AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene22582

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene22582.t1 MTR_5g077900 92.000 125 10 0 19 143 86 210 3.11e-83 244
MS.gene22582.t1 MTR_7g046380 92.000 125 10 0 19 143 268 392 3.80e-83 249
MS.gene22582.t1 MTR_0002s1270 92.000 125 10 0 19 143 260 384 2.35e-82 248
MS.gene22582.t1 MTR_2g092960 42.222 135 77 1 9 142 1068 1202 2.89e-33 123
MS.gene22582.t1 MTR_0462s0020 42.063 126 71 1 19 142 153 278 2.71e-31 114
MS.gene22582.t1 MTR_8g017000 41.791 134 73 3 7 137 536 667 1.01e-24 99.4
MS.gene22582.t1 MTR_2g037270 41.791 134 73 3 7 137 536 667 1.66e-24 98.6
MS.gene22582.t1 MTR_0057s0200 90.698 43 4 0 101 143 1 43 3.77e-23 86.7
MS.gene22582.t1 MTR_4g066320 80.851 47 8 1 98 143 59 105 1.49e-21 84.3
MS.gene22582.t1 MTR_3g011560 38.333 120 62 2 19 137 546 654 5.67e-19 82.8
MS.gene22582.t1 MTR_4g066300 88.235 34 4 0 97 130 5 38 5.43e-15 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 31 sgRNAs with CRISPR-Local

Find 100 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGCCATTAGGTTGCTTTCT+TGG 0.248489 5.2:-4039802 None:intergenic
GCAATAGAAAGAAGGTTAAA+TGG 0.271188 5.2:+4038962 MS.gene22582:CDS
AATAAGTCAGCATCAGTTAA+TGG 0.307934 5.2:-4040016 None:intergenic
GTTAACATATAGAGCTTTAG+AGG 0.328169 5.2:+4038921 MS.gene22582:intron
TCATTGCTTCATTAAGATCT+TGG 0.330442 5.2:-4038800 None:intergenic
GACTTATTTGCGAAACCAAT+GGG 0.406261 5.2:+4040031 MS.gene22582:CDS
AGAGGTTCATCAACTTGCTC+AGG 0.406730 5.2:+4038939 MS.gene22582:CDS
GACAACTAAACTATTGTCCT+TGG 0.409668 5.2:-4038763 None:intergenic
TATCCACAATCATTGCCATT+AGG 0.411955 5.2:-4039814 None:intergenic
TATACTTACTTATATAGATA+TGG 0.415179 5.2:-4038642 None:intergenic
TCTCACTTCACCATGTATGT+TGG 0.471244 5.2:+4038067 None:intergenic
CTGCTAATATTACTAAGTCT+TGG 0.472781 5.2:+4039869 MS.gene22582:CDS
TAGCCAAGAAAGCAACCTAA+TGG 0.495668 5.2:+4039799 MS.gene22582:intron
CAACCTAATGGCAATGATTG+TGG 0.497368 5.2:+4039811 MS.gene22582:CDS
GGAGCAGTTACCCATGTTCA+AGG 0.503945 5.2:+4038088 MS.gene22582:CDS
CAAGAAAACAAGTTGCCCAT+TGG 0.504204 5.2:-4040046 None:intergenic
GTTAATAATTATTTGTCCCA+AGG 0.509187 5.2:+4038746 MS.gene22582:CDS
ACAACTAAACTATTGTCCTT+GGG 0.519949 5.2:-4038762 None:intergenic
TCAGCATCAGTTAATGGCGT+TGG 0.524460 5.2:-4040010 None:intergenic
GGTAACTGCTCCAACATACA+TGG 0.531636 5.2:-4038077 None:intergenic
TGACTTATTTGCGAAACCAA+TGG 0.539938 5.2:+4040030 MS.gene22582:CDS
TGCTCAGGGCAATAGAAAGA+AGG 0.550095 5.2:+4038954 MS.gene22582:CDS
GAGGTTCATCAACTTGCTCA+GGG 0.558482 5.2:+4038940 MS.gene22582:CDS
TAGTCGATTTCCTTGAACAT+GGG 0.569305 5.2:-4038098 None:intergenic
TAATATTACTAAGTCTTGGA+TGG 0.604101 5.2:+4039873 MS.gene22582:CDS
GATCTTGGTGCATTGAACAA+AGG 0.604500 5.2:-4038785 None:intergenic
TTCAGGGACACATACAAACT+AGG 0.610492 5.2:+4038586 MS.gene22582:intron
TCTACGTGTGCAGAAGACAC+TGG 0.621651 5.2:+4038721 MS.gene22582:intron
GTAGTCGATTTCCTTGAACA+TGG 0.625901 5.2:-4038099 None:intergenic
TATTACTAAGTCTTGGATGG+AGG 0.643493 5.2:+4039876 MS.gene22582:CDS
AGCAATACTTGAAACACACA+AGG 0.689942 5.2:-4038121 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTCAAATTATTTAGAAA+GGG + chr5.2:4039475-4039494 MS.gene22582:intron 15.0%
!! AACTAATCACTTTATAAAAA+TGG + chr5.2:4039765-4039784 MS.gene22582:intron 15.0%
!! GTATTATACAAAAGAATTAT+TGG - chr5.2:4039673-4039692 None:intergenic 15.0%
!! TAAACTCAAATTATTTAGAA+AGG + chr5.2:4039474-4039493 MS.gene22582:intron 15.0%
!! TATACTTACTTATATAGATA+TGG - chr5.2:4038645-4038664 None:intergenic 15.0%
!!! AGAAGATTGTAAATTTTTTA+TGG - chr5.2:4039248-4039267 None:intergenic 15.0%
!!! CTTTGATGATTTTTTTAATT+TGG + chr5.2:4038899-4038918 MS.gene22582:intron 15.0%
!! AAATATATAGGGAACAATTA+AGG - chr5.2:4039021-4039040 None:intergenic 20.0%
!! AAGATGTATCAATTTAGATT+AGG + chr5.2:4038222-4038241 MS.gene22582:intron 20.0%
!! AATACTAAAACTAAAGTTCA+GGG + chr5.2:4038570-4038589 MS.gene22582:intron 20.0%
!! AATCATACGGAAAATATATA+GGG - chr5.2:4039032-4039051 None:intergenic 20.0%
!! AATTGAAAACATATAGGTTT+AGG + chr5.2:4039307-4039326 MS.gene22582:intron 20.0%
!! ATTGAAAACATATAGGTTTA+GGG + chr5.2:4039308-4039327 MS.gene22582:intron 20.0%
!! TAAAGTAAAAAAATTCACTG+AGG + chr5.2:4039506-4039525 MS.gene22582:intron 20.0%
!! TAATACAAGAAACAATCATA+CGG - chr5.2:4039045-4039064 None:intergenic 20.0%
!! TAATACTAAAACTAAAGTTC+AGG + chr5.2:4038569-4038588 MS.gene22582:intron 20.0%
!!! AGATTGTAAATTTTTTATGG+AGG - chr5.2:4039245-4039264 None:intergenic 20.0%
!!! ATTGTTTCTTGTATTAAAAG+TGG + chr5.2:4039049-4039068 MS.gene22582:intron 20.0%
!!! GTTTTAGTATTATGATCTTT+TGG - chr5.2:4038561-4038580 None:intergenic 20.0%
!!! TAAACCTATATGTTTTCAAT+TGG - chr5.2:4039308-4039327 None:intergenic 20.0%
! ACAATCAAAAACAAAGAGTA+AGG - chr5.2:4038303-4038322 None:intergenic 25.0%
! ACGTAGAAGAACAATTATTA+AGG - chr5.2:4038708-4038727 None:intergenic 25.0%
! ATAAACAATATCAGCAATCA+AGG - chr5.2:4038348-4038367 None:intergenic 25.0%
! CAATCATACGGAAAATATAT+AGG - chr5.2:4039033-4039052 None:intergenic 25.0%
! GATTAAAATCCAAGCATATT+GGG - chr5.2:4038539-4038558 None:intergenic 25.0%
! GTTAATAATTATTTGTCCCA+AGG + chr5.2:4038746-4038765 MS.gene22582:CDS 25.0%
! TAAAAAAATTCACTGAGGTA+CGG + chr5.2:4039511-4039530 MS.gene22582:intron 25.0%
! TAATATTACTAAGTCTTGGA+TGG + chr5.2:4039873-4039892 MS.gene22582:CDS 25.0%
! TTGGTTAAGTAGTGTAAAAA+AGG - chr5.2:4039654-4039673 None:intergenic 25.0%
!! TAGCTTAATTGATTTAGTAG+TGG - chr5.2:4039380-4039399 None:intergenic 25.0%
!!! ACAAATAGATCAAAAGTGTT+TGG + chr5.2:4038504-4038523 MS.gene22582:intron 25.0%
!!! CAAATAGATCAAAAGTGTTT+GGG + chr5.2:4038505-4038524 MS.gene22582:intron 25.0%
!!! GTTATACATTTTAGTGTTGT+AGG - chr5.2:4038880-4038899 None:intergenic 25.0%
!!! TTTAGTTTGTCTTCTTTTTC+AGG + chr5.2:4038439-4038458 MS.gene22582:intron 25.0%
AAAGAAGACAAACTAAACGT+CGG - chr5.2:4038436-4038455 None:intergenic 30.0%
AACAAGAACCATACTTACTT+TGG - chr5.2:4038995-4039014 None:intergenic 30.0%
AATAAGTCAGCATCAGTTAA+TGG - chr5.2:4040019-4040038 None:intergenic 30.0%
ACAACAGTATCTATTCATGA+AGG - chr5.2:4039695-4039714 None:intergenic 30.0%
ACAACTAAACTATTGTCCTT+GGG - chr5.2:4038765-4038784 None:intergenic 30.0%
ACAAGAACCATACTTACTTT+GGG - chr5.2:4038994-4039013 None:intergenic 30.0%
ATTATTTAGAAAGGGTAGTC+TGG + chr5.2:4039483-4039502 MS.gene22582:intron 30.0%
CTGCTAATATTACTAAGTCT+TGG + chr5.2:4039869-4039888 MS.gene22582:CDS 30.0%
GAAACAAATTTCTACCACAA+TGG - chr5.2:4038252-4038271 None:intergenic 30.0%
GCAATAGAAAGAAGGTTAAA+TGG + chr5.2:4038962-4038981 MS.gene22582:CDS 30.0%
GCAGTGAAACAATATAATCT+TGG + chr5.2:4039161-4039180 MS.gene22582:intron 30.0%
GGAGGATAAACAAGAATAAA+AGG - chr5.2:4039227-4039246 None:intergenic 30.0%
GGATTAAAATCCAAGCATAT+TGG - chr5.2:4038540-4038559 None:intergenic 30.0%
GTAGCCAATTGAAAACATAT+AGG + chr5.2:4039301-4039320 MS.gene22582:intron 30.0%
TATATTAACCTACACACTGT+AGG + chr5.2:4039976-4039995 MS.gene22582:intron 30.0%
TCATTGCTTCATTAAGATCT+TGG - chr5.2:4038803-4038822 None:intergenic 30.0%
! GTTAACATATAGAGCTTTAG+AGG + chr5.2:4038921-4038940 MS.gene22582:intron 30.0%
! TAGACTTAGCTTGATTACAT+TGG + chr5.2:4039538-4039557 MS.gene22582:intron 30.0%
!!! ATCAAAAGTGTTTGGGATTT+TGG + chr5.2:4038512-4038531 MS.gene22582:intron 30.0%
AAAGCAAATTGTTGTCACCA+AGG + chr5.2:4039332-4039351 MS.gene22582:intron 35.0%
AAGAAGACAAACTAAACGTC+GGG - chr5.2:4038435-4038454 None:intergenic 35.0%
AAGCAAATTGTTGTCACCAA+GGG + chr5.2:4039333-4039352 MS.gene22582:intron 35.0%
AGATCTAACTCTGTTCTGTA+TGG - chr5.2:4039574-4039593 None:intergenic 35.0%
AGCAATACTTGAAACACACA+AGG - chr5.2:4038124-4038143 None:intergenic 35.0%
CCATGTGAATGTACAGTAAA+AGG - chr5.2:4039142-4039161 None:intergenic 35.0%
CTTTCTTGGCTACAAATGAA+TGG - chr5.2:4039791-4039810 None:intergenic 35.0%
GACAACTAAACTATTGTCCT+TGG - chr5.2:4038766-4038785 None:intergenic 35.0%
GACTTATTTGCGAAACCAAT+GGG + chr5.2:4040031-4040050 MS.gene22582:CDS 35.0%
GATCTAACTCTGTTCTGTAT+GGG - chr5.2:4039573-4039592 None:intergenic 35.0%
GATTGTCACATTGTGAATCT+CGG + chr5.2:4038317-4038336 MS.gene22582:intron 35.0%
TACAGAACAGAGTTAGATCT+AGG + chr5.2:4039574-4039593 MS.gene22582:intron 35.0%
TATCCACAATCATTGCCATT+AGG - chr5.2:4039817-4039836 None:intergenic 35.0%
TATTACTAAGTCTTGGATGG+AGG + chr5.2:4039876-4039895 MS.gene22582:CDS 35.0%
TGACTTATTTGCGAAACCAA+TGG + chr5.2:4040030-4040049 MS.gene22582:CDS 35.0%
TGCTTCTGCTTATAAAAAGC+TGG + chr5.2:4039618-4039637 MS.gene22582:intron 35.0%
! AGATCTAGGATTCCATTACA+TGG + chr5.2:4039588-4039607 MS.gene22582:intron 35.0%
! CCTTTTACTGTACATTCACA+TGG + chr5.2:4039139-4039158 MS.gene22582:intron 35.0%
! TAGTCGATTTCCTTGAACAT+GGG - chr5.2:4038101-4038120 None:intergenic 35.0%
! TTTGGTTGATGCTGATGTTA+GGG + chr5.2:4038400-4038419 MS.gene22582:intron 35.0%
!! TTTTGGTTGATGCTGATGTT+AGG + chr5.2:4038399-4038418 MS.gene22582:intron 35.0%
AAGCATGTGAGTCCATGTAA+TGG - chr5.2:4039603-4039622 None:intergenic 40.0%
ACCAAAAGAGAGAATTGAGC+TGG - chr5.2:4038386-4038405 None:intergenic 40.0%
ACGATGCATACACCTAACAT+AGG - chr5.2:4038472-4038491 None:intergenic 40.0%
ATTGAAGACCTACAGTGTGT+AGG - chr5.2:4039987-4040006 None:intergenic 40.0%
CAACCTAATGGCAATGATTG+TGG + chr5.2:4039811-4039830 MS.gene22582:CDS 40.0%
CAAGAAAACAAGTTGCCCAT+TGG - chr5.2:4040049-4040068 None:intergenic 40.0%
CGATGCATACACCTAACATA+GGG - chr5.2:4038471-4038490 None:intergenic 40.0%
GTTTCGTCCCAAAGTAAGTA+TGG + chr5.2:4038984-4039003 MS.gene22582:intron 40.0%
TAGCCAAGAAAGCAACCTAA+TGG + chr5.2:4039799-4039818 MS.gene22582:intron 40.0%
TTAGATTAGGAGCTCCATTG+TGG + chr5.2:4038235-4038254 MS.gene22582:intron 40.0%
TTCAGGGACACATACAAACT+AGG + chr5.2:4038586-4038605 MS.gene22582:intron 40.0%
! GATCTTGGTGCATTGAACAA+AGG - chr5.2:4038788-4038807 None:intergenic 40.0%
! GATTTTGGACCCAATATGCT+TGG + chr5.2:4038527-4038546 MS.gene22582:intron 40.0%
! GTAGTCGATTTCCTTGAACA+TGG - chr5.2:4038102-4038121 None:intergenic 40.0%
! TCCAGCTCAATTCTCTCTTT+TGG + chr5.2:4038382-4038401 MS.gene22582:intron 40.0%
! TTGCCATTAGGTTGCTTTCT+TGG - chr5.2:4039805-4039824 None:intergenic 40.0%
! TTGGTTGATGCTGATGTTAG+GGG + chr5.2:4038401-4038420 MS.gene22582:intron 40.0%
CTAAGAAACGAACACACCCT+TGG - chr5.2:4039352-4039371 None:intergenic 45.0%
TCAGCATCAGTTAATGGCGT+TGG - chr5.2:4040013-4040032 None:intergenic 45.0%
TGCTCAGGGCAATAGAAAGA+AGG + chr5.2:4038954-4038973 MS.gene22582:CDS 45.0%
! AGAGGTTCATCAACTTGCTC+AGG + chr5.2:4038939-4038958 MS.gene22582:CDS 45.0%
! GAGGTTCATCAACTTGCTCA+GGG + chr5.2:4038940-4038959 MS.gene22582:CDS 45.0%
!! ATAAGTAATTAATATTAATA+AGG - chr5.2:4039959-4039978 None:intergenic 5.0%
GGAGCAGTTACCCATGTTCA+AGG + chr5.2:4038088-4038107 MS.gene22582:CDS 50.0%
TCAGGCTTCGACCCTATGTT+AGG + chr5.2:4038457-4038476 MS.gene22582:intron 50.0%
TCTACGTGTGCAGAAGACAC+TGG + chr5.2:4038721-4038740 MS.gene22582:intron 50.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 4038079 4040069 4038079 ID=MS.gene22582
chr5.2 mRNA 4038079 4040069 4038079 ID=MS.gene22582.t1;Parent=MS.gene22582
chr5.2 exon 4038079 4038135 4038079 ID=MS.gene22582.t1.exon1;Parent=MS.gene22582.t1
chr5.2 CDS 4038079 4038135 4038079 ID=cds.MS.gene22582.t1;Parent=MS.gene22582.t1
chr5.2 exon 4038591 4038655 4038591 ID=MS.gene22582.t1.exon2;Parent=MS.gene22582.t1
chr5.2 CDS 4038591 4038655 4038591 ID=cds.MS.gene22582.t1;Parent=MS.gene22582.t1
chr5.2 exon 4038734 4038838 4038734 ID=MS.gene22582.t1.exon3;Parent=MS.gene22582.t1
chr5.2 CDS 4038734 4038838 4038734 ID=cds.MS.gene22582.t1;Parent=MS.gene22582.t1
chr5.2 exon 4038933 4038996 4038933 ID=MS.gene22582.t1.exon4;Parent=MS.gene22582.t1
chr5.2 CDS 4038933 4038996 4038933 ID=cds.MS.gene22582.t1;Parent=MS.gene22582.t1
chr5.2 exon 4039802 4039897 4039802 ID=MS.gene22582.t1.exon5;Parent=MS.gene22582.t1
chr5.2 CDS 4039802 4039897 4039802 ID=cds.MS.gene22582.t1;Parent=MS.gene22582.t1
chr5.2 exon 4039998 4040069 4039998 ID=MS.gene22582.t1.exon6;Parent=MS.gene22582.t1
chr5.2 CDS 4039998 4040069 4039998 ID=cds.MS.gene22582.t1;Parent=MS.gene22582.t1
Gene Sequence

>MS.gene22582

ATGTATGTTGGAGCAGTTACCCATGTTCAAGGAAATCGACTACCTTGTGTGTTTCAAGTATTGCTTACAAAATGTTCTACGTAATGTCTCTGTTACTAATTTTTTTTATTGAATTAGTTTGAAATTTGAAAAGAAAACTAGTAAAGATGTATCAATTTAGATTAGGAGCTCCATTGTGGTAGAAATTTGTTTCTTTACTTATTGAATTTTTGTACTGTGATCCTTACTCTTTGTTTTTGATTGTCACATTGTGAATCTCGGATGCTCCTTGATTGCTGATATTGTTTATTATTACGTGATTTGTCCAGCTCAATTCTCTCTTTTGGTTGATGCTGATGTTAGGGGATTTACTTCCCGACGTTTAGTTTGTCTTCTTTTTCAGGCTTCGACCCTATGTTAGGTGTATGCATCGTCTCTGTATCTCGACAAATAGATCAAAAGTGTTTGGGATTTTGGACCCAATATGCTTGGATTTTAATCCAAAAGATCATAATACTAAAACTAAAGTTCAGGGACACATACAAACTAGGTTGCGTGATTTGAACAAAGTGTGTTACTTAGCACCATATCTATATAAGTAAGTATATATTTAAATTATTTTTCTTATTTATCTTTGATAGCTTAAACCTTAATAATTGTTCTTCTACGTGTGCAGAAGACACTGGCAGTTAATAATTATTTGTCCCAAGGACAATAGTTTAGTTGTCCTTTGTTCAATGCACCAAGATCTTAATGAAGCAATGATTAAGATTGTTTCAAAGTAAGTGTATATGTTATGTTGCATTTGATATATTACTTCCTACAACACTAAAATGTATAACTTTGATGATTTTTTTAATTTGGTTAACATATAGAGCTTTAGAGGTTCATCAACTTGCTCAGGGCAATAGAAAGAAGGTTAAATGGTTTCGTCCCAAAGTAAGTATGGTTCTTGTTTATCCTTAATTGTTCCCTATATATTTTCCGTATGATTGTTTCTTGTATTAAAAGTGGAATGTGTTTGTCTGTTGAACTCTATTGAACTCTGTTGAACATGATTAAGATATGAATTCTTGTTTATCCTTTTACTGTACATTCACATGGCAGTGAAACAATATAATCTTGGAACTCTGTTGAACATGATTAAGATATGAATTCTTGTTTATCCTTTTATTCTTGTTTATCCTCCATAAAAAATTTACAATCTTCTCTCTCACTCAGTAGCTTAACATAGTTAGAAATAGTAGCCAATTGAAAACATATAGGTTTAGGGAAAAGCAAATTGTTGTCACCAAGGGTGTGTTCGTTTCTTAGCTGCTCCACTACTAAATCAATTAAGCTAGCATGTCTAATGCTAATTATAATGTGATGATATTATATGCTTATATAACAACATCTAAACTTTGAAAACAAGACTAAACTCAAATTATTTAGAAAGGGTAGTCTGGTAAAGTAAAAAAATTCACTGAGGTACGGTAGCTAGACTTAGCTTGATTACATTGGAACAATTGTCCCATACAGAACAGAGTTAGATCTAGGATTCCATTACATGGACTCACATGCTTCTGCTTATAAAAAGCTGGAGAATATGTGCCTTTTTTACACTACTTAACCAATAATTCTTTTGTATAATACCTTCATGAATAGATACTGTTGTAAACTCAAGTCATTATAGAATGATAGATAATAAACAATTTTTTTTTTATGAACTAATCACTTTATAAAAATGGCCATTCATTTGTAGCCAAGAAAGCAACCTAATGGCAATGATTGTGGATACTATGTGATGAAGAATATGCTAGATATCATCTCTGCTAATATTACTAAGTCTTGGATGGAGGTATTTTAATTTTATGATAACATGTTTATACTATATGTATTGTCAAATATAAACATATCCTTATTAATATTAATTACTTATATTAACCTACACACTGTAGGTCTTCAATGATCCAACGCCATTAACTGATGCTGACTTATTTGCGAAACCAATGGGCAACTTGTTTTCTTGA
Protein sequence

>MS.gene22582.t1

MYVGAVTHVQGNRLPCVFQGHIQTRLRDLNKVCYLAPYLYKRHWQLIIICPKDNSLVVLCSMHQDLNEAMIKIVSKALEVHQLAQGNRKKVKWFRPKPRKQPNGNDCGYYVMKNMLDIISANITKSWMEVFNDPTPLTDADLFAKPMGNLFS