.1:-34144485 None:intergenic
GGGAAAGGGTTATGTTGGTG+GGG 0.565442 4.1:-34144560 None:intergenic
AGTGAGGATGAAAGTGTGGA+TGG 0.569347 4.1:-34144513 None:intergenic
TGGCTGAGAGATGCTGCTGG+AGG 0.581059 4.1:-34144677 None:intergenic
GAAGAAGCTTGACACTGAGA+TGG 0.583534 4.1:+34144944 MS.gene056374:CDS
GATGGAGGAGCAGTTTCAGA+AGG 0.592373 4.1:-34144495 None:intergenic
GAGGGAAATGGAGCACTCAA+AGG 0.594924 4.1:+34145146 MS.gene056374:CDS
AATTGAGTGAAGAGAATTGG+TGG 0.601375 4.1:-34144439 None:intergenic
GAGGATGAAAGTGTGGATGG+AGG 0.603905 4.1:-34144510 None:intergenic
CCTCTGAGTGCATTTGTCAG+AGG 0.605940 4.1:-34145041 None:intergenic
ATGCTGCTGGAGGAGTTCAA+AGG 0.611446 4.1:-34144667 None:intergenic
GGACTGCATCAAAAGCTGGA+TGG 0.636421 4.1:-34145091 None:intergenic
GAAAAGTGAGGATGAAAGTG+TGG 0.636789 4.1:-34144517 None:intergenic
AGCTCCCATATAAACTCTGT+AGG 0.639673 4.1:-34144990 None:intergenic
CTCAATGATGACACTCCAGA+AGG 0.645146 4.1:+34145011 MS.gene056374:CDS
ATGGAGGAGCAGTTTCAGAA+GGG 0.648881 4.1:-34144494 None:intergenic
GGTTGGTTTGAGGAAAAGTG+AGG 0.680158 4.1:-34144529 None:intergenic
AGTTTCATTTGGTGGCACTG+AGG 0.701247 4.1:+34145127 MS.gene056374:CDS
CCTCTGACAAATGCACTCAG+AGG 0.721539 4.1:+34145041 MS.gene056374:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CCAAAAGAAATTATTTAACA+AGG + chr4.1:34144878-34144897 MS.gene056374:CDS 20.0%
!!! CCTTGTTAAATAATTTCTTT+TGG - chr4.1:34144881-34144900 None:intergenic 20.0%
! AAAAGATTCATCAAAACCAT+TGG + chr4.1:34145172-34145191 MS.gene056374:CDS 25.0%
! AGATGGAACAATATAACTAT+AGG + chr4.1:34144961-34144980 MS.gene056374:CDS 25.0%
!! TTTTCCTACAGAGTTTATAT+GGG + chr4.1:34144986-34145005 MS.gene056374:CDS 25.0%
TTGAATTGAGTGAAGAGAAT+TGG - chr4.1:34144445-34144464 None:intergenic 30.0%
! CTTTTCCTACAGAGTTTATA+TGG + chr4.1:34144985-34145004 MS.gene056374:CDS 30.0%
!!! ATAGTCTGTTTTGAAGATCT+TGG - chr4.1:34145201-34145220 None:intergenic 30.0%
AATTGAGTGAAGAGAATTGG+TGG - chr4.1:34144442-34144461 None:intergenic 35.0%
AGAAAATGTGACAAAGGAGT+TGG - chr4.1:34144598-34144617 None:intergenic 35.0%
ATGAAACTTCAACTTCGTCT+TGG - chr4.1:34145115-34145134 None:intergenic 35.0%
GAAGTTGAAGTTTCATTTGG+TGG + chr4.1:34145119-34145138 MS.gene056374:CDS 35.0%
GACGAAGTTGAAGTTTCATT+TGG + chr4.1:34145116-34145135 MS.gene056374:CDS 35.0%
GGAGATAGAAAATGTGACAA+AGG - chr4.1:34144604-34144623 None:intergenic 35.0%
!! ATCCAAACTTGTTGTCACTA+TGG - chr4.1:34144851-34144870 None:intergenic 35.0%
AAGACGTCTTGTCTCTTCAT+CGG - chr4.1:34144718-34144737 None:intergenic 40.0%
ACCAACCTTGATGAAGAACT+TGG - chr4.1:34144919-34144938 None:intergenic 40.0%
ACCAAGTTCTTCATCAAGGT+TGG + chr4.1:34144915-34144934 MS.gene056374:CDS 40.0%
AGCTCCCATATAAACTCTGT+AGG - chr4.1:34144993-34145012 None:intergenic 40.0%
ATGGTGTGGATGATGTTGTT+TGG - chr4.1:34144626-34144645 None:intergenic 40.0%
CTTCACCAAGTTCTTCATCA+AGG + chr4.1:34144911-34144930 MS.gene056374:CDS 40.0%
GAAAAGTGAGGATGAAAGTG+TGG - chr4.1:34144520-34144539 None:intergenic 40.0%
GACCATAGTGACAACAAGTT+TGG + chr4.1:34144846-34144865 MS.gene056374:CDS 40.0%
TCAAAACAATTGACCAGCTC+TGG + chr4.1:34144820-34144839 MS.gene056374:CDS 40.0%
! AGTTCTTCATCAAGGTTGGT+TGG + chr4.1:34144919-34144938 MS.gene056374:CDS 40.0%
! TGGCTATGTTTTCTTCTCAG+AGG + chr4.1:34144773-34144792 MS.gene056374:CDS 40.0%
! TGGTGTGGATGATGTTGTTT+GGG - chr4.1:34144625-34144644 None:intergenic 40.0%
! TTGAAGATCTTGGTAGCCAA+TGG - chr4.1:34145191-34145210 None:intergenic 40.0%
!! AGAGCTGGTCAATTGTTTTG+AGG - chr4.1:34144821-34144840 None:intergenic 40.0%
AGAGTGGGAAAGGGTTATGT+TGG - chr4.1:34144568-34144587 None:intergenic 45.0%
ATGGAGGAGCAGTTTCAGAA+GGG - chr4.1:34144497-34144516 None:intergenic 45.0%
CAGTTTCAGAAGGGTAGTAG+TGG - chr4.1:34144488-34144507 None:intergenic 45.0%
CTCAATGATGACACTCCAGA+AGG + chr4.1:34145011-34145030 MS.gene056374:CDS 45.0%
GAAGAAGCTTGACACTGAGA+TGG + chr4.1:34144944-34144963 MS.gene056374:CDS 45.0%
GTCAGAGGTAAATGACCTTC+TGG - chr4.1:34145029-34145048 None:intergenic 45.0%
TCTTGGACTGCATCAAAAGC+TGG - chr4.1:34145098-34145117 None:intergenic 45.0%
TGGGAAAGGGTTATGTTGGT+GGG - chr4.1:34144564-34144583 None:intergenic 45.0%
TGTGACAAAGGAGTTGGAAG+AGG - chr4.1:34144592-34144611 None:intergenic 45.0%
! AGTGAGGATGAAAGTGTGGA+TGG - chr4.1:34144516-34144535 None:intergenic 45.0%
! AGTTTCATTTGGTGGCACTG+AGG + chr4.1:34145127-34145146 MS.gene056374:CDS 45.0%
! GTTTCATTTGGTGGCACTGA+GGG + chr4.1:34145128-34145147 MS.gene056374:CDS 45.0%
!! ATCGGCTTCTCGGAAGTTTT+TGG - chr4.1:34144700-34144719 None:intergenic 45.0%
!! CTGGTTTGAGAGGTTGATGA+TGG - chr4.1:34144645-34144664 None:intergenic 45.0%
!! GGTTGGTTTGAGGAAAAGTG+AGG - chr4.1:34144532-34144551 None:intergenic 45.0%
!! TTCAAAGGAGCTGGTTTGAG+AGG - chr4.1:34144655-34144674 None:intergenic 45.0%
!! TTGAGAGGTTGATGATGGTG+TGG - chr4.1:34144640-34144659 None:intergenic 45.0%
!! TTGTCTCTTCATCGGCTTCT+CGG - chr4.1:34144710-34144729 None:intergenic 45.0%
AGGAGTTGGAAGAGGAAGAG+TGG - chr4.1:34144584-34144603 None:intergenic 50.0%
ATGCTGCTGGAGGAGTTCAA+AGG - chr4.1:34144670-34144689 None:intergenic 50.0%
CCTCTGACAAATGCACTCAG+AGG + chr4.1:34145041-34145060 MS.gene056374:CDS 50.0%
CCTCTGAGTGCATTTGTCAG+AGG - chr4.1:34145044-34145063 None:intergenic 50.0%
GATGGAGGAGCAGTTTCAGA+AGG - chr4.1:34144498-34144517 None:intergenic 50.0%
GGAAGAGGAAGAGTGGGAAA+GGG - chr4.1:34144577-34144596 None:intergenic 50.0%
GGACTGCATCAAAAGCTGGA+TGG - chr4.1:34145094-34145113 None:intergenic 50.0%
GGAGTTGGAAGAGGAAGAGT+GGG - chr4.1:34144583-34144602 None:intergenic 50.0%
GGGAAAGGGTTATGTTGGTG+GGG - chr4.1:34144563-34144582 None:intergenic 50.0%
GTGGGAAAGGGTTATGTTGG+TGG - chr4.1:34144565-34144584 None:intergenic 50.0%
TGGAAGAGGAAGAGTGGGAA+AGG - chr4.1:34144578-34144597 None:intergenic 50.0%
! GAGGATGAAAGTGTGGATGG+AGG - chr4.1:34144513-34144532 None:intergenic 50.0%
! GAGGGAAATGGAGCACTCAA+AGG + chr4.1:34145146-34145165 MS.gene056374:CDS 50.0%
! GGTTATGTTGGTGGGGTTGA+TGG - chr4.1:34144556-34144575 None:intergenic 50.0%
! TTTGGTGGCACTGAGGGAAA+TGG + chr4.1:34145134-34145153 MS.gene056374:CDS 50.0%
!! GGTTGATGGTGGTTGGTTTG+AGG - chr4.1:34144542-34144561 None:intergenic 50.0%
!! TATGTTGGTGGGGTTGATGG+TGG - chr4.1:34144553-34144572 None:intergenic 50.0%
!! TTTTGGCTGAGAGATGCTGC+TGG - chr4.1:34144683-34144702 None:intergenic 50.0%
CACTATGGTCTCTCCAGAGC+TGG - chr4.1:34144836-34144855 None:intergenic 55.0%
CGTCTTCTCATCGTCCTAGC+AGG + chr4.1:34144732-34144751 MS.gene056374:CDS 55.0%
CTGGAGGAGTTCAAAGGAGC+TGG - chr4.1:34144664-34144683 None:intergenic 55.0%
!! TTGGTGGGGTTGATGGTGGT+TGG - chr4.1:34144549-34144568 None:intergenic 55.0%
TCTGAGCTGCTTCGCCTGCT+AGG - chr4.1:34144749-34144768 None:intergenic 60.0%
TGGCTGAGAGATGCTGCTGG+AGG - chr4.1:34144680-34144699 None:intergenic 60.0%
GGCGAAGCAGCTCAGAAGCG+TGG + chr4.1:34144753-34144772 MS.gene056374:CDS 65.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 34144435 34145229 34144435 ID=MS.gene056374
chr4.1 mRNA 34144435 34145229 34144435 ID=MS.gene056374.t1;Parent=MS.gene056374
chr4.1 exon 34144435 34145229 34144435 ID=MS.gene056374.t1.exon1;Parent=MS.gene056374.t1
chr4.1 CDS 34144435 34145229 34144435 ID=cds.MS.gene056374.t1;Parent=MS.gene056374.t1
Gene Sequence

>MS.gene056374

ATGGCCACCAATTCTCTTCACTCAATTCAACATCATTCTCTCAGCAAACGCCACTACTACCCTTCTGAAACTGCTCCTCCATCCACACTTTCATCCTCACTTTTCCTCAAACCAACCACCATCAACCCCACCAACATAACCCTTTCCCACTCTTCCTCTTCCAACTCCTTTGTCACATTTTCTATCTCCCAAACAACATCATCCACACCATCATCAACCTCTCAAACCAGCTCCTTTGAACTCCTCCAGCAGCATCTCTCAGCCAAAAACTTCCGAGAAGCCGATGAAGAGACAAGACGTCTTCTCATCGTCCTAGCAGGCGAAGCAGCTCAGAAGCGTGGCTATGTTTTCTTCTCAGAGGTTCAGTTCATCTCAGAAGCAGACCTCAAAACAATTGACCAGCTCTGGAGAGACCATAGTGACAACAAGTTTGGATACAGTGTCCAAAAGAAATTATTTAACAAGGCTAAAAAAGACTTCACCAAGTTCTTCATCAAGGTTGGTTGGATGAAGAAGCTTGACACTGAGATGGAACAATATAACTATAGGTCTTTTCCTACAGAGTTTATATGGGAGCTCAATGATGACACTCCAGAAGGTCATTTACCTCTGACAAATGCACTCAGAGGAACACAGTTGCTAAGTTATATTTTTAACCATCCAGCTTTTGATGCAGTCCAAGACGAAGTTGAAGTTTCATTTGGTGGCACTGAGGGAAATGGAGCACTCAAAGGATTAAAAGATTCATCAAAACCATTGGCTACCAAGATCTTCAAAACAGACTATAGTTTCTGA

Protein sequence

>MS.gene056374.t1

MATNSLHSIQHHSLSKRHYYPSETAPPSTLSSSLFLKPTTINPTNITLSHSSSSNSFVTFSISQTTSSTPSSTSQTSSFELLQQHLSAKNFREADEETRRLLIVLAGEAAQKRGYVFFSEVQFISEADLKTIDQLWRDHSDNKFGYSVQKKLFNKAKKDFTKFFIKVGWMKKLDTEMEQYNYRSFPTEFIWELNDDTPEGHLPLTNALRGTQLLSYIFNHPAFDAVQDEVEVSFGGTEGNGALKGLKDSSKPLATKIFKTDYSF