AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene36675


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36675.t1 MTR_8g015570 98.601 143 2 0 1 143 1 143 8.63e-102 288
MS.gene36675.t1 MTR_2g100410 91.608 143 12 0 1 143 1 143 1.39e-95 272
MS.gene36675.t1 MTR_8g015570 99.048 105 1 0 1 105 1 105 1.05e-73 215
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36675.t1 AT4G29410 72.727 143 39 0 1 143 1 143 2.04e-72 213
MS.gene36675.t1 AT4G29410 72.727 143 39 0 1 143 1 143 2.04e-72 213
MS.gene36675.t1 AT2G19730 72.727 143 39 0 1 143 1 143 3.12e-71 210
MS.gene36675.t1 AT2G19730 72.727 143 39 0 1 143 1 143 3.12e-71 210
MS.gene36675.t1 AT2G19730 72.727 143 39 0 1 143 1 143 3.12e-71 210

Find 38 sgRNAs with CRISPR-Local

Find 103 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAGAAGAACAACTCTTTCT+TGG 0.235683 8.2:-77763831 MS.gene36675:CDS
TCTTTCTTGGTGAAGGAGTT+TGG 0.288497 8.2:-77763818 MS.gene36675:CDS
GAAGGCTTGTTCTGCTTCCT+TGG 0.330285 8.2:+77762833 None:intergenic
CAGTACCAGGGCCACTCATA+TGG 0.374084 8.2:-77763862 MS.gene36675:CDS
AAGAAAATGGCGACAGTACC+AGG 0.376148 8.2:-77763875 None:intergenic
CCTCTTCTTGACACCGGACT+TGG 0.386828 8.2:+77761996 None:intergenic
GGCAAAGGCCGTTCAAAATC+AGG 0.396746 8.2:-77762765 MS.gene36675:intron
CACCGGACTTGGCAACTTTG+AGG 0.398692 8.2:+77762007 None:intergenic
CAGAGAACTTGTAGGAGTTA+AGG 0.403576 8.2:+77763744 None:intergenic
CTCTGCTGAATTGAACACTC+TGG 0.423197 8.2:+77763786 None:intergenic
TAAAGATCAGTCGGTGTTGT+TGG 0.464399 8.2:-77762867 MS.gene36675:CDS
CTTAACTCCTACAAGTTCTC+TGG 0.465620 8.2:-77763743 MS.gene36675:intron
AGAGCTGCCTTCTTCAGATC+AGG 0.476094 8.2:+77762057 None:intergenic
AGCCTCAAAGTTGCCAAGTC+CGG 0.480021 8.2:-77762009 MS.gene36675:CDS
ATCTTTACCAGCAGGCTGAA+TGG 0.487221 8.2:+77762883 None:intergenic
GAACAACTCTTTCTTGGTGA+AGG 0.490005 8.2:-77763825 MS.gene36675:CDS
ATCTCCCATATGAGTGGCCC+TGG 0.496412 8.2:+77763857 None:intergenic
TCACAAATCTATCATGAAGA+AGG 0.505696 8.2:-77762801 MS.gene36675:CDS
TCTGCTGAATTGAACACTCT+GGG 0.534078 8.2:+77763787 None:intergenic
ACTGTGACCATTCAGCCTGC+TGG 0.535709 8.2:-77762890 MS.gene36675:CDS
GATCGTACCAGAGAACTTGT+AGG 0.544701 8.2:+77763736 None:intergenic
AGTACCAGGGCCACTCATAT+GGG 0.555358 8.2:-77763861 MS.gene36675:CDS
GAAGAGGAACAGACATGCCT+AGG 0.557247 8.2:-77761980 None:intergenic
TGAAGAAGGCAGCTCTTGCA+AGG 0.567533 8.2:-77762050 MS.gene36675:CDS
CTACAGGCCTGATCTGAAGA+AGG 0.570064 8.2:-77762064 MS.gene36675:CDS
ACCGACTGATCTTTACCAGC+AGG 0.573968 8.2:+77762875 None:intergenic
GGAGTTCCGCAGGATGGCAA+AGG 0.575137 8.2:-77762780 MS.gene36675:CDS
TCATGAAGAAGGAGTTCCGC+AGG 0.590257 8.2:-77762790 MS.gene36675:CDS
CCAAGTCCGGTGTCAAGAAG+AGG 0.591931 8.2:-77761996 MS.gene36675:CDS
GCCTGCTGGTAAAGATCAGT+CGG 0.593104 8.2:-77762876 MS.gene36675:CDS
TCTGTTCCTCTTCTTGACAC+CGG 0.602415 8.2:+77761990 None:intergenic
GATTTGTGAGACAAAGCAGA+AGG 0.606292 8.2:+77762815 None:intergenic
AGGTGGCAGATAATTACTAC+AGG 0.609077 8.2:-77762080 MS.gene36675:CDS
GAACGGCCTTTGCCATCCTG+CGG 0.614382 8.2:+77762774 None:intergenic
TTCACGATCTCCCATATGAG+TGG 0.628127 8.2:+77763851 None:intergenic
GAAGAAGGAGTTCCGCAGGA+TGG 0.644679 8.2:-77762786 MS.gene36675:CDS
AGAAAATGGCGACAGTACCA+GGG 0.649815 8.2:-77763874 None:intergenic
TGTTGGCTACAACTAAGCCA+AGG 0.697641 8.2:-77762850 MS.gene36675:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAGTCAAATCTAAATAATT+AGG + chr8.2:77763224-77763243 None:intergenic 15.0%
!! AAAAATATGAACTTGATGAA+TGG + chr8.2:77763377-77763396 None:intergenic 20.0%
!! AAAATATGAACTTGATGAAT+GGG + chr8.2:77763376-77763395 None:intergenic 20.0%
!! AACAAATTAAAGAATAGCTA+TGG + chr8.2:77763287-77763306 None:intergenic 20.0%
!! AACTAAAAATCAACCAAAAT+TGG + chr8.2:77762653-77762672 None:intergenic 20.0%
!! AATGTTATGTTAAAATACGA+AGG + chr8.2:77763738-77763757 None:intergenic 20.0%
!! TTAACATAAACTATGTTGAT+TGG - chr8.2:77762673-77762692 MS.gene36675:intron 20.0%
!!! AAAAATTACCTGATTTTGAA+CGG + chr8.2:77763096-77763115 None:intergenic 20.0%
!!! AGTTTTATAGAACATATGAA+TGG - chr8.2:77763134-77763153 MS.gene36675:intron 20.0%
!!! GGTAAAATTTTAATTGATTC+TGG - chr8.2:77762497-77762516 MS.gene36675:intron 20.0%
!!! GTATTTTAATTGTTTTGTCT+TGG - chr8.2:77762543-77762562 MS.gene36675:intron 20.0%
!!! TTTAACATAACATTTTGATG+TGG - chr8.2:77763744-77763763 MS.gene36675:CDS 20.0%
!!! TTTTTTGTGATTCTGATAAT+GGG - chr8.2:77762146-77762165 MS.gene36675:intron 20.0%
!!! TTTTTTGTGTTTCTGATAAT+GGG - chr8.2:77762595-77762614 MS.gene36675:intron 20.0%
!!! TTTTTTTTGAACAATGATTG+TGG - chr8.2:77762397-77762416 MS.gene36675:intron 20.0%
! AAATGTACTTCAATTGTTAG+TGG - chr8.2:77762476-77762495 MS.gene36675:intron 25.0%
! AATGAATCTTTGTGTTTCAA+TGG - chr8.2:77762883-77762902 MS.gene36675:CDS 25.0%
! AGAATCACAAAAAAGAGAAA+AGG + chr8.2:77762140-77762159 None:intergenic 25.0%
! ATCATCAATTCATCATAATG+AGG + chr8.2:77762271-77762290 None:intergenic 25.0%
! ATTGTCTGATTAACATAGTA+CGG - chr8.2:77762751-77762770 MS.gene36675:intron 25.0%
! GAATCACAAAAAAGAGAAAA+GGG + chr8.2:77762139-77762158 None:intergenic 25.0%
!! ATGATTTTATGCATTTGTGT+GGG - chr8.2:77763330-77763349 MS.gene36675:intron 25.0%
!!! AAGTAGAAGTTTTACTGATT+TGG - chr8.2:77762352-77762371 MS.gene36675:intron 25.0%
!!! AATTTTTTCAAACTCTGGTT+TGG - chr8.2:77763109-77763128 MS.gene36675:intron 25.0%
!!! AGTAGAAGTTTTACTGATTT+GGG - chr8.2:77762353-77762372 MS.gene36675:intron 25.0%
!!! CTTTTTTGTGATTCTGATAA+TGG - chr8.2:77762145-77762164 MS.gene36675:intron 25.0%
!!! GTTTTTTGTGTTTCTGATAA+TGG - chr8.2:77762594-77762613 MS.gene36675:intron 25.0%
!!! TCATGTTTTTCAATTGTTAG+TGG - chr8.2:77762828-77762847 MS.gene36675:CDS 25.0%
!!! TCTTATTTTGTTGCCAATTT+TGG - chr8.2:77762637-77762656 MS.gene36675:intron 25.0%
ACAAATGCATAAAATCATCC+AGG + chr8.2:77763328-77763347 None:intergenic 30.0%
ACCTATCATACATCAATGTA+AGG + chr8.2:77762925-77762944 None:intergenic 30.0%
ATATTTCACTCCTATCATAG+GGG + chr8.2:77762317-77762336 None:intergenic 30.0%
ATGTTAAAATACGAAGGAAC+TGG + chr8.2:77763732-77763751 None:intergenic 30.0%
CATATTTCACTCCTATCATA+GGG + chr8.2:77762318-77762337 None:intergenic 30.0%
CTTACAATGTACATGTTCTA+GGG - chr8.2:77762572-77762591 MS.gene36675:intron 30.0%
TCACAAATCTATCATGAAGA+AGG - chr8.2:77763049-77763068 MS.gene36675:intron 30.0%
TCATATTTCACTCCTATCAT+AGG + chr8.2:77762319-77762338 None:intergenic 30.0%
TCCTTACATTGATGTATGAT+AGG - chr8.2:77762921-77762940 MS.gene36675:intron 30.0%
TGAAATATTCATGTTACGCT+TGG - chr8.2:77763472-77763491 MS.gene36675:intron 30.0%
TTGAACAATGATTGTGGTTA+TGG - chr8.2:77762403-77762422 MS.gene36675:intron 30.0%
! CATGCACAGTTTTTATATCA+TGG - chr8.2:77763610-77763629 MS.gene36675:intron 30.0%
! GATGATTTTATGCATTTGTG+TGG - chr8.2:77763329-77763348 MS.gene36675:intron 30.0%
!! ATAACATTTTGATGTGGTAC+AGG - chr8.2:77763750-77763769 MS.gene36675:CDS 30.0%
!! TGATTCTGATAATGGGTATT+TGG - chr8.2:77762153-77762172 MS.gene36675:intron 30.0%
!!! CAGGTAATTTTTTCAAACTC+TGG - chr8.2:77763104-77763123 MS.gene36675:intron 30.0%
ACATTGATGTATGATAGGTC+TGG - chr8.2:77762926-77762945 MS.gene36675:intron 35.0%
ATATAAGTAGGATCCCTATG+TGG - chr8.2:77763439-77763458 MS.gene36675:intron 35.0%
ATTTAAGCTTCCCCTATGAT+AGG - chr8.2:77762304-77762323 MS.gene36675:intron 35.0%
CCTAGAACATGTACATTGTA+AGG + chr8.2:77762574-77762593 None:intergenic 35.0%
CCTTACAATGTACATGTTCT+AGG - chr8.2:77762571-77762590 MS.gene36675:intron 35.0%
GAAGAAGAACAACTCTTTCT+TGG - chr8.2:77762019-77762038 MS.gene36675:CDS 35.0%
GGAAACAAGTGAAATACTTG+TGG + chr8.2:77763574-77763593 None:intergenic 35.0%
TATAAGTAGGATCCCTATGT+GGG - chr8.2:77763440-77763459 MS.gene36675:intron 35.0%
TCATTGAAGAAACCCACATA+GGG + chr8.2:77763455-77763474 None:intergenic 35.0%
TTCATTGAAGAAACCCACAT+AGG + chr8.2:77763456-77763475 None:intergenic 35.0%
! GCACAGTTTTTATATCATGG+TGG - chr8.2:77763613-77763632 MS.gene36675:intron 35.0%
! TGAGGCTCTAACATATAAGT+AGG - chr8.2:77763427-77763446 MS.gene36675:intron 35.0%
! TTAACATAGTACGGTGTTGA+AGG - chr8.2:77762760-77762779 MS.gene36675:intron 35.0%
! TTAATTGATTCTGGTGTGCT+AGG - chr8.2:77762506-77762525 MS.gene36675:intron 35.0%
AAAATGATGCTGCAGTGATG+AGG - chr8.2:77763409-77763428 MS.gene36675:intron 40.0%
AAACTGTGCATGACAGACAA+AGG + chr8.2:77763602-77763621 None:intergenic 40.0%
AGCACAAATCAGAGGAACAT+AGG + chr8.2:77763694-77763713 None:intergenic 40.0%
AGGTGGCAGATAATTACTAC+AGG - chr8.2:77763770-77763789 MS.gene36675:CDS 40.0%
CAGAGAACTTGTAGGAGTTA+AGG + chr8.2:77762109-77762128 None:intergenic 40.0%
CTTAACTCCTACAAGTTCTC+TGG - chr8.2:77762107-77762126 MS.gene36675:intron 40.0%
GAACAACTCTTTCTTGGTGA+AGG - chr8.2:77762025-77762044 MS.gene36675:CDS 40.0%
GATTTGTGAGACAAAGCAGA+AGG + chr8.2:77763038-77763057 None:intergenic 40.0%
TCGCTATTAGCACAAATCAG+AGG + chr8.2:77763702-77763721 None:intergenic 40.0%
TCTGCTGAATTGAACACTCT+GGG + chr8.2:77762066-77762085 None:intergenic 40.0%
TCTTTCTTGGTGAAGGAGTT+TGG - chr8.2:77762032-77762051 MS.gene36675:CDS 40.0%
! TTTGTTGTGTTCCCTTGAGA+AGG - chr8.2:77763301-77763320 MS.gene36675:intron 40.0%
!! ACATTTTGATGTGGTACAGG+TGG - chr8.2:77763753-77763772 MS.gene36675:CDS 40.0%
!! TAAAGATCAGTCGGTGTTGT+TGG - chr8.2:77762983-77763002 MS.gene36675:intron 40.0%
AATCATCCAGGTCCTTCTCA+AGG + chr8.2:77763316-77763335 None:intergenic 45.0%
ATCATCCAGGTCCTTCTCAA+GGG + chr8.2:77763315-77763334 None:intergenic 45.0%
ATCTTTACCAGCAGGCTGAA+TGG + chr8.2:77762970-77762989 None:intergenic 45.0%
CTCTGCTGAATTGAACACTC+TGG + chr8.2:77762067-77762086 None:intergenic 45.0%
GATCGTACCAGAGAACTTGT+AGG + chr8.2:77762117-77762136 None:intergenic 45.0%
TCTGTTCCTCTTCTTGACAC+CGG + chr8.2:77763863-77763882 None:intergenic 45.0%
TTCACGATCTCCCATATGAG+TGG + chr8.2:77762002-77762021 None:intergenic 45.0%
! TGTTGGCTACAACTAAGCCA+AGG - chr8.2:77763000-77763019 MS.gene36675:intron 45.0%
!! GCATGACAGACAAAGGCATT+AGG + chr8.2:77763595-77763614 None:intergenic 45.0%
!!! TTTTTTTTTTTTTTGAAATT+TGG - chr8.2:77762228-77762247 MS.gene36675:intron 5.0%
ACCGACTGATCTTTACCAGC+AGG + chr8.2:77762978-77762997 None:intergenic 50.0%
AGAGCTGCCTTCTTCAGATC+AGG + chr8.2:77763796-77763815 None:intergenic 50.0%
AGCCTCAAAGTTGCCAAGTC+CGG - chr8.2:77763841-77763860 MS.gene36675:CDS 50.0%
AGTACCAGGGCCACTCATAT+GGG - chr8.2:77761989-77762008 MS.gene36675:CDS 50.0%
CTACAGGCCTGATCTGAAGA+AGG - chr8.2:77763786-77763805 MS.gene36675:CDS 50.0%
GCCTGCTGGTAAAGATCAGT+CGG - chr8.2:77762974-77762993 MS.gene36675:intron 50.0%
GGCAAAGGCCGTTCAAAATC+AGG - chr8.2:77763085-77763104 MS.gene36675:intron 50.0%
TCATGAAGAAGGAGTTCCGC+AGG - chr8.2:77763060-77763079 MS.gene36675:intron 50.0%
TGAAGAAGGCAGCTCTTGCA+AGG - chr8.2:77763800-77763819 MS.gene36675:CDS 50.0%
! GAAGGCTTGTTCTGCTTCCT+TGG + chr8.2:77763020-77763039 None:intergenic 50.0%
ACTGTGACCATTCAGCCTGC+TGG - chr8.2:77762960-77762979 MS.gene36675:intron 55.0%
ATCTCCCATATGAGTGGCCC+TGG + chr8.2:77761996-77762015 None:intergenic 55.0%
CACCGGACTTGGCAACTTTG+AGG + chr8.2:77763846-77763865 None:intergenic 55.0%
CAGTACCAGGGCCACTCATA+TGG - chr8.2:77761988-77762007 MS.gene36675:CDS 55.0%
CCTCTTCTTGACACCGGACT+TGG + chr8.2:77763857-77763876 None:intergenic 55.0%
GAAGAAGGAGTTCCGCAGGA+TGG - chr8.2:77763064-77763083 MS.gene36675:intron 55.0%
GTGTTCCCTTGAGAAGGACC+TGG - chr8.2:77763307-77763326 MS.gene36675:intron 55.0%
! CCAAGTCCGGTGTCAAGAAG+AGG - chr8.2:77763854-77763873 MS.gene36675:CDS 55.0%
GAACGGCCTTTGCCATCCTG+CGG + chr8.2:77763079-77763098 None:intergenic 60.0%
GGAGTTCCGCAGGATGGCAA+AGG - chr8.2:77763070-77763089 MS.gene36675:intron 60.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 77761981 77763891 77761981 ID=MS.gene36675
chr8.2 mRNA 77761981 77763891 77761981 ID=MS.gene36675.t1;Parent=MS.gene36675
chr8.2 exon 77763744 77763891 77763744 ID=MS.gene36675.t1.exon1;Parent=MS.gene36675.t1
chr8.2 CDS 77763744 77763891 77763744 ID=cds.MS.gene36675.t1;Parent=MS.gene36675.t1
chr8.2 exon 77762766 77762929 77762766 ID=MS.gene36675.t1.exon2;Parent=MS.gene36675.t1
chr8.2 CDS 77762766 77762929 77762766 ID=cds.MS.gene36675.t1;Parent=MS.gene36675.t1
chr8.2 exon 77761981 77762100 77761981 ID=MS.gene36675.t1.exon3;Parent=MS.gene36675.t1
chr8.2 CDS 77761981 77762100 77761981 ID=cds.MS.gene36675.t1;Parent=MS.gene36675.t1
Gene Sequence

>MS.gene36675

ATGGCGACAGTACCAGGGCCACTCATATGGGAGATCGTGAAGAAGAACAACTCTTTCTTGGTGAAGGAGTTTGGAAACAACACCCAGAGTGTTCAATTCAGCAGAGAGAGTAACAATCTCTACAACCTTAACTCCTACAAGTTCTCTGGTACGATCCCTTTTCTCTTTTTTGTGATTCTGATAATGGGTATTTGGAAGAAAATAAATTAATTTATTATGTTTTGATGTTTTGATTTTGCTGTTGATTTTTTTTTTTTTTTTGAAATTTGGTATTTGAAAAAAACTAACCTCATTATGATGAATTGATGATAATGTTATTGATGATTTAAGCTTCCCCTATGATAGGAGTGAAATATGAGATTTGATTGTTGAAGTAGAAGTTTTACTGATTTGGGATTTTCAGAATTTGTTGATTTTTTTTTTTGAACAATGATTGTGGTTATGGAAAAAACTGATTTTTTTGTCAGTTAGCTTCATATTGCATAAGATAAAGATAAATGTACTTCAATTGTTAGTGGTAAAATTTTAATTGATTCTGGTGTGCTAGGTAGAATGACTCAATGTATTTTAATTGTTTTGTCTTGGTTGATCCTTACAATGTACATGTTCTAGGGTTTTTTGTGTTTCTGATAATGGGCTTTTGAAAAAAATAATAATCTTATTTTGTTGCCAATTTTGGTTGATTTTTAGTTTTAACATAAACTATGTTGATTGGAAGTGAAAATATTTGAGATGTAGAAATTGACGCTTTTTAATTTTAAACTTTGATGATTGTCTGATTAACATAGTACGGTGTTGAAGGAATTAAATGATATCTGTGATAGCTTCATTATGTTTAAGAAATGAATCATGTTTTTCAATTGTTAGTGGTAAAATTTTAATTGATTCTGGTGTACTTGTAGAATGAATCTTTGTGTTTCAATGGTTTTGATTTAATTTGTCCTTACATTGATGTATGATAGGTCTGGCAAACAAGAAAACTGTGACCATTCAGCCTGCTGGTAAAGATCAGTCGGTGTTGTTGGCTACAACTAAGCCAAGGAAGCAGAACAAGCCTTCTGCTTTGTCTCACAAATCTATCATGAAGAAGGAGTTCCGCAGGATGGCAAAGGCCGTTCAAAATCAGGTAATTTTTTCAAACTCTGGTTTGGTTAGTTTTATAGAACATATGAATGGTTTATGAAGAATTTTGTTGATTACATGAAAATTTGATTTTTTTTGTGTCAGATATCTGACTGTTCCTAATTATTTAGATTTGACTTTAATATGTTTTGTTTGTTGAGTAGCTGTTTGCTGTCAATTGCCATAGCTATTCTTTAATTTGTTGTGTTCCCTTGAGAAGGACCTGGATGATTTTATGCATTTGTGTGGGTTTGCTGAGATCTATGATGTCCCATTCATCAAGTTCATATTTTTGATTCGTTCTACAAAATGATGCTGCAGTGATGAGGCTCTAACATATAAGTAGGATCCCTATGTGGGTTTCTTCAATGAAATATTCATGTTACGCTTGGCTTCTGAGCTTCTATCATTCAAAAGCTCATTCTTGAATGCATTTTCTGATGAAATTTTGTTATTAGATGAAAGTTTCCACAAGTATTTCACTTGTTTCCTAATGCCTTTGTCTGTCATGCACAGTTTTTATATCATGGTGGAAAATAGTTTTCTTTATACTTAGTATTTTTCTGATTTTCTAACTTAATGCTTCTTCCTATGTTCCTCTGATTTGTGCTAATAGCGAAATATAGCCAGTTCCTTCGTATTTTAACATAACATTTTGATGTGGTACAGGTGGCAGATAATTACTACAGGCCTGATCTGAAGAAGGCAGCTCTTGCAAGGTTGAGTGCAGTTCATAGAAGCCTCAAAGTTGCCAAGTCCGGTGTCAAGAAGAGGAACAGACATGCCTAG

Protein sequence

>MS.gene36675.t1

MATVPGPLIWEIVKKNNSFLVKEFGNNTQSVQFSRESNNLYNLNSYKFSGLANKKTVTIQPAGKDQSVLLATTKPRKQNKPSALSHKSIMKKEFRRMAKAVQNQVADNYYRPDLKKAALARLSAVHRSLKVAKSGVKKRNRHA