AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene061006


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 96 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
!!! CTTTTATATTTTATTTTATG+GGG + 10364:80643-80662 MS.gene061006:intron 10.0%
!!! GTATGTTTTTTTTTTTTTTT+TGG + 10364:81639-81658 MS.gene061006:intron 10.0%
!!! TTTTTTTTTTTTTTTTGGAA+GGG + 10364:81644-81663 MS.gene061006:intron 10.0%
!! TAAAAGATATAAGAAAAAGA+AGG - 10364:80629-80648 None:intergenic 15.0%
!! TATTCAAAAAAGTTATCAAA+AGG + 10364:81060-81079 MS.gene061006:intron 15.0%
!!! GTTTTTTTTTTTTTTTTGGA+AGG + 10364:81643-81662 MS.gene061006:intron 15.0%
!!! TTTTTTTTTTTTTTTGGAAG+GGG + 10364:81645-81664 MS.gene061006:intron 15.0%
!! AAAAATGACAAAAAGAAATG+AGG - 10364:80591-80610 None:intergenic 20.0%
!! AACTTTAAGTATTATGTCTT+TGG + 10364:81204-81223 MS.gene061006:intron 20.0%
!! AGTACAATAAATATTTGACT+TGG - 10364:81160-81179 None:intergenic 20.0%
!! CCATATTACAATTATCTATA+GGG + 10364:81722-81741 MS.gene061006:intron 20.0%
!! TCCATATTACAATTATCTAT+AGG + 10364:81721-81740 MS.gene061006:intron 20.0%
!!! TTGTTTTTCATTCTTTGTTT+TGG + 10364:80854-80873 MS.gene061006:intron 20.0%
!!! TTTTTTTTTTTTTTGGAAGG+GGG + 10364:81646-81665 MS.gene061006:intron 20.0%
! AATGAAAAACAAATTAGCGA+TGG - 10364:80846-80865 None:intergenic 25.0%
! ACCAACATTAAAAATATGTG+CGG - 10364:80951-80970 None:intergenic 25.0%
! CCCTATAGATAATTGTAATA+TGG - 10364:81725-81744 None:intergenic 25.0%
! GCTAATATCTTTAATGAACA+GGG + 10364:81293-81312 MS.gene061006:intron 25.0%
! TCAAAAAAGTTATCAAAAGG+AGG + 10364:81063-81082 MS.gene061006:intron 25.0%
! TCAAATTTGTAAACGTAACA+CGG + 10364:81696-81715 MS.gene061006:intron 25.0%
! TGCTAATATCTTTAATGAAC+AGG + 10364:81292-81311 MS.gene061006:intron 25.0%
! TGGTCATTATTATAGAAGTA+GGG - 10364:81468-81487 None:intergenic 25.0%
! TTCATTGGTCAATGATTTAA+GGG + 10364:80754-80773 MS.gene061006:CDS 25.0%
! TTCATTTAGTGAAACTTCAT+TGG - 10364:81488-81507 None:intergenic 25.0%
! TTGGTCATTATTATAGAAGT+AGG - 10364:81469-81488 None:intergenic 25.0%
!! GCTAACTATCATCTTTAAAA+TGG + 10364:81106-81125 MS.gene061006:intron 25.0%
!! TAGTTATCAAAAGGTCATTT+TGG + 10364:81035-81054 MS.gene061006:intron 25.0%
!!! ATTGCAACATTTTGAAACTT+AGG - 10364:81250-81269 None:intergenic 25.0%
!!! TTGCAACATTTTGAAACTTA+GGG - 10364:81249-81268 None:intergenic 25.0%
AAGATGATAGTTAGCATCAA+AGG - 10364:81101-81120 None:intergenic 30.0%
AGTTTCAAAACTTGGTTCAT+TGG + 10364:80739-80758 MS.gene061006:CDS 30.0%
ATGATATCTTGAAACAAGGA+AGG - 10364:81539-81558 None:intergenic 30.0%
CTCAATGATATCTTGAAACA+AGG - 10364:81543-81562 None:intergenic 30.0%
GTAGTTGAGTAGTTATCAAA+AGG + 10364:81026-81045 MS.gene061006:intron 30.0%
GTTCATTGGTCAATGATTTA+AGG + 10364:80753-80772 MS.gene061006:CDS 30.0%
TATTATAGAAGTAGGGAATG+TGG - 10364:81461-81480 None:intergenic 30.0%
TTTGTCTGATTGTTATGCAA+TGG + 10364:80893-80912 MS.gene061006:intron 30.0%
! AGTACTGAAGTTTCAAAACT+TGG + 10364:80731-80750 MS.gene061006:CDS 30.0%
! CTTTTGTTAACCACATATGT+CGG - 10364:81322-81341 None:intergenic 30.0%
!! AAATATTTGACTTGGCAACT+TGG - 10364:81152-81171 None:intergenic 30.0%
!! TCCGCACATATTTTTAATGT+TGG + 10364:80947-80966 MS.gene061006:intron 30.0%
!!! TGCAACATTTTGAAACTTAG+GGG - 10364:81248-81267 None:intergenic 30.0%
AGTTATCAAAAGGAGGTCTA+TGG + 10364:81070-81089 MS.gene061006:intron 35.0%
CGACATATGTGGTTAACAAA+AGG + 10364:81320-81339 MS.gene061006:CDS 35.0%
GAATCTGACAGATAAGAATG+TGG + 10364:81505-81524 MS.gene061006:intron 35.0%
GGAAGAAAAGGACAATTTCA+AGG + 10364:80782-80801 MS.gene061006:CDS 35.0%
TTAATGTTGTTGAAGGACTG+AGG + 10364:80687-80706 MS.gene061006:CDS 35.0%
TTAGCAACGAGATGTTTGAT+GGG + 10364:80530-80549 MS.gene061006:CDS 35.0%
! ACTGAATGTGACATGACTTT+TGG + 10364:81809-81828 MS.gene061006:CDS 35.0%
! CTGAATGTGACATGACTTTT+GGG + 10364:81810-81829 MS.gene061006:CDS 35.0%
! CTTCAGGTTAATGTTGTTGA+AGG + 10364:80680-80699 MS.gene061006:intron 35.0%
! TAACAAAAGTTTTCCTGTGG+TGG - 10364:80513-80532 None:intergenic 35.0%
! TGCTAACAAAAGTTTTCCTG+TGG - 10364:80516-80535 None:intergenic 35.0%
!! CATCGTCGATTTCTATAATG+AGG + 10364:81607-81626 MS.gene061006:CDS 35.0%
!!! GCAACATTTTGAAACTTAGG+GGG - 10364:81247-81266 None:intergenic 35.0%
!!! GGCATCTGTTTTTAATCTTC+AGG + 10364:80664-80683 MS.gene061006:intron 35.0%
AACATTTGGCCGTCTTCATT+TGG + 10364:81761-81780 MS.gene061006:CDS 40.0%
AAGTCATGTCACATTCAGTC+AGG - 10364:81808-81827 None:intergenic 40.0%
AATGAAGACGGCCAAATGTT+TGG - 10364:81761-81780 None:intergenic 40.0%
AGCAATGTCAAGCTTTCTCT+TGG + 10364:81869-81888 MS.gene061006:CDS 40.0%
ATGTTTGATGGGAAGATGGT+AGG + 10364:80541-80560 MS.gene061006:intron 40.0%
GGAAGAGAGATGATTCAGTT+GGG + 10364:81358-81377 MS.gene061006:CDS 40.0%
GTCAATGATTTAAGGGTTGC+TGG + 10364:80761-80780 MS.gene061006:CDS 40.0%
GTTAACAAAAGGCCCATAAG+AGG + 10364:81331-81350 MS.gene061006:CDS 40.0%
GTTAGCAACGAGATGTTTGA+TGG + 10364:80529-80548 MS.gene061006:CDS 40.0%
TATGCAATGGTCAATGTGTG+TGG + 10364:80906-80925 MS.gene061006:intron 40.0%
TCAAGATATCATTGAGCGCA+TGG + 10364:81547-81566 MS.gene061006:CDS 40.0%
TCTCTTCCATGTCCTCTTAT+GGG - 10364:81346-81365 None:intergenic 40.0%
TGGAAGAGAGATGATTCAGT+TGG + 10364:81357-81376 MS.gene061006:CDS 40.0%
TTAAGGGTTGCTGGAAGAAA+AGG + 10364:80770-80789 MS.gene061006:CDS 40.0%
! ACATTTGTCTCAGAGCACTT+TGG + 10364:81836-81855 MS.gene061006:CDS 40.0%
! ATTTGTCTCAGAGCACTTTG+GGG + 10364:81838-81857 MS.gene061006:CDS 40.0%
! CATTTGTCTCAGAGCACTTT+GGG + 10364:81837-81856 MS.gene061006:CDS 40.0%
! CTTAACAGACATGACTTGTG+AGG - 10364:81576-81595 None:intergenic 40.0%
! GTCAGGAAAAGCGTATAAAC+AGG - 10364:81791-81810 None:intergenic 40.0%
AAAAGGCCCATAAGAGGACA+TGG + 10364:81337-81356 MS.gene061006:CDS 45.0%
AAATCGACGATGCAAGCATC+AGG - 10364:81599-81618 None:intergenic 45.0%
AATGTGACAGCGTCGTTCAA+AGG + 10364:81403-81422 MS.gene061006:CDS 45.0%
ACAGGCCTTCCAAATGAAGA+CGG - 10364:81773-81792 None:intergenic 45.0%
ACATTGTCCACGTCAGCAAT+TGG - 10364:81388-81407 None:intergenic 45.0%
ACCACTCAACGCCAAACATT+TGG + 10364:81747-81766 MS.gene061006:CDS 45.0%
CGAGATGTTTGATGGGAAGA+TGG + 10364:80537-80556 MS.gene061006:CDS 45.0%
CTCTCTTCCATGTCCTCTTA+TGG - 10364:81347-81366 None:intergenic 45.0%
GGGTGAGTACATGGGAAATT+TGG + 10364:81666-81685 MS.gene061006:intron 45.0%
GTGTGTGGCAAACACTTGAT+AGG + 10364:80921-80940 MS.gene061006:intron 45.0%
TTTGGCCGTCTTCATTTGGA+AGG + 10364:81765-81784 MS.gene061006:CDS 45.0%
!!! ATCTTTTATATTTTATTTTA+TGG + 10364:80641-80660 MS.gene061006:intron 5.0%
!!! TCTTTTATATTTTATTTTAT+GGG + 10364:80642-80661 MS.gene061006:intron 5.0%
AACAGGGAGTCCGACATATG+TGG + 10364:81309-81328 MS.gene061006:intron 50.0%
GTCAAGCTTTCTCTTGGACC+TGG + 10364:81875-81894 MS.gene061006:CDS 50.0%
TTGGAAGGGGGTGAGTACAT+GGG + 10364:81658-81677 MS.gene061006:intron 50.0%
TTTGGAAGGGGGTGAGTACA+TGG + 10364:81657-81676 MS.gene061006:intron 50.0%
! GCCAAATGTTTGGCGTTGAG+TGG - 10364:81751-81770 None:intergenic 50.0%
AACGTGAGTGGTTCCACCAC+AGG + 10364:80497-80516 MS.gene061006:CDS 55.0%
GGGTGTTCCAATTGCTGACG+TGG + 10364:81378-81397 MS.gene061006:CDS 55.0%
TGACAGCGTCGTTCAAAGGC+AGG + 10364:81407-81426 MS.gene061006:intron 55.0%


Chromosome Type Strat End Strand Name
10364 gene 80497 81897 80497 ID=MS.gene061006
10364 mRNA 80497 81897 80497 ID=MS.gene061006.t1;Parent=MS.gene061006
10364 exon 80497 80558 80497 ID=MS.gene061006.t1.exon1;Parent=MS.gene061006.t1
10364 CDS 80497 80558 80497 ID=cds.MS.gene061006.t1;Parent=MS.gene061006.t1
10364 exon 80686 80803 80686 ID=MS.gene061006.t1.exon2;Parent=MS.gene061006.t1
10364 CDS 80686 80803 80686 ID=cds.MS.gene061006.t1;Parent=MS.gene061006.t1
10364 exon 81314 81424 81314 ID=MS.gene061006.t1.exon3;Parent=MS.gene061006.t1
10364 CDS 81314 81424 81314 ID=cds.MS.gene061006.t1;Parent=MS.gene061006.t1
10364 exon 81516 81628 81516 ID=MS.gene061006.t1.exon4;Parent=MS.gene061006.t1
10364 CDS 81516 81628 81516 ID=cds.MS.gene061006.t1;Parent=MS.gene061006.t1
10364 exon 81743 81897 81743 ID=MS.gene061006.t1.exon5;Parent=MS.gene061006.t1
10364 CDS 81743 81897 81743 ID=cds.MS.gene061006.t1;Parent=MS.gene061006.t1
Gene Sequence

>MS.gene061006

AACGTGAGTGGTTCCACCACAGGAAAACTTTTGTTAGCAACGAGATGTTTGATGGGAAGATGGTAGGATCTTTTAAATATAGTTTGTTTTTCCTCATTTCTTTTTGTCATTTTTGCTCGATGTGTAATACCTTCTTTTTCTTATATCTTTTATATTTTATTTTATGGGGCATCTGTTTTTAATCTTCAGGTTAATGTTGTTGAAGGACTGAGGTTGTACGAAGATTTATTTAATAGTACTGAAGTTTCAAAACTTGGTTCATTGGTCAATGATTTAAGGGTTGCTGGAAGAAAAGGACAATTTCAAGGTAAGTGAATTGTGTTGTACGTCTTCATATTGAAAGAATCCATCGCTAATTTGTTTTTCATTCTTTGTTTTGGTTCTTTTTTATAGATTTTTGTCTGATTGTTATGCAATGGTCAATGTGTGTGGCAAACACTTGATAGGCTCTCCGCACATATTTTTAATGTTGGTCATCTCATTGAATAATGATTGTATATATGTATTATTTTAGTAGTCTTTTGTTAAAGTAGTTGAGTAGTTATCAAAAGGTCATTTTGGCTTATTCAAAAAAGTTATCAAAAGGAGGTCTATGGCATTACCTTTGATGCTAACTATCATCTTTAAAATGGTAGCTTGACATTTGTGTATGCCAAGTTGCCAAGTCAAATATTTATTGTACTATGTATTTTCTCGCTCTTGCAGTAAACTTTAAGTATTATGTCTTTGGCTAAATTGCACTTTTCACCCCCTAAGTTTCAAAATGTTGCAATTTTCTCGCTCTGCTAGTTACTTTGCTAATATCTTTAATGAACAGGGAGTCCGACATATGTGGTTAACAAAAGGCCCATAAGAGGACATGGAAGAGAGATGATTCAGTTGGGTGTTCCAATTGCTGACGTGGACAATGTGACAGCGTCGTTCAAAGGCAGGTTTTCTATCTCACATACACAGTTTGTAGCCACATTCCCTACTTCTATAATAATGACCAATGAAGTTTCACTAAATGAATCTGACAGATAAGAATGTGGAATCTATGCCTTCCTTGTTTCAAGATATCATTGAGCGCATGGCTGCCTCACAAGTCATGTCTGTTAAGCCTGATGCTTGCATCGTCGATTTCTATAATGAGGTAGCTTCTTGTATGTTTTTTTTTTTTTTTTGGAAGGGGGTGAGTACATGGGAAATTTGGTTAGATATCAAATTTGTAAACGTAACACGGTATCCATATTACAATTATCTATAGGGTGACCACTCAACGCCAAACATTTGGCCGTCTTCATTTGGAAGGCCTGTTTATACGCTTTTCCTGACTGAATGTGACATGACTTTTGGGAGAACATTTGTCTCAGAGCACTTTGGGGATTATAAAAGCAATGTCAAGCTTTCTCTTGGACCTGG

Protein sequence

>MS.gene061006.t1

NVSGSTTGKLLLATRCLMGRWLMLLKDUGCTKIYLIVLKFQNLVHWSMIUGLLEEKDNFKGVRHMWLTKGPUEDMEERUFSWVFQLLTWTMUQRRSKIRMWNLCLPCFKISLSAWLPHKSCLLSLMLASSISIMRVTTQRQTFGRLHLEGLFIRFSULNVTULLGEHLSQSTLGIIKAMSSFLLDL