AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene68965


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 0 sgRNAs with CRISPR-Local

Find 143 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAATAATTATGTAGTTATA+AGG - 32680:9237-9256 None:intergenic 10.0%
!!! AATATTTTGAAATCTTTAAA+GGG + 32680:10548-10567 MS.gene68965:intron 10.0%
!!! TTCTTATAATTTTATGATAA+AGG + 32680:10308-10327 MS.gene68965:intron 10.0%
!! TGTGTAACATAATAAAATAT+TGG - 32680:10001-10020 None:intergenic 15.0%
!!! AAAAATAGAAAATTTGCTTT+TGG - 32680:9142-9161 None:intergenic 15.0%
!!! ATATTTTGAAATCTTTAAAG+GGG + 32680:10549-10568 MS.gene68965:intron 15.0%
!!! CAATATTTTGAAATCTTTAA+AGG + 32680:10547-10566 MS.gene68965:intron 15.0%
!!! TTTTTTATCTTATTCATGTT+TGG + 32680:9316-9335 MS.gene68965:intron 15.0%
!! ACATTTAAATACTTATACTG+TGG + 32680:10484-10503 MS.gene68965:intron 20.0%
!! ATCTCTAAATCTTTCTTAAT+AGG - 32680:9782-9801 None:intergenic 20.0%
!! TCTCTAAATCTTTCTTAATA+GGG - 32680:9781-9800 None:intergenic 20.0%
!! TGATTTATGATAGAACATTA+TGG + 32680:9880-9899 MS.gene68965:intron 20.0%
!!! AAATATTGGTTAGACATTAT+TGG - 32680:9987-10006 None:intergenic 20.0%
!!! ATATGTAAAAGCTATACTTT+TGG - 32680:10074-10093 None:intergenic 20.0%
!!! CTTTTACATATTTATCACAA+AGG + 32680:10083-10102 MS.gene68965:intron 20.0%
!!! TATGATCTCTATATTTTTCT+TGG + 32680:9510-9529 MS.gene68965:intron 20.0%
!!! TATTTTGAAATCTTTAAAGG+GGG + 32680:10550-10569 MS.gene68965:intron 20.0%
!!! TCATTTTCATAGTATCATTT+GGG - 32680:10386-10405 None:intergenic 20.0%
!!! TTCATTTTCATAGTATCATT+TGG - 32680:10387-10406 None:intergenic 20.0%
! AAAAAAACACCAACACAAAT+AGG - 32680:10339-10358 None:intergenic 25.0%
! AAATGTTTGTAAAAGACTTC+TGG - 32680:10470-10489 None:intergenic 25.0%
! ACTTAACAAATCATACCATT+AGG - 32680:10213-10232 None:intergenic 25.0%
! AGAATTTACTTTCAGTATTC+AGG + 32680:8896-8915 MS.gene68965:intron 25.0%
! ATTGAAATTTAAACACAACC+TGG - 32680:10585-10604 None:intergenic 25.0%
! CATCATATGTATATCCTATA+TGG + 32680:9374-9393 MS.gene68965:intron 25.0%
! TGAAAAGCTATCCAAATATT+TGG + 32680:10799-10818 MS.gene68965:CDS 25.0%
! TGATGTACATTATACCATAT+AGG - 32680:9391-9410 None:intergenic 25.0%
! TTTATGAAGTGTATTGTGTT+TGG + 32680:9415-9434 MS.gene68965:intron 25.0%
!! TATGTAATATCTGTCTGTTT+TGG - 32680:9096-9115 None:intergenic 25.0%
!! TTATCACCTATGCAATTTTT+CGG - 32680:9201-9220 None:intergenic 25.0%
!! TTTTCCTAAGGTATGAATTT+GGG + 32680:9667-9686 MS.gene68965:intron 25.0%
!!! ATTGATTTGTCTATGGAATA+GGG + 32680:9052-9071 MS.gene68965:intron 25.0%
!!! GAACAATATTGATTTGTCTA+TGG + 32680:9045-9064 MS.gene68965:intron 25.0%
!!! TATTGATTTGTCTATGGAAT+AGG + 32680:9051-9070 MS.gene68965:intron 25.0%
!!! TGTGTTGGTGTTTTTTTTTT+TGG + 32680:10342-10361 MS.gene68965:intron 25.0%
!!! TTTAGCTTTAATTGCAGTTT+CGG + 32680:9260-9279 MS.gene68965:intron 25.0%
!!! TTTTCTTGTGTCTTTGTTTA+TGG + 32680:8841-8860 MS.gene68965:intron 25.0%
AAACCATTCCTATTCATTCA+TGG + 32680:9698-9717 MS.gene68965:intron 30.0%
AACAACATTCAAAATCTTGC+CGG - 32680:10858-10877 None:intergenic 30.0%
AAGCTATCCAAATATTTGGA+TGG + 32680:10803-10822 MS.gene68965:CDS 30.0%
AGATTGACCATCCAAATATT+TGG - 32680:10813-10832 None:intergenic 30.0%
ATACCTTATATGCTGCATTA+AGG - 32680:8980-8999 None:intergenic 30.0%
ATGGATTTAACAAGCTGATT+TGG + 32680:8860-8879 MS.gene68965:intron 30.0%
CAAATTCATACCTTAGGAAA+AGG - 32680:9668-9687 None:intergenic 30.0%
CTAAATCCGAAAAATTGCAT+AGG + 32680:9192-9211 MS.gene68965:intron 30.0%
GATTAATGAGTTAGATCGAA+TGG + 32680:9799-9818 MS.gene68965:intron 30.0%
TCCATAAGTGAGTGAAAATA+GGG - 32680:9288-9307 None:intergenic 30.0%
TGAATAGGAATGGTTTGATA+TGG - 32680:9694-9713 None:intergenic 30.0%
TTCCATAAGTGAGTGAAAAT+AGG - 32680:9289-9308 None:intergenic 30.0%
TTCTTGGCATATATTTCAGT+GGG + 32680:9526-9545 MS.gene68965:intron 30.0%
TTTCTTGGCATATATTTCAG+TGG + 32680:9525-9544 MS.gene68965:intron 30.0%
! AATTACTGATTGCGTCAAAT+AGG + 32680:10031-10050 MS.gene68965:intron 30.0%
! CAAGATTTTGAATGTTGTTC+TGG + 32680:10859-10878 MS.gene68965:CDS 30.0%
! CTTTTCCTAAGGTATGAATT+TGG + 32680:9666-9685 MS.gene68965:intron 30.0%
! TATTGGTTAGACATTATTGG+AGG - 32680:9984-10003 None:intergenic 30.0%
! TGTAAAAGCTATACTTTTGG+TGG - 32680:10071-10090 None:intergenic 30.0%
! TTTTCACTCACTTATGGAAT+TGG + 32680:9290-9309 MS.gene68965:intron 30.0%
!! CACCAATCTTGATGTTTTTA+CGG - 32680:10886-10905 None:intergenic 30.0%
!!! AGCGGTATTTTTTTTCCTAA+TGG + 32680:10195-10214 MS.gene68965:intron 30.0%
!!! ATCGTTTTTTAGGTAGAACT+TGG + 32680:8677-8696 MS.gene68965:CDS 30.0%
!!! TGCAACAATTTTTTCCTCTT+GGG + 32680:10249-10268 MS.gene68965:intron 30.0%
!!! TTGCAACAATTTTTTCCTCT+TGG + 32680:10248-10267 MS.gene68965:intron 30.0%
AAAAATACCGCTGTAAGTTG+TGG - 32680:10187-10206 None:intergenic 35.0%
AAGCCATGAATGAATAGGAA+TGG - 32680:9704-9723 None:intergenic 35.0%
ACAACATTCAAAATCTTGCC+GGG - 32680:10857-10876 None:intergenic 35.0%
ACATATAACAGACATGATCG+TGG - 32680:10640-10659 None:intergenic 35.0%
ACGCAATCAGTAATTGTAGA+GGG - 32680:10026-10045 None:intergenic 35.0%
AGGAAGAGAATTTATGTTCC+CGG + 32680:10836-10855 MS.gene68965:CDS 35.0%
ATATTGTTCGCTTATTCCCT+TGG - 32680:9034-9053 None:intergenic 35.0%
ATTTGGATGGTCAATCTATC+AGG + 32680:10816-10835 MS.gene68965:CDS 35.0%
CAACGAAGTTGTTCTATAGT+AGG - 32680:8772-8791 None:intergenic 35.0%
CCATAAGTGAGTGAAAATAG+GGG - 32680:9287-9306 None:intergenic 35.0%
CTGTTATATGTTGTAACTGC+AGG + 32680:10649-10668 MS.gene68965:intron 35.0%
GACCGTAAAAACATCAAGAT+TGG + 32680:10881-10900 MS.gene68965:CDS 35.0%
GTTCCTTAATGCAGCATATA+AGG + 32680:8974-8993 MS.gene68965:CDS 35.0%
TATAGTAGGTTCCTCATCAA+CGG - 32680:8758-8777 None:intergenic 35.0%
TCAAAGACATGGAATACTAG+CGG + 32680:8640-8659 MS.gene68965:CDS 35.0%
TCATAGTATCATTTGGGCTT+AGG - 32680:10380-10399 None:intergenic 35.0%
TCTTCATAAATGCATCGCTA+AGG + 32680:8792-8811 MS.gene68965:CDS 35.0%
TCTTGCCATTAATCTGAACT+GGG - 32680:10712-10731 None:intergenic 35.0%
TTAAATGTGCCATCAGACAA+AGG - 32680:8721-8740 None:intergenic 35.0%
TTGACAAGCCATGAATGAAT+AGG - 32680:9709-9728 None:intergenic 35.0%
TTTCAGTATTCAGGTAACAG+AGG + 32680:8905-8924 MS.gene68965:intron 35.0%
TTTGTCTGATGGCACATTTA+AGG + 32680:8720-8739 MS.gene68965:CDS 35.0%
! ATGCTTTTGCATTAGCATCT+AGG + 32680:10774-10793 MS.gene68965:CDS 35.0%
! TAGATCGAATGGTGTCAATT+TGG + 32680:9810-9829 MS.gene68965:intron 35.0%
! TGCTTTTGCATTAGCATCTA+GGG + 32680:10775-10794 MS.gene68965:CDS 35.0%
!!! GTTTTTTAGGTAGAACTTGG+AGG + 32680:8680-8699 MS.gene68965:CDS 35.0%
!!! TCCATTGTTTTTGCATCCAA+GGG + 32680:9015-9034 MS.gene68965:intron 35.0%
!!! TTCCATTGTTTTTGCATCCA+AGG + 32680:9014-9033 MS.gene68965:intron 35.0%
AAGGCACAACCTATTTGTGT+TGG + 32680:10327-10346 MS.gene68965:intron 40.0%
AGAGAGAAGCGAAGGAAAAA+AGG - 32680:9476-9495 None:intergenic 40.0%
CACTGGAATTTCTGCAATGA+TGG + 32680:8950-8969 MS.gene68965:CDS 40.0%
CAGATTAATGGCAAGACAAG+AGG + 32680:10716-10735 MS.gene68965:CDS 40.0%
CAGGTAACAGAGGAAATTGA+AGG + 32680:8915-8934 MS.gene68965:intron 40.0%
CTTATACTGTGGTTGTGAAG+AGG + 32680:10495-10514 MS.gene68965:intron 40.0%
GACGCAATCAGTAATTGTAG+AGG - 32680:10027-10046 None:intergenic 40.0%
GCATGTTTCTTCAACCTGAA+TGG - 32680:10744-10763 None:intergenic 40.0%
GTCTTGCCATTAATCTGAAC+TGG - 32680:10713-10732 None:intergenic 40.0%
TAGAACTGTATCCGTTGATG+AGG + 32680:8744-8763 MS.gene68965:CDS 40.0%
TCCCTTGGATGCAAAAACAA+TGG - 32680:9019-9038 None:intergenic 40.0%
TGGACCCAAATTCATACCTT+AGG - 32680:9674-9693 None:intergenic 40.0%
TTGCGTCAAATAGGTATCTC+TGG + 32680:10040-10059 MS.gene68965:intron 40.0%
! AGAACTTGGAGGTTGATTGT+TGG + 32680:8691-8710 MS.gene68965:CDS 40.0%
! CCCCTATTTTCACTCACTTA+TGG + 32680:9284-9303 MS.gene68965:intron 40.0%
! CGAATGGTGTCAATTTGGAT+GGG + 32680:9815-9834 MS.gene68965:intron 40.0%
! CGTAGGCTAATGATTTTGTG+TGG - 32680:9643-9662 None:intergenic 40.0%
! TCGAATGGTGTCAATTTGGA+TGG + 32680:9814-9833 MS.gene68965:intron 40.0%
! TTACTCAAGTTGTTCCCAAG+AGG - 32680:10266-10285 None:intergenic 40.0%
!! TAATGCAAAAGCATCCTCCT+CGG - 32680:10768-10787 None:intergenic 40.0%
!!! GAAGGCGTACATCGTTTTTT+AGG + 32680:8667-8686 MS.gene68965:CDS 40.0%
!!! TAAAGGGGGATGTTTTTTCC+AGG + 32680:10564-10583 MS.gene68965:intron 40.0%
AAAGCCTCAACCACTGATCT+TGG - 32680:9560-9579 None:intergenic 45.0%
ACATCCAAGATCAGTGGTTG+AGG + 32680:9553-9572 MS.gene68965:CDS 45.0%
GGACAAACATCCAAGATCAG+TGG + 32680:9547-9566 MS.gene68965:CDS 45.0%
GGCAAATCCTGCTTATCTGA+AGG + 32680:10670-10689 MS.gene68965:intron 45.0%
GGTTGTGAAGAGGATCAATC+TGG + 32680:10505-10524 MS.gene68965:intron 45.0%
GTCCTCCCAGTTCAGATTAA+TGG + 32680:10704-10723 MS.gene68965:CDS 45.0%
GTCGTATCCTTCAGATAAGC+AGG - 32680:10680-10699 None:intergenic 45.0%
TACACAGCCACAACTTACAG+CGG + 32680:10177-10196 MS.gene68965:intron 45.0%
TACCTTAGGAAAAGGCTCGT+AGG - 32680:9660-9679 None:intergenic 45.0%
TGCCATTAATCTGAACTGGG+AGG - 32680:10709-10728 None:intergenic 45.0%
! AAGCCTTATCCCACTAAGTG+GGG - 32680:9929-9948 None:intergenic 45.0%
! CAAGCCTTATCCCACTAAGT+GGG - 32680:9930-9949 None:intergenic 45.0%
! GTTGGCTTACCTTTGTCTGA+TGG + 32680:8709-8728 MS.gene68965:CDS 45.0%
! TCAAGCCTTATCCCACTAAG+TGG - 32680:9931-9950 None:intergenic 45.0%
! TGGAATACTAGCGGCATTGA+AGG + 32680:8649-8668 MS.gene68965:CDS 45.0%
!! CAAGACAAGAGGTACCATTC+AGG + 32680:10727-10746 MS.gene68965:CDS 45.0%
ACTAAGTGGGGTCAGCAACA+TGG - 32680:9917-9936 None:intergenic 50.0%
ATCACCATATGCGCCACACA+TGG + 32680:9592-9611 MS.gene68965:CDS 50.0%
ATGTTGCTGACCCCACTTAG+TGG + 32680:9916-9935 MS.gene68965:intron 50.0%
CTCGTAACAGAGAGAAGCGA+AGG - 32680:9484-9503 None:intergenic 50.0%
GGTTGAAGAAACATGCACCG+AGG + 32680:10748-10767 MS.gene68965:CDS 50.0%
TGAAGAAACATGCACCGAGG+AGG + 32680:10751-10770 MS.gene68965:CDS 50.0%
TGACCCCACTTAGTGGGATA+AGG + 32680:9923-9942 MS.gene68965:intron 50.0%
TGTTGCTGACCCCACTTAGT+GGG + 32680:9917-9936 MS.gene68965:intron 50.0%
! AGCCTACGAGCCTTTTCCTA+AGG + 32680:9655-9674 MS.gene68965:CDS 50.0%
! GAAGGCACACGATTCAACAC+TGG + 32680:8933-8952 MS.gene68965:CDS 50.0%
ATATGCGCCACACATGGCTG+AGG + 32680:9598-9617 MS.gene68965:CDS 55.0%
CACACATGGCTGAGGAGCTA+TGG + 32680:9606-9625 MS.gene68965:CDS 55.0%
CATAGCTCCTCAGCCATGTG+TGG - 32680:9608-9627 None:intergenic 55.0%
GAGGAGCTATGGTCTCGTCT+TGG + 32680:9617-9636 MS.gene68965:CDS 55.0%
TCAGCCATGTGTGGCGCATA+TGG - 32680:9599-9618 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
32680 gene 8636 10913 8636 ID=MS.gene68965
32680 mRNA 8636 10913 8636 ID=MS.gene68965.t1;Parent=MS.gene68965
32680 exon 8636 8813 8636 ID=MS.gene68965.t1.exon1;Parent=MS.gene68965.t1
32680 CDS 8636 8813 8636 ID=cds.MS.gene68965.t1;Parent=MS.gene68965.t1
32680 exon 8918 8995 8918 ID=MS.gene68965.t1.exon2;Parent=MS.gene68965.t1
32680 CDS 8918 8995 8918 ID=cds.MS.gene68965.t1;Parent=MS.gene68965.t1
32680 exon 9545 9676 9545 ID=MS.gene68965.t1.exon3;Parent=MS.gene68965.t1
32680 CDS 9545 9676 9545 ID=cds.MS.gene68965.t1;Parent=MS.gene68965.t1
32680 exon 10671 10913 10671 ID=MS.gene68965.t1.exon4;Parent=MS.gene68965.t1
32680 CDS 10671 10913 10671 ID=cds.MS.gene68965.t1;Parent=MS.gene68965.t1
Gene Sequence

>MS.gene68965

AGACTCAAAGACATGGAATACTAGCGGCATTGAAGGCGTACATCGTTTTTTAGGTAGAACTTGGAGGTTGATTGTTGGCTTACCTTTGTCTGATGGCACATTTAAGGATAGAACTGTATCCGTTGATGAGGAACCTACTATAGAACAACTTCGTTGTCTTCATAAATGCATCGCTAAGGTCAATATCTCAACTTTTTAATCATAGTTTTCTTGTGTCTTTGTTTATGGATTTAACAAGCTGATTTGGAACAATTGAGCTAAGAATTTACTTTCAGTATTCAGGTAACAGAGGAAATTGAAGGCACACGATTCAACACTGGAATTTCTGCAATGATGGAGTTCCTTAATGCAGCATATAAGGTATTTATTTGTTTCAACTTCCATTGTTTTTGCATCCAAGGGAATAAGCGAACAATATTGATTTGTCTATGGAATAGGGACTGTATAGAGACTAATTCCAAAACAGACAGATATTACATAAACTAAAACAAAAATAGCAAAGACCAAAAGCAAATTTTCTATTTTTGAGAGATTAAAACAGACGACTTTTTAAAGACTAAATCCGAAAAATTGCATAGGTGATAAAATGTTATTTGAGCCTTATAACTACATAATTATTTTATCTTTAGCTTTAATTGCAGTTTCGGTCCCCTATTTTCACTCACTTATGGAATTGGTCTTTTTTTATCTTATTCATGTTTGGCTTGATGCAATAAGAAGCAAAATGAAAATATGCATCATCATATGTATATCCTATATGGTATAATGTACATCACATCTTTATGAAGTGTATTGTGTTTGGTTTTATTTTTTTTTATTTTTGATAGTTCAAGCGTTCCTTTTTTCCTTCGCTTCTCTCTGTTACGAGACTCGATATGATCTCTATATTTTTCTTGGCATATATTTCAGTGGGACAAACATCCAAGATCAGTGGTTGAGGCTTTTGTTTTGCTGTTATCACCATATGCGCCACACATGGCTGAGGAGCTATGGTCTCGTCTTGGCCACACAAAATCATTAGCCTACGAGCCTTTTCCTAAGGTATGAATTTGGGTCCATATCAAACCATTCCTATTCATTCATGGCTTGTCAAGTTATGTGTTCACTGATTTTCAATTTATTTTATAAATAGCATACTATCTCCCTATTAAGAAAGATTTAGAGATTAATGAGTTAGATCGAATGGTGTCAATTTGGATGGGCTAATTTAGCTTCTTAAAAAAAAAATGAGTTAGATCTAAATATGATTTATGATAGAACATTATGGCGTAATTTGATCCATGTTGCTGACCCCACTTAGTGGGATAAGGCTTGATTGTTGTTGTTGTTGTTGACAGCATACTATCCTCCAATAATGTCTAACCAATATTTTATTATGTTACACATTCCCTCTACAATTACTGATTGCGTCAAATAGGTATCTCTGGCTTTTCCACCAAAAGTATAGCTTTTACATATTTATCACAAAGGTATATATTTTTTATTTACAAAGAACAAACTGATGCTTAGTGCTAAATTTCATAACTTTCAACAAGTCATAGTACACAGCCACAACTTACAGCGGTATTTTTTTTCCTAATGGTATGATTTGTTAAGTCGTGAATTATATGATTTGCAACAATTTTTTCCTCTTGGGAACAACTTGAGTAAGTGTTTTAATACATTTTGAAACTTCTTATAATTTTATGATAAAGGCACAACCTATTTGTGTTGGTGTTTTTTTTTTTGGAAGATAAAAGAGCCTAAGCCCAAATGATACTATGAAAATGAAATAAATTTTAACAAAGTTATTTCGCAAAATTTTGAAAAATAAGAATTTTATGCAAGAATACCAGAAGTCTTTTACAAACATTTAAATACTTATACTGTGGTTGTGAAGAGGATCAATCTGGCATTGATATTTTAGTGACACAATATTTTGAAATCTTTAAAGGGGGATGTTTTTTCCAGGTTGTGTTTAAATTTCAATCAAATGAACTTAGTGTCATATCAATACACTAACCACGATCATGTCTGTTATATGTTGTAACTGCAGGCAAATCCTGCTTATCTGAAGGATACGACAGTAGTCCTCCCAGTTCAGATTAATGGCAAGACAAGAGGTACCATTCAGGTTGAAGAAACATGCACCGAGGAGGATGCTTTTGCATTAGCATCTAGGGATGAAAAGCTATCCAAATATTTGGATGGTCAATCTATCAGGAAGAGAATTTATGTTCCCGGCAAGATTTTGAATGTTGTTCTGGACCGTAAAAACATCAAGATTGGTGTACAGTAG

Protein sequence

>MS.gene68965.t1

RLKDMEYURHURRTSFFRUNLEVDCWLTFVUWHIUGUNCIRUUGTYYRTTSLSSUMHRUGNRGNURHTIQHWNFCNDGVPUCSIUVGQTSKISGUGFCFAVITICATHGUGAMVSSWPHKIISLRAFSUGKSCLSEGYDSSPPSSDUWQDKRYHSGURNMHRGGCFCISIUGUKAIQIFGWSIYQEENLCSRQDFECCSGPUKHQDWCTV