AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene59592


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene59592.t1 MTR_8g028015 99.541 218 1 0 1 218 1 218 6.84e-154 425
MS.gene59592.t1 MTR_8g079890 52.344 128 59 2 1 127 1 127 1.29e-40 137
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene59592.t1 AT5G12230 63.229 223 75 3 1 218 1 221 3.60e-61 191
MS.gene59592.t1 AT5G19480 60.000 215 77 3 1 214 1 207 2.23e-56 178
MS.gene59592.t1 AT5G19480 60.000 215 77 3 1 214 1 207 2.23e-56 178
MS.gene59592.t1 AT5G19480 60.000 215 77 3 1 214 1 207 2.23e-56 178
MS.gene59592.t1 AT5G19480 60.000 215 77 3 1 214 1 207 2.23e-56 178

Find 40 sgRNAs with CRISPR-Local

Find 95 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGGAGCTGTTTCCCTTAGT+TGG 0.360962 8.2:-69324066 None:intergenic
AGCTCAAGAATTGATGAGTT+GGG 0.406971 8.2:+69325162 MS.gene59592:CDS
AGCATAAGAAGCACAAAGAC+AGG 0.416670 8.2:+69324314 MS.gene59592:CDS
AGTGCGGTATTAATTTGAAA+TGG 0.421690 8.2:-69323850 None:intergenic
AAAAGGAGATGGCATGCAAT+TGG 0.425102 8.2:+69323958 MS.gene59592:CDS
TCAAGGAGGCTTTCCAACTA+AGG 0.441770 8.2:+69324053 MS.gene59592:CDS
AAAGGAATACCAACAATTGC+AGG 0.443447 8.2:+69324259 MS.gene59592:CDS
TTTCTTTGAGTGATCAGCAC+TGG 0.476818 8.2:-69324443 None:intergenic
TTTCCCTAATAGGCGGAGAA+AGG 0.487140 8.2:+69324241 MS.gene59592:intron
ACAGGGATAAGGACAAGGAC+AGG 0.491569 8.2:+69324332 MS.gene59592:CDS
CACTACCTGCACAGTGTAGT+AGG 0.493509 8.2:+69323920 MS.gene59592:CDS
GAGCTCAAGAATTGATGAGT+TGG 0.493987 8.2:+69325161 MS.gene59592:CDS
GGAGACACAGAAGTAAGAAA+AGG 0.503306 8.2:+69323941 MS.gene59592:CDS
CTCAAAGAAACACCATGAAA+AGG 0.506144 8.2:+69324456 MS.gene59592:CDS
TCCGCGATTGACACAGGAAG+CGG 0.522644 8.2:-69323893 None:intergenic
TCGGATACAGCCTTTCGACT+TGG 0.534768 8.2:+69324024 MS.gene59592:CDS
GAAGCACAAAGACAGGGATA+AGG 0.543181 8.2:+69324321 MS.gene59592:CDS
CAAGGAGGCTTTCCAACTAA+GGG 0.568109 8.2:+69324054 MS.gene59592:CDS
GCTCAAGAATTGATGAGTTG+GGG 0.569389 8.2:+69325163 MS.gene59592:CDS
TCAGGACCGAGGGAGTTGAC+AGG 0.569665 8.2:+69323809 MS.gene59592:intron
TCTTACAGCAGGCAAATCGA+TGG 0.570777 8.2:-69324086 None:intergenic
TTTCGACTTGGATATACTCA+AGG 0.572941 8.2:+69324036 MS.gene59592:CDS
CTTACAGCAGGCAAATCGAT+GGG 0.583764 8.2:-69324085 None:intergenic
TGTGTGTCCGCGATTGACAC+AGG 0.584301 8.2:-69323899 None:intergenic
ACAGCACCTGTCAACTCCCT+CGG 0.592323 8.2:-69323815 None:intergenic
TGTCTCCTACTACACTGTGC+AGG 0.593991 8.2:-69323925 None:intergenic
GCATAAGAAGCACAAAGACA+GGG 0.602938 8.2:+69324315 MS.gene59592:CDS
ACAGAAGTAAGAAAAGGAGA+TGG 0.606393 8.2:+69323947 MS.gene59592:CDS
GAGGGAGTTGACAGGTGCTG+TGG 0.611611 8.2:+69323817 MS.gene59592:CDS
GATTGAATCATGGATCCTGA+AGG 0.613845 8.2:+69323337 None:intergenic
CAAAGACAGGGATAAGGACA+AGG 0.620436 8.2:+69324327 MS.gene59592:CDS
GCCGCTTCCTGTGTCAATCG+CGG 0.625354 8.2:+69323892 MS.gene59592:CDS
CAGGGATAAGGACAAGGACA+GGG 0.626401 8.2:+69324333 MS.gene59592:CDS
CAGAAGCAAAGACAAAGACA+AGG 0.629036 8.2:+69324387 MS.gene59592:CDS
CGACTTGGATATACTCAAGG+AGG 0.629284 8.2:+69324039 MS.gene59592:CDS
TCTCAAGAGAGACAAGTGCT+CGG 0.651092 8.2:+69324005 MS.gene59592:CDS
TTGAGTATATCCAAGTCGAA+AGG 0.652260 8.2:-69324034 None:intergenic
CTCAAGAATTGATGAGTTGG+GGG 0.664098 8.2:+69325164 MS.gene59592:CDS
TTTCAGAAGAGAAAGCATGA+CGG 0.668893 8.2:+69324946 MS.gene59592:intron
GAAGCACAAACATCGTCACA+AGG 0.684990 8.2:+69324363 MS.gene59592:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATAAAGATTTTATAGAATT+AGG - chr8.2:69323416-69323435 None:intergenic 10.0%
!!! TTAAATTTTTTGGAATTGAA+TGG + chr8.2:69323611-69323630 MS.gene59592:intron 15.0%
!! TCAATTCCAAAAAATTTAAC+AGG - chr8.2:69323610-69323629 None:intergenic 20.0%
!!! TATTGTGCAAACTTTAAAAA+GGG - chr8.2:69323703-69323722 None:intergenic 20.0%
!!! TTATCACCTGTTAAATTTTT+TGG + chr8.2:69323601-69323620 MS.gene59592:intron 20.0%
!!! TTTGAACAAACATCTATTTT+CGG + chr8.2:69324813-69324832 MS.gene59592:intron 20.0%
! AGATATTGAGCAAAAGTAAA+AGG - chr8.2:69324927-69324946 None:intergenic 25.0%
! CATAATATTCTGTGCTAAAT+AGG - chr8.2:69324749-69324768 None:intergenic 25.0%
! GATATAGTGATGTTAAATAG+CGG + chr8.2:69324624-69324643 MS.gene59592:intron 25.0%
! GTTATCTAATTGACAATACT+TGG + chr8.2:69323506-69323525 MS.gene59592:intron 25.0%
! GTTCTGATTTCATATGTTTA+TGG + chr8.2:69323469-69323488 MS.gene59592:intron 25.0%
! TAATTCTTGCTGAAATCATT+TGG + chr8.2:69324142-69324161 MS.gene59592:intron 25.0%
!! AAATTTCTTCAACCTTTTCA+TGG - chr8.2:69324471-69324490 None:intergenic 25.0%
!! ATTGTGCAAACTTTAAAAAG+GGG - chr8.2:69323702-69323721 None:intergenic 25.0%
!! GTATTGTGCAAACTTTAAAA+AGG - chr8.2:69323704-69323723 None:intergenic 25.0%
!!! TAGTTGTTTATTTTCCCTTT+TGG + chr8.2:69323558-69323577 MS.gene59592:intron 25.0%
ACAAAAAGAAAGACAAAAGC+GGG + chr8.2:69324410-69324429 MS.gene59592:CDS 30.0%
ACACAGAATGTCAAAAAACA+CGG - chr8.2:69323779-69323798 None:intergenic 30.0%
CATTTGCTCTACATACTATT+TGG + chr8.2:69324869-69324888 MS.gene59592:intron 30.0%
GACAAAAAGAAAGACAAAAG+CGG + chr8.2:69324409-69324428 MS.gene59592:CDS 30.0%
GCACAAACATAAAAAGAGTA+AGG + chr8.2:69324990-69325009 MS.gene59592:CDS 30.0%
TCAAGTAAATTTGCAATGAC+AGG - chr8.2:69324545-69324564 None:intergenic 30.0%
TGGACAATGATGTTAAATAC+CGG + chr8.2:69324668-69324687 MS.gene59592:intron 30.0%
TTGCAGAAAAATTCATAGTG+CGG - chr8.2:69323869-69323888 None:intergenic 30.0%
! ACTATGAATTTTTCTGCAAG+AGG + chr8.2:69323870-69323889 MS.gene59592:CDS 30.0%
! AGTGCGGTATTAATTTGAAA+TGG - chr8.2:69323853-69323872 None:intergenic 30.0%
! TTCCTTGTATTTTCCCTAAT+AGG + chr8.2:69324231-69324250 MS.gene59592:intron 30.0%
!! TTGTTTATTTTCCCTTTTGG+CGG + chr8.2:69323561-69323580 MS.gene59592:intron 30.0%
!! TTTGATTTTCCTGCAATTGT+TGG - chr8.2:69324271-69324290 None:intergenic 30.0%
AAAGGAATACCAACAATTGC+AGG + chr8.2:69324259-69324278 MS.gene59592:CDS 35.0%
AAAGTTTCAAATCCGCCAAA+AGG - chr8.2:69323576-69323595 None:intergenic 35.0%
AAGTTTCAAATCCGCCAAAA+GGG - chr8.2:69323575-69323594 None:intergenic 35.0%
AATATACACCAGAAATGTGC+TGG - chr8.2:69325071-69325090 None:intergenic 35.0%
ACAGAAGTAAGAAAAGGAGA+TGG + chr8.2:69323947-69323966 MS.gene59592:CDS 35.0%
ACATTGAACAGTGTTGTCAA+TGG - chr8.2:69324846-69324865 None:intergenic 35.0%
AGCTCAAGAATTGATGAGTT+GGG + chr8.2:69325162-69325181 MS.gene59592:CDS 35.0%
ATATACACCAGAAATGTGCT+GGG - chr8.2:69325070-69325089 None:intergenic 35.0%
CTCAAAGAAACACCATGAAA+AGG + chr8.2:69324456-69324475 MS.gene59592:CDS 35.0%
GATCCTGAAGGAAAAAAGTT+TGG + chr8.2:69323349-69323368 MS.gene59592:CDS 35.0%
GCTATAGCGTTATTGCATAA+TGG + chr8.2:69324648-69324667 MS.gene59592:intron 35.0%
TTGAGTATATCCAAGTCGAA+AGG - chr8.2:69324037-69324056 None:intergenic 35.0%
! CTTGTATTTTCCCTAATAGG+CGG + chr8.2:69324234-69324253 MS.gene59592:intron 35.0%
! TTTCAGAAGAGAAAGCATGA+CGG + chr8.2:69324946-69324965 MS.gene59592:intron 35.0%
!! GTTTGATGATGTGTTCTTTG+TGG + chr8.2:69324192-69324211 MS.gene59592:intron 35.0%
!! TTCTGTGTTTTTGAATCCTC+AGG + chr8.2:69323791-69323810 MS.gene59592:intron 35.0%
!! TTTCGACTTGGATATACTCA+AGG + chr8.2:69324036-69324055 MS.gene59592:CDS 35.0%
AAAAGGAGATGGCATGCAAT+TGG + chr8.2:69323958-69323977 MS.gene59592:CDS 40.0%
ATTCCTTTCTCCGCCTATTA+GGG - chr8.2:69324247-69324266 None:intergenic 40.0%
CAGAAGCAAAGACAAAGACA+AGG + chr8.2:69324387-69324406 MS.gene59592:CDS 40.0%
CCTGAAGGAAAAAAGTTTGG+AGG + chr8.2:69323352-69323371 MS.gene59592:CDS 40.0%
CGCCTATTAGGGAAAATACA+AGG - chr8.2:69324236-69324255 None:intergenic 40.0%
GAAGGAAAAAAGTTTGGAGG+AGG + chr8.2:69323355-69323374 MS.gene59592:CDS 40.0%
GAGCTCAAGAATTGATGAGT+TGG + chr8.2:69325161-69325180 MS.gene59592:CDS 40.0%
GCTACACAATTTCTTACAGC+AGG - chr8.2:69324100-69324119 None:intergenic 40.0%
GCTCAAGAATTGATGAGTTG+GGG + chr8.2:69325163-69325182 MS.gene59592:CDS 40.0%
GGAGACACAGAAGTAAGAAA+AGG + chr8.2:69323941-69323960 MS.gene59592:CDS 40.0%
TATTCCTTTCTCCGCCTATT+AGG - chr8.2:69324248-69324267 None:intergenic 40.0%
TCTATAGCACAATTGCGTAG+TGG + chr8.2:69324788-69324807 MS.gene59592:intron 40.0%
TTGAACAGTGTTGTCAATGG+CGG - chr8.2:69324843-69324862 None:intergenic 40.0%
TTTAAAAAGGGGTGACTGCA+CGG - chr8.2:69323691-69323710 None:intergenic 40.0%
TTTCTTTGAGTGATCAGCAC+TGG - chr8.2:69324446-69324465 None:intergenic 40.0%
! AGCATAAGAAGCACAAAGAC+AGG + chr8.2:69324314-69324333 MS.gene59592:CDS 40.0%
! CTCAAGAATTGATGAGTTGG+GGG + chr8.2:69325164-69325183 MS.gene59592:CDS 40.0%
! GCATAAGAAGCACAAAGACA+GGG + chr8.2:69324315-69324334 MS.gene59592:CDS 40.0%
! TCTGTGCTAAATAGGTATCG+CGG - chr8.2:69324741-69324760 None:intergenic 40.0%
!!! CCTCCAAACTTTTTTCCTTC+AGG - chr8.2:69323355-69323374 None:intergenic 40.0%
ATGCAATAACGCTATAGCGC+CGG - chr8.2:69324690-69324709 None:intergenic 45.0%
CAAAGACAGGGATAAGGACA+AGG + chr8.2:69324327-69324346 MS.gene59592:CDS 45.0%
CAAGGAGGCTTTCCAACTAA+GGG + chr8.2:69324054-69324073 MS.gene59592:CDS 45.0%
CTTACAGCAGGCAAATCGAT+GGG - chr8.2:69324088-69324107 None:intergenic 45.0%
GAAGCACAAACATCGTCACA+AGG + chr8.2:69324363-69324382 MS.gene59592:CDS 45.0%
GAAGCACAAAGACAGGGATA+AGG + chr8.2:69324321-69324340 MS.gene59592:CDS 45.0%
TCAAGGAGGCTTTCCAACTA+AGG + chr8.2:69324053-69324072 MS.gene59592:CDS 45.0%
TCTCAAGAGAGACAAGTGCT+CGG + chr8.2:69324005-69324024 MS.gene59592:CDS 45.0%
TCTTACAGCAGGCAAATCGA+TGG - chr8.2:69324089-69324108 None:intergenic 45.0%
TTTCCCTAATAGGCGGAGAA+AGG + chr8.2:69324241-69324260 MS.gene59592:intron 45.0%
TTTCTGTCCCAGCACATTTC+TGG + chr8.2:69325060-69325079 MS.gene59592:intron 45.0%
! CGACTTGGATATACTCAAGG+AGG + chr8.2:69324039-69324058 MS.gene59592:CDS 45.0%
! TGATGAGTTGGGGGCAATAA+AGG + chr8.2:69325173-69325192 MS.gene59592:CDS 45.0%
! TTTTGAATCCTCAGGACCGA+GGG + chr8.2:69323799-69323818 MS.gene59592:intron 45.0%
! TTTTTGAATCCTCAGGACCG+AGG + chr8.2:69323798-69323817 MS.gene59592:intron 45.0%
ACAGGGATAAGGACAAGGAC+AGG + chr8.2:69324332-69324351 MS.gene59592:CDS 50.0%
CACTACCTGCACAGTGTAGT+AGG + chr8.2:69323920-69323939 MS.gene59592:CDS 50.0%
CAGGGATAAGGACAAGGACA+GGG + chr8.2:69324333-69324352 MS.gene59592:CDS 50.0%
TCGGATACAGCCTTTCGACT+TGG + chr8.2:69324024-69324043 MS.gene59592:CDS 50.0%
TGTCTCCTACTACACTGTGC+AGG - chr8.2:69323928-69323947 None:intergenic 50.0%
TTGGGGGCAATAAAGGTTGC+TGG + chr8.2:69325180-69325199 MS.gene59592:CDS 50.0%
! TGGGAGCTGTTTCCCTTAGT+TGG - chr8.2:69324069-69324088 None:intergenic 50.0%
ACAGCACCTGTCAACTCCCT+CGG - chr8.2:69323818-69323837 None:intergenic 55.0%
TCCGCGATTGACACAGGAAG+CGG - chr8.2:69323896-69323915 None:intergenic 55.0%
TGTGTGTCCGCGATTGACAC+AGG - chr8.2:69323902-69323921 None:intergenic 55.0%
GCCGCTTCCTGTGTCAATCG+CGG + chr8.2:69323892-69323911 MS.gene59592:CDS 60.0%
TCAGGACCGAGGGAGTTGAC+AGG + chr8.2:69323809-69323828 MS.gene59592:intron 60.0%
TGTCAACTCCCTCGGTCCTG+AGG - chr8.2:69323810-69323829 None:intergenic 60.0%
! GAGGGAGTTGACAGGTGCTG+TGG + chr8.2:69323817-69323836 MS.gene59592:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 69323346 69325206 69323346 ID=MS.gene59592
chr8.2 mRNA 69323346 69325206 69323346 ID=MS.gene59592.t1;Parent=MS.gene59592
chr8.2 exon 69323346 69323376 69323346 ID=MS.gene59592.t1.exon1;Parent=MS.gene59592.t1
chr8.2 CDS 69323346 69323376 69323346 ID=cds.MS.gene59592.t1;Parent=MS.gene59592.t1
chr8.2 exon 69323813 69324102 69323813 ID=MS.gene59592.t1.exon2;Parent=MS.gene59592.t1
chr8.2 CDS 69323813 69324102 69323813 ID=cds.MS.gene59592.t1;Parent=MS.gene59592.t1
chr8.2 exon 69324253 69324477 69324253 ID=MS.gene59592.t1.exon3;Parent=MS.gene59592.t1
chr8.2 CDS 69324253 69324477 69324253 ID=cds.MS.gene59592.t1;Parent=MS.gene59592.t1
chr8.2 exon 69324952 69325011 69324952 ID=MS.gene59592.t1.exon4;Parent=MS.gene59592.t1
chr8.2 CDS 69324952 69325011 69324952 ID=cds.MS.gene59592.t1;Parent=MS.gene59592.t1
chr8.2 exon 69325156 69325206 69325156 ID=MS.gene59592.t1.exon5;Parent=MS.gene59592.t1
chr8.2 CDS 69325156 69325206 69325156 ID=cds.MS.gene59592.t1;Parent=MS.gene59592.t1
Gene Sequence

>MS.gene59592

ATGGATCCTGAAGGAAAAAAGTTTGGAGGAGGTAAAAGTTTGTTATGATAGTGCTTTATGTTGTATACCTAATTCTATAAAATCTTTATTAGATGTCTCTGTTTTGTATTATTGTATATACAAGTTCTGATTTCATATGTTTATGGCACTGACTGTGCTTGTTATCTAATTGACAATACTTGGTTAAATTTTTAATCAGTTATTCGTGATCTTAGTTGTTTATTTTCCCTTTTGGCGGATTTGAAACTTTGTCAATTATCACCTGTTAAATTTTTTGGAATTGAATGGAAAAGATTAAATTCTCTTAGCATCTTTTGAAGATTGAGTCATAGATAAATATTACCGTGCAGTCACCCCTTTTTAAAGTTTGCACAATACATTTTCTTGTGTATATTTTATATTTAGTTAACACTTACTCATCAAAGAAAAACCGTGTTTTTTGACATTCTGTGTTTTTGAATCCTCAGGACCGAGGGAGTTGACAGGTGCTGTGGATCTCATAAGCCATTTCAAATTAATACCGCACTATGAATTTTTCTGCAAGAGGCCGCTTCCTGTGTCAATCGCGGACACACACTACCTGCACAGTGTAGTAGGAGACACAGAAGTAAGAAAAGGAGATGGCATGCAATTGGACGAACTCATTCAGAATACATCTTTCTCAAGAGAGACAAGTGCTCGGATACAGCCTTTCGACTTGGATATACTCAAGGAGGCTTTCCAACTAAGGGAAACAGCTCCCATCGATTTGCCTGCTGTAAGAAATTGTGTAGCGATTTTGATCATACTTAGTTTTTAATTCTTGCTGAAATCATTTGGCATGCTATCTTAGTATTTTTTAACAAAGTTTGATGATGTGTTCTTTGTGGACTTATATCTTGATTGTTCCTTGTATTTTCCCTAATAGGCGGAGAAAGGAATACCAACAATTGCAGGAAAATCAAAAAGTGAGAAAGACAAAGAGAAGAAGCATAAGAAGCACAAAGACAGGGATAAGGACAAGGACAGGGAGCATAAGAAGCACAAACATCGTCACAAGGACAGAAGCAAAGACAAAGACAAGGACAAAAAGAAAGACAAAAGCGGGCATCGTGATTCCAGTGCTGATCACTCAAAGAAACACCATGAAAAGGTTGAAGAAATTTAGTTTGCTGCATCTGTATTCTTCAGATTGAGAGAAAATATGTTCTGAAAATCCTGTCATTGCAAATTTACTTGACTGTTTTTTATGATTTTTAATTAGTGTCATGCTGATACTGTTAACTCTCATTTTAGTTTGATATAGTGATGTTAAATAGCGGTGCTATAGCGTTATTGCATAATGGACAATGATGTTAAATACCGGCGCTATAGCGTTATTGCATAATGGAACTTGAACAAATCACTATTGTTCCGCGATACCTATTTAGCACAGAATATTATGAAATAACAGTTATAGCAGCTCTATAGCACAATTGCGTAGTGGAATTTGAACAAACATCTATTTTCGGCGATCCGCCATTGACAACACTGTTCAATGTCAACATTTGCTCTACATACTATTTGGACATGTTACAGATATTTAGTTCTATTTATTAACCTTTTACTTTTGCTCAATATCTTTCAGAAGAGAAAGCATGACGGAGATGATGATGCTAATGATGTGCACAAACATAAAAAGAGTAAGGTAATAAAGTAGTAAGAAGCTTAGTCTTGTGATGAGTTTTTTCTGTCTTTTCTGTCCCAGCACATTTCTGGTGTATATTTCTTAGTGATTGACAGTGTCTAATCTTCAATGAACTTCTGTGCTCAATTTCTTAATTTTTTGCAGCACAAGAGCTCAAGAATTGATGAGTTGGGGGCAATAAAGGTTGCTGGCTGA

Protein sequence

>MS.gene59592.t1

MDPEGKKFGGGPRELTGAVDLISHFKLIPHYEFFCKRPLPVSIADTHYLHSVVGDTEVRKGDGMQLDELIQNTSFSRETSARIQPFDLDILKEAFQLRETAPIDLPAAEKGIPTIAGKSKSEKDKEKKHKKHKDRDKDKDREHKKHKHRHKDRSKDKDKDKKKDKSGHRDSSADHSKKHHEKKRKHDGDDDANDVHKHKKSKHKSSRIDELGAIKVAG