AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene28345


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene28345.t1 MTR_4g067150 98.106 264 5 0 1 264 1 264 0.0 530
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene28345.t1 AT3G59400 60.847 189 67 3 79 264 81 265 1.23e-75 231

Find 65 sgRNAs with CRISPR-Local

Find 74 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTTATGTTGGTGGGGTTGA+TGG 0.249835 4.2:-38669476 None:intergenic
GACCATAGTGACAACAAATT+TGG 0.281402 4.2:+38669769 MS.gene28345:CDS
CCTTATTAAATAATTTCTTT+TGG 0.281882 4.2:-38669801 None:intergenic
CCAAAAGAAATTATTTAATA+AGG 0.285031 4.2:+38669801 MS.gene28345:CDS
TTGTCTCTTCATCGGCTTCT+CGG 0.317241 4.2:-38669630 None:intergenic
GGTTGATGGTGGTTGGTTTG+AGG 0.356236 4.2:-38669462 None:intergenic
ATCCAAATTTGTTGTCACTA+TGG 0.367364 4.2:-38669771 None:intergenic
ATGGCGTGGAGGATGTTGTT+TGG 0.369809 4.2:-38669546 None:intergenic
GACGAAGTTGAAGTTTCATT+TGG 0.377430 4.2:+38670039 MS.gene28345:CDS
TTGGTGGGGTTGATGGTGGT+TGG 0.383998 4.2:-38669469 None:intergenic
AGAAAATGTGATAGAGGAGT+TGG 0.385483 4.2:-38669518 None:intergenic
TGGAAGAGGAAGAGTGAGAG+AGG 0.386701 4.2:-38669498 None:intergenic
TTTGGTAACACTGAAGGAAA+TGG 0.408657 4.2:+38670057 MS.gene28345:CDS
TGGCGTGGAGGATGTTGTTT+GGG 0.430614 4.2:-38669545 None:intergenic
TTGAATTGAGTGAAGAGAAT+TGG 0.431834 4.2:-38669365 None:intergenic
TATGTTGGTGGGGTTGATGG+TGG 0.435437 4.2:-38669473 None:intergenic
TGAGAGAGGGTTATGTTGGT+GGG 0.442343 4.2:-38669484 None:intergenic
AGAGTGAGAGAGGGTTATGT+TGG 0.443722 4.2:-38669488 None:intergenic
GAAGAAGCTTGACACTGAAA+TGG 0.447244 4.2:+38669867 MS.gene28345:CDS
CACTATGGTCCCTCCACAGC+TGG 0.452202 4.2:-38669756 None:intergenic
TCTGAGCTGCTTCGCCTGCT+AGG 0.457028 4.2:-38669669 None:intergenic
CTGGAGGAGTTCAAAGGAGC+TGG 0.460854 4.2:-38669584 None:intergenic
GGAGATAGAAAATGTGATAG+AGG 0.463312 4.2:-38669524 None:intergenic
CGTCTTCTCATCGTCCTAGC+AGG 0.467340 4.2:+38669655 MS.gene28345:CDS
TGTGATAGAGGAGTTGGAAG+AGG 0.470211 4.2:-38669512 None:intergenic
TCCTGGACTGCATCAAAAGC+TGG 0.475555 4.2:-38670018 None:intergenic
CTTCACCAAGTTCTTCATCA+AGG 0.483845 4.2:+38669834 MS.gene28345:CDS
GTGAGAGAGGGTTATGTTGG+TGG 0.487193 4.2:-38669485 None:intergenic
ACCAAGTTCTTCATCAAGGT+TGG 0.494609 4.2:+38669838 MS.gene28345:CDS
AAAAGATTCATCAAAACCAT+TGG 0.496783 4.2:+38670095 MS.gene28345:CDS
AGTTCTTCATCAAGGTTGGT+TGG 0.506590 4.2:+38669842 MS.gene28345:CDS
GGCGAAGCAGCTCAGAAGCG+TGG 0.511684 4.2:+38669676 MS.gene28345:CDS
AAGACGTCTTGTCTCTTCAT+CGG 0.512265 4.2:-38669638 None:intergenic
TTGAAGATCTTGGTAGCCAA+TGG 0.513830 4.2:-38670111 None:intergenic
GTTTCATTTGGTAACACTGA+AGG 0.518176 4.2:+38670051 MS.gene28345:CDS
GTCAGAGGTAAATGACCCTC+TGG 0.526832 4.2:-38669949 None:intergenic
TTCAAAGGAGCTGGTTTGAG+AGG 0.533319 4.2:-38669575 None:intergenic
CTGGTTTGAGAGGTTGATGA+TGG 0.533734 4.2:-38669565 None:intergenic
ATGAAACTTCAACTTCGTCC+TGG 0.535529 4.2:-38670035 None:intergenic
GAAGGAAATGGAGCACTCAA+AGG 0.541600 4.2:+38670069 MS.gene28345:CDS
GAGAGAGGGTTATGTTGGTG+GGG 0.544230 4.2:-38669483 None:intergenic
ACCAACCTTGATGAAGAACT+TGG 0.545583 4.2:-38669839 None:intergenic
AAATGGAGCAATATAACTAC+AGG 0.552072 4.2:+38669884 MS.gene28345:CDS
GGAAGAGGAAGAGTGAGAGA+GGG 0.558791 4.2:-38669497 None:intergenic
AAGGAAATGGAGCACTCAAA+GGG 0.561615 4.2:+38670070 MS.gene28345:CDS
AAACAATTGACCAGCTGTGG+AGG 0.563830 4.2:+38669746 MS.gene28345:CDS
CAGTTTCAGAAGGGTAGTAG+TGG 0.564931 4.2:-38669408 None:intergenic
AGTGAGGATGAAAGTGTGGA+TGG 0.569347 4.2:-38669436 None:intergenic
TGGCTGAGAGATGCTGCTGG+AGG 0.581059 4.2:-38669600 None:intergenic
TCAAAACAATTGACCAGCTG+TGG 0.581708 4.2:+38669743 MS.gene28345:CDS
GATGGAGGAGCAGTTTCAGA+AGG 0.592373 4.2:-38669418 None:intergenic
GAGGATGAAAGTGTGGATGG+AGG 0.603905 4.2:-38669433 None:intergenic
TTGAGAGGTTGATGATGGCG+TGG 0.604696 4.2:-38669560 None:intergenic
CCTCTGAGTGCATTTGTCAG+AGG 0.605940 4.2:-38669964 None:intergenic
ATGCTGCTGGAGGAGTTCAA+AGG 0.611446 4.2:-38669590 None:intergenic
AACAATTGACCAGCTGTGGA+GGG 0.613807 4.2:+38669747 MS.gene28345:CDS
GGACTGCATCAAAAGCTGGA+TGG 0.636421 4.2:-38670014 None:intergenic
GAAAAGTGAGGATGAAAGTG+TGG 0.636789 4.2:-38669440 None:intergenic
CTCAATGATGACACTCCAGA+GGG 0.646176 4.2:+38669934 MS.gene28345:CDS
ATGGAGGAGCAGTTTCAGAA+GGG 0.648881 4.2:-38669417 None:intergenic
AGCTCCCATATAAACTCCGT+AGG 0.660834 4.2:-38669913 None:intergenic
AGAGGTTGATGATGGCGTGG+AGG 0.664388 4.2:-38669557 None:intergenic
GCTCAATGATGACACTCCAG+AGG 0.675722 4.2:+38669933 MS.gene28345:CDS
GGTTGGTTTGAGGAAAAGTG+AGG 0.680158 4.2:-38669452 None:intergenic
CCTCTGACAAATGCACTCAG+AGG 0.721539 4.2:+38669964 MS.gene28345:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CCAAAAGAAATTATTTAATA+AGG + chr4.2:38669801-38669820 MS.gene28345:CDS 15.0%
!!! CCTTATTAAATAATTTCTTT+TGG - chr4.2:38669804-38669823 None:intergenic 15.0%
! AAAAGATTCATCAAAACCAT+TGG + chr4.2:38670095-38670114 MS.gene28345:CDS 25.0%
AAATGGAGCAATATAACTAC+AGG + chr4.2:38669884-38669903 MS.gene28345:CDS 30.0%
TTGAATTGAGTGAAGAGAAT+TGG - chr4.2:38669368-38669387 None:intergenic 30.0%
! TTTTCCTACGGAGTTTATAT+GGG + chr4.2:38669909-38669928 MS.gene28345:CDS 30.0%
!! ATCCAAATTTGTTGTCACTA+TGG - chr4.2:38669774-38669793 None:intergenic 30.0%
!!! ATAGTCTGTTTTGAAGATCT+TGG - chr4.2:38670124-38670143 None:intergenic 30.0%
AGAAAATGTGATAGAGGAGT+TGG - chr4.2:38669521-38669540 None:intergenic 35.0%
GACCATAGTGACAACAAATT+TGG + chr4.2:38669769-38669788 MS.gene28345:CDS 35.0%
GACGAAGTTGAAGTTTCATT+TGG + chr4.2:38670039-38670058 MS.gene28345:CDS 35.0%
GGAGATAGAAAATGTGATAG+AGG - chr4.2:38669527-38669546 None:intergenic 35.0%
! CTTTTCCTACGGAGTTTATA+TGG + chr4.2:38669908-38669927 MS.gene28345:CDS 35.0%
! GTTTCATTTGGTAACACTGA+AGG + chr4.2:38670051-38670070 MS.gene28345:CDS 35.0%
! TAACTACAGGTCTTTTCCTA+CGG + chr4.2:38669897-38669916 MS.gene28345:CDS 35.0%
! TTTGGTAACACTGAAGGAAA+TGG + chr4.2:38670057-38670076 MS.gene28345:CDS 35.0%
AAGACGTCTTGTCTCTTCAT+CGG - chr4.2:38669641-38669660 None:intergenic 40.0%
ACCAACCTTGATGAAGAACT+TGG - chr4.2:38669842-38669861 None:intergenic 40.0%
ACCAAGTTCTTCATCAAGGT+TGG + chr4.2:38669838-38669857 MS.gene28345:CDS 40.0%
ATGAAACTTCAACTTCGTCC+TGG - chr4.2:38670038-38670057 None:intergenic 40.0%
CTTCACCAAGTTCTTCATCA+AGG + chr4.2:38669834-38669853 MS.gene28345:CDS 40.0%
GAAAAGTGAGGATGAAAGTG+TGG - chr4.2:38669443-38669462 None:intergenic 40.0%
GAAGAAGCTTGACACTGAAA+TGG + chr4.2:38669867-38669886 MS.gene28345:CDS 40.0%
TCAAAACAATTGACCAGCTG+TGG + chr4.2:38669743-38669762 MS.gene28345:CDS 40.0%
! AAGGAAATGGAGCACTCAAA+GGG + chr4.2:38670070-38670089 MS.gene28345:CDS 40.0%
! AGTTCTTCATCAAGGTTGGT+TGG + chr4.2:38669842-38669861 MS.gene28345:CDS 40.0%
! TGGCTATGTTTTCTTCTCAG+AGG + chr4.2:38669696-38669715 MS.gene28345:CDS 40.0%
! TTGAAGATCTTGGTAGCCAA+TGG - chr4.2:38670114-38670133 None:intergenic 40.0%
!! ACAGCTGGTCAATTGTTTTG+AGG - chr4.2:38669744-38669763 None:intergenic 40.0%
AAACAATTGACCAGCTGTGG+AGG + chr4.2:38669746-38669765 MS.gene28345:CDS 45.0%
AACAATTGACCAGCTGTGGA+GGG + chr4.2:38669747-38669766 MS.gene28345:CDS 45.0%
AGAGTGAGAGAGGGTTATGT+TGG - chr4.2:38669491-38669510 None:intergenic 45.0%
AGCTCCCATATAAACTCCGT+AGG - chr4.2:38669916-38669935 None:intergenic 45.0%
ATGGAGGAGCAGTTTCAGAA+GGG - chr4.2:38669420-38669439 None:intergenic 45.0%
CAGTTTCAGAAGGGTAGTAG+TGG - chr4.2:38669411-38669430 None:intergenic 45.0%
CTCAATGATGACACTCCAGA+GGG + chr4.2:38669934-38669953 MS.gene28345:CDS 45.0%
TGAGAGAGGGTTATGTTGGT+GGG - chr4.2:38669487-38669506 None:intergenic 45.0%
TGTGATAGAGGAGTTGGAAG+AGG - chr4.2:38669515-38669534 None:intergenic 45.0%
! AGTGAGGATGAAAGTGTGGA+TGG - chr4.2:38669439-38669458 None:intergenic 45.0%
! GAAGGAAATGGAGCACTCAA+AGG + chr4.2:38670069-38670088 MS.gene28345:CDS 45.0%
!! ATCGGCTTCTCGGAAGTTTT+TGG - chr4.2:38669623-38669642 None:intergenic 45.0%
!! CTGGTTTGAGAGGTTGATGA+TGG - chr4.2:38669568-38669587 None:intergenic 45.0%
!! GGTTGGTTTGAGGAAAAGTG+AGG - chr4.2:38669455-38669474 None:intergenic 45.0%
!! TTCAAAGGAGCTGGTTTGAG+AGG - chr4.2:38669578-38669597 None:intergenic 45.0%
!! TTGTCTCTTCATCGGCTTCT+CGG - chr4.2:38669633-38669652 None:intergenic 45.0%
ATGCTGCTGGAGGAGTTCAA+AGG - chr4.2:38669593-38669612 None:intergenic 50.0%
ATGGCGTGGAGGATGTTGTT+TGG - chr4.2:38669549-38669568 None:intergenic 50.0%
CCTCTGACAAATGCACTCAG+AGG + chr4.2:38669964-38669983 MS.gene28345:CDS 50.0%
CCTCTGAGTGCATTTGTCAG+AGG - chr4.2:38669967-38669986 None:intergenic 50.0%
GAGAGAGGGTTATGTTGGTG+GGG - chr4.2:38669486-38669505 None:intergenic 50.0%
GATGGAGGAGCAGTTTCAGA+AGG - chr4.2:38669421-38669440 None:intergenic 50.0%
GCTCAATGATGACACTCCAG+AGG + chr4.2:38669933-38669952 MS.gene28345:CDS 50.0%
GGAAGAGGAAGAGTGAGAGA+GGG - chr4.2:38669500-38669519 None:intergenic 50.0%
GGACTGCATCAAAAGCTGGA+TGG - chr4.2:38670017-38670036 None:intergenic 50.0%
GTCAGAGGTAAATGACCCTC+TGG - chr4.2:38669952-38669971 None:intergenic 50.0%
GTGAGAGAGGGTTATGTTGG+TGG - chr4.2:38669488-38669507 None:intergenic 50.0%
TCCTGGACTGCATCAAAAGC+TGG - chr4.2:38670021-38670040 None:intergenic 50.0%
TGGAAGAGGAAGAGTGAGAG+AGG - chr4.2:38669501-38669520 None:intergenic 50.0%
! GAGGATGAAAGTGTGGATGG+AGG - chr4.2:38669436-38669455 None:intergenic 50.0%
! GGTTATGTTGGTGGGGTTGA+TGG - chr4.2:38669479-38669498 None:intergenic 50.0%
! TCCAGCTTTTGATGCAGTCC+AGG + chr4.2:38670017-38670036 MS.gene28345:CDS 50.0%
! TGGCGTGGAGGATGTTGTTT+GGG - chr4.2:38669548-38669567 None:intergenic 50.0%
!! GGTTGATGGTGGTTGGTTTG+AGG - chr4.2:38669465-38669484 None:intergenic 50.0%
!! TATGTTGGTGGGGTTGATGG+TGG - chr4.2:38669476-38669495 None:intergenic 50.0%
!! TTGAGAGGTTGATGATGGCG+TGG - chr4.2:38669563-38669582 None:intergenic 50.0%
!! TTTTGGCTGAGAGATGCTGC+TGG - chr4.2:38669606-38669625 None:intergenic 50.0%
CGTCTTCTCATCGTCCTAGC+AGG + chr4.2:38669655-38669674 MS.gene28345:CDS 55.0%
CTGGAGGAGTTCAAAGGAGC+TGG - chr4.2:38669587-38669606 None:intergenic 55.0%
!! AGAGGTTGATGATGGCGTGG+AGG - chr4.2:38669560-38669579 None:intergenic 55.0%
!! TTGGTGGGGTTGATGGTGGT+TGG - chr4.2:38669472-38669491 None:intergenic 55.0%
CACTATGGTCCCTCCACAGC+TGG - chr4.2:38669759-38669778 None:intergenic 60.0%
TCTGAGCTGCTTCGCCTGCT+AGG - chr4.2:38669672-38669691 None:intergenic 60.0%
TGGCTGAGAGATGCTGCTGG+AGG - chr4.2:38669603-38669622 None:intergenic 60.0%
GGCGAAGCAGCTCAGAAGCG+TGG + chr4.2:38669676-38669695 MS.gene28345:CDS 65.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 38669358 38670152 38669358 ID=MS.gene28345
chr4.2 mRNA 38669358 38670152 38669358 ID=MS.gene28345.t1;Parent=MS.gene28345
chr4.2 exon 38669358 38670152 38669358 ID=MS.gene28345.t1.exon1;Parent=MS.gene28345.t1
chr4.2 CDS 38669358 38670152 38669358 ID=cds.MS.gene28345.t1;Parent=MS.gene28345.t1
Gene Sequence

>MS.gene28345

ATGGCAACCAATTCTCTTCACTCAATTCAACATCATTCTCTCAGCAAACGCCACTACTACCCTTCTGAAACTGCTCCTCCATCCACACTTTCATCCTCACTTTTCCTCAAACCAACCACCATCAACCCCACCAACATAACCCTCTCTCACTCTTCCTCTTCCAACTCCTCTATCACATTTTCTATCTCCCAAACAACATCCTCCACGCCATCATCAACCTCTCAAACCAGCTCCTTTGAACTCCTCCAGCAGCATCTCTCAGCCAAAAACTTCCGAGAAGCCGATGAAGAGACAAGACGTCTTCTCATCGTCCTAGCAGGCGAAGCAGCTCAGAAGCGTGGCTATGTTTTCTTCTCAGAGGTTCAGTTCATCTCAGAAGCAGACCTCAAAACAATTGACCAGCTGTGGAGGGACCATAGTGACAACAAATTTGGATACAGTGTCCAAAAGAAATTATTTAATAAGGCTAAAAAAGACTTCACCAAGTTCTTCATCAAGGTTGGTTGGATGAAGAAGCTTGACACTGAAATGGAGCAATATAACTACAGGTCTTTTCCTACGGAGTTTATATGGGAGCTCAATGATGACACTCCAGAGGGTCATTTACCTCTGACAAATGCACTCAGAGGAACACAGTTGCTAAGTTATATTTTTAACCATCCAGCTTTTGATGCAGTCCAGGACGAAGTTGAAGTTTCATTTGGTAACACTGAAGGAAATGGAGCACTCAAAGGGTTAAAAGATTCATCAAAACCATTGGCTACCAAGATCTTCAAAACAGACTATAGTTTCTGA

Protein sequence

>MS.gene28345.t1

MATNSLHSIQHHSLSKRHYYPSETAPPSTLSSSLFLKPTTINPTNITLSHSSSSNSSITFSISQTTSSTPSSTSQTSSFELLQQHLSAKNFREADEETRRLLIVLAGEAAQKRGYVFFSEVQFISEADLKTIDQLWRDHSDNKFGYSVQKKLFNKAKKDFTKFFIKVGWMKKLDTEMEQYNYRSFPTEFIWELNDDTPEGHLPLTNALRGTQLLSYIFNHPAFDAVQDEVEVSFGNTEGNGALKGLKDSSKPLATKIFKTDYSF