AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780036063.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780036063.01.T01 MTR_7g007090 92.202 218 11 1 1 212 1 218 1.81e-138 407
MsG0780036063.01.T01 MTR_6g084890 85.586 222 23 2 1 213 1 222 1.14e-130 387
MsG0780036063.01.T01 MTR_5g023660 87.387 222 18 3 1 212 1 222 1.00e-126 377
MsG0780036063.01.T01 MTR_5g023660 86.996 223 19 3 1 213 1 223 1.18e-126 377
MsG0780036063.01.T01 MTR_4g017850 65.022 223 67 4 1 212 1 223 1.04e-96 300
MsG0780036063.01.T01 MTR_6g037900 54.274 234 85 5 1 212 1 234 8.23e-76 244
MsG0780036063.01.T01 MTR_6g088715 46.746 169 72 3 57 207 146 314 1.25e-45 162
MsG0780036063.01.T01 MTR_8g071100 38.728 173 86 4 57 210 194 365 9.24e-34 127
MsG0780036063.01.T01 MTR_5g066780 40.244 164 60 4 57 202 123 266 1.37e-27 110
MsG0780036063.01.T01 MTR_8g062550 53.659 82 37 1 118 198 42 123 4.26e-21 90.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780036063.01.T01 AT1G80740 37.436 195 96 3 40 208 2 196 9.66e-39 142
MsG0780036063.01.T01 AT1G69770 37.553 237 110 7 1 210 1 226 1.60e-36 135
MsG0780036063.01.T01 AT4G19020 39.306 173 87 5 57 212 523 694 4.48e-35 131
MsG0780036063.01.T01 AT4G19020 39.306 173 87 5 57 212 475 646 4.59e-35 131

Find 36 sgRNAs with CRISPR-Local

Find 93 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCGATTTCTTTCTTCTAGA+AGG 0.320245 7:+1989807 None:intergenic
TTCTTCAACCGGAGATTGTT+TGG 0.326628 7:+1989848 None:intergenic
AACATTTGAGAAAGTTATAT+AGG 0.344153 7:+1988215 None:intergenic
ATCCTTTAGATTGTTTAGTT+AGG 0.347736 7:-1988421 MsG0780036063.01.T01:CDS
AGGAACGACTTCGTCTTGTT+TGG 0.374277 7:+1989893 None:intergenic
TTCAATCTTTACCGTGTCTT+CGG 0.381407 7:+1988595 None:intergenic
GTAAAATATTGTTCTTCATC+AGG 0.390612 7:+1988638 None:intergenic
TTGTTTGGCTTTCTTCCGTT+TGG 0.415225 7:+1989863 None:intergenic
ACATTTGAGAAAGTTATATA+GGG 0.426320 7:+1988216 None:intergenic
TTCCTAACTAAACAATCTAA+AGG 0.433146 7:+1988419 None:intergenic
TATCGTGAAGCGAAGGTTGA+TGG 0.441672 7:-1989539 MsG0780036063.01.T01:CDS
CTTCGTCGGAGAACTTATTC+CGG 0.444090 7:-1989754 MsG0780036063.01.T01:CDS
GAAACCAGTTCTTCTTCAAC+CGG 0.452190 7:+1989837 None:intergenic
CTGATGAAGCACAAAAGAAA+TGG 0.459268 7:-1989731 MsG0780036063.01.T01:CDS
ATCTCCGGTTGAAGAAGAAC+TGG 0.462907 7:-1989841 MsG0780036063.01.T01:CDS
TTCGGCTCTGTAAAACCATT+GGG 0.476357 7:+1988613 None:intergenic
TGTGTGTGTGCAGGTGATTA+AGG 0.483671 7:-1988501 MsG0780036063.01.T01:intron
CTTCGGCTCTGTAAAACCAT+TGG 0.499873 7:+1988612 None:intergenic
CACAAAAGAAATGGCCTCAC+CGG 0.507084 7:-1989722 MsG0780036063.01.T01:CDS
AAAGAAATCGAAGCAATCTT+CGG 0.508099 7:-1989796 MsG0780036063.01.T01:CDS
TCCGACGATGCATGCTTCGT+CGG 0.515548 7:-1989768 MsG0780036063.01.T01:CDS
TCGTTCCTCATTCTTCCAAA+CGG 0.526193 7:-1989878 MsG0780036063.01.T01:CDS
GAAGAAAGCCAAACAATCTC+CGG 0.530553 7:-1989856 MsG0780036063.01.T01:CDS
TTCTTCCGTTTGGAAGAATG+AGG 0.531258 7:+1989873 None:intergenic
GAGTGAGGATGAAAGTTTGA+AGG 0.536508 7:-1989573 MsG0780036063.01.T01:CDS
ATCGTGAAGCGAAGGTTGAT+GGG 0.542081 7:-1989538 MsG0780036063.01.T01:CDS
CTCACTCGTTCTTAGTGTAC+CGG 0.561833 7:+1989703 None:intergenic
GGACTACATTGCTAAGATTG+TGG 0.583306 7:-1988675 MsG0780036063.01.T01:CDS
TCCGACGAAGCATGCATCGT+CGG 0.593618 7:+1989767 None:intergenic
TGCAGGTGATTAAGGACCAT+GGG 0.609611 7:-1988493 MsG0780036063.01.T01:intron
GTTTCACTATCGTGAAGCGA+AGG 0.614568 7:-1989546 MsG0780036063.01.T01:CDS
ACTTTCTCAAATGTTGACAA+TGG 0.620113 7:-1988207 MsG0780036063.01.T01:CDS
ATGTCAAAATAGAATTCACA+AGG 0.670234 7:+1988252 None:intergenic
GTGCAGGTGATTAAGGACCA+TGG 0.674534 7:-1988494 MsG0780036063.01.T01:intron
TCAAAATAGAATTCACAAGG+AGG 0.689598 7:+1988255 None:intergenic
TCGTTCTTAGTGTACCGGTG+AGG 0.720228 7:+1989708 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGAAATCATATATAAAATAA+CGG + Chr7:1989218-1989237 None:intergenic 10.0%
!!! GTTGAAATTTTTGTTTTTTA+GGG - Chr7:1988782-1988801 MsG0780036063.01.T01:intron 15.0%
!!! GTTGTAAATTTTGTTTTTTA+GGG - Chr7:1988820-1988839 MsG0780036063.01.T01:intron 15.0%
!!! TGTTGAAATTTTTGTTTTTT+AGG - Chr7:1988781-1988800 MsG0780036063.01.T01:intron 15.0%
!!! TGTTGTAAATTTTGTTTTTT+AGG - Chr7:1988819-1988838 MsG0780036063.01.T01:intron 15.0%
!!! TTTATTTCATGTTGAAATTT+TGG - Chr7:1988690-1988709 MsG0780036063.01.T01:CDS 15.0%
!! AACATTTGAGAAAGTTATAT+AGG + Chr7:1989903-1989922 None:intergenic 20.0%
!! ACATTTGAGAAAGTTATATA+GGG + Chr7:1989902-1989921 None:intergenic 20.0%
!!! AAAAAAAAGTATGAAATCCA+AGG - Chr7:1989128-1989147 MsG0780036063.01.T01:intron 20.0%
!!! ATGTTGATTTTATATACTAC+AGG - Chr7:1989817-1989836 MsG0780036063.01.T01:CDS 20.0%
!!! TTTATGGTTATTGTTGATTT+TGG - Chr7:1989582-1989601 MsG0780036063.01.T01:CDS 20.0%
! ATCCTTTAGATTGTTTAGTT+AGG - Chr7:1989694-1989713 MsG0780036063.01.T01:intron 25.0%
! ATGTCAAAATAGAATTCACA+AGG + Chr7:1989866-1989885 None:intergenic 25.0%
! GTAAAATATTGTTCTTCATC+AGG + Chr7:1989480-1989499 None:intergenic 25.0%
! TTCCTAACTAAACAATCTAA+AGG + Chr7:1989699-1989718 None:intergenic 25.0%
! TTGATTTCTTGTGGAAAATT+TGG - Chr7:1988923-1988942 MsG0780036063.01.T01:intron 25.0%
!! CATGTTGAAAAATGTGTTTT+AGG - Chr7:1989236-1989255 MsG0780036063.01.T01:intron 25.0%
!! TTCATTTCTTTGATTTCTTG+TGG - Chr7:1988914-1988933 MsG0780036063.01.T01:intron 25.0%
!!! GTTGAAATTTTGGTGTTTTA+GGG - Chr7:1988700-1988719 MsG0780036063.01.T01:intron 25.0%
!!! TGTTGAAATTTTGGTGTTTT+AGG - Chr7:1988699-1988718 MsG0780036063.01.T01:intron 25.0%
AAAGAAATCGAAGCAATCTT+CGG - Chr7:1988319-1988338 MsG0780036063.01.T01:intron 30.0%
ACTTTCTCAAATGTTGACAA+TGG - Chr7:1989908-1989927 MsG0780036063.01.T01:CDS 30.0%
TCAAAATAGAATTCACAAGG+AGG + Chr7:1989863-1989882 None:intergenic 30.0%
TTCGATTTCTTTCTTCTAGA+AGG + Chr7:1988311-1988330 None:intergenic 30.0%
! AACAATATTTTACTGCCCAA+TGG - Chr7:1989487-1989506 MsG0780036063.01.T01:intron 30.0%
! ATGTGATGAATGTTGTTTAG+GGG - Chr7:1989403-1989422 MsG0780036063.01.T01:intron 30.0%
! GATGTGATGAATGTTGTTTA+GGG - Chr7:1989402-1989421 MsG0780036063.01.T01:intron 30.0%
! GCTGAAAATTGTGTGTTTTA+TGG - Chr7:1988891-1988910 MsG0780036063.01.T01:intron 30.0%
! TAGGGTTTATTTCTTCATGT+TGG - Chr7:1988838-1988857 MsG0780036063.01.T01:intron 30.0%
! TAGTAATTTGCCACATCATT+CGG - Chr7:1989153-1989172 MsG0780036063.01.T01:intron 30.0%
! TGATGTGATGAATGTTGTTT+AGG - Chr7:1989401-1989420 MsG0780036063.01.T01:intron 30.0%
! TGTTTTGTGGTACAATCATT+CGG + Chr7:1989017-1989036 None:intergenic 30.0%
!!! AACTCTTTCGTGTTTTGTTT+TGG - Chr7:1989547-1989566 MsG0780036063.01.T01:CDS 30.0%
!!! TGTATAGTGTTTTGATGAAG+CGG - Chr7:1989101-1989120 MsG0780036063.01.T01:intron 30.0%
CTGATGAAGCACAAAAGAAA+TGG - Chr7:1988384-1988403 MsG0780036063.01.T01:intron 35.0%
GGAATCTAGTTGACAAAAAG+AGG - Chr7:1989643-1989662 MsG0780036063.01.T01:intron 35.0%
TGTGGCAAATTACTATTCCT+TGG + Chr7:1989148-1989167 None:intergenic 35.0%
TTCAATCTTTACCGTGTCTT+CGG + Chr7:1989523-1989542 None:intergenic 35.0%
! AGTAATTTGCCACATCATTC+GGG - Chr7:1989154-1989173 MsG0780036063.01.T01:intron 35.0%
! GTTTTGTGGTACAATCATTC+GGG + Chr7:1989016-1989035 None:intergenic 35.0%
! TAGCCAGTAAAAATTTTGCC+TGG - Chr7:1989053-1989072 MsG0780036063.01.T01:intron 35.0%
! TGATGGGATTTTATATCAGC+TGG - Chr7:1988593-1988612 MsG0780036063.01.T01:intron 35.0%
! TGTGATGAATGTTGTTTAGG+GGG - Chr7:1989404-1989423 MsG0780036063.01.T01:intron 35.0%
! TTCATTTCGCGAATGTTTTG+TGG + Chr7:1989030-1989049 None:intergenic 35.0%
! TTTTGTCAACTAGATTCCCA+TGG + Chr7:1989641-1989660 None:intergenic 35.0%
!! TTGGTTTGCTTTGCTGTTTA+TGG - Chr7:1989566-1989585 MsG0780036063.01.T01:CDS 35.0%
GAAACCAGTTCTTCTTCAAC+CGG + Chr7:1988281-1988300 None:intergenic 40.0%
GAAGAAAGCCAAACAATCTC+CGG - Chr7:1988259-1988278 MsG0780036063.01.T01:CDS 40.0%
GAGTGAGGATGAAAGTTTGA+AGG - Chr7:1988542-1988561 MsG0780036063.01.T01:intron 40.0%
GGACTACATTGCTAAGATTG+TGG - Chr7:1989440-1989459 MsG0780036063.01.T01:intron 40.0%
TCGTTCCTCATTCTTCCAAA+CGG - Chr7:1988237-1988256 MsG0780036063.01.T01:CDS 40.0%
TGATTTGAATGTGTGTGTGC+AGG - Chr7:1989605-1989624 MsG0780036063.01.T01:intron 40.0%
TTCGGCTCTGTAAAACCATT+GGG + Chr7:1989505-1989524 None:intergenic 40.0%
TTCTTCAACCGGAGATTGTT+TGG + Chr7:1988270-1988289 None:intergenic 40.0%
TTCTTCCGTTTGGAAGAATG+AGG + Chr7:1988245-1988264 None:intergenic 40.0%
! CAGTAAAAATTTTGCCTGGC+CGG - Chr7:1989057-1989076 MsG0780036063.01.T01:intron 40.0%
! CTACATGAAGCACTTACATC+AGG + Chr7:1989743-1989762 None:intergenic 40.0%
! GATTTACGAACGCGTTTTTG+AGG + Chr7:1988200-1988219 None:intergenic 40.0%
! GGAGGATAATGCTTTTGTCA+AGG - Chr7:1988614-1988633 MsG0780036063.01.T01:CDS 40.0%
! GTTTTGTAGTGAATCGAGTG+AGG - Chr7:1988527-1988546 MsG0780036063.01.T01:intron 40.0%
! TGGGATTTTATATCAGCTGG+AGG - Chr7:1988596-1988615 MsG0780036063.01.T01:intron 40.0%
! TTCTTTTGTGCTTCATCAGC+CGG + Chr7:1988383-1988402 None:intergenic 40.0%
!! TTGTTTGGCTTTCTTCCGTT+TGG + Chr7:1988255-1988274 None:intergenic 40.0%
AGCGAATGTGTATTCGCGAT+TGG + Chr7:1989182-1989201 None:intergenic 45.0%
ATCTCCGGTTGAAGAAGAAC+TGG - Chr7:1988274-1988293 MsG0780036063.01.T01:CDS 45.0%
CACAAAAGAAATGGCCTCAC+CGG - Chr7:1988393-1988412 MsG0780036063.01.T01:intron 45.0%
CTCACTCGTTCTTAGTGTAC+CGG + Chr7:1988415-1988434 None:intergenic 45.0%
CTTCGGCTCTGTAAAACCAT+TGG + Chr7:1989506-1989525 None:intergenic 45.0%
CTTCGTCGGAGAACTTATTC+CGG - Chr7:1988361-1988380 MsG0780036063.01.T01:intron 45.0%
GTTTCACTATCGTGAAGCGA+AGG - Chr7:1988569-1988588 MsG0780036063.01.T01:intron 45.0%
TATCGTGAAGCGAAGGTTGA+TGG - Chr7:1988576-1988595 MsG0780036063.01.T01:intron 45.0%
TGCAGGTGATTAAGGACCAT+GGG - Chr7:1989622-1989641 MsG0780036063.01.T01:intron 45.0%
TGTGTGTGTGCAGGTGATTA+AGG - Chr7:1989614-1989633 MsG0780036063.01.T01:intron 45.0%
! AATGTTGTTTAGGGGGAGGA+AGG - Chr7:1989411-1989430 MsG0780036063.01.T01:intron 45.0%
! AGGAACGACTTCGTCTTGTT+TGG + Chr7:1988225-1988244 None:intergenic 45.0%
! ATCGTGAAGCGAAGGTTGAT+GGG - Chr7:1988577-1988596 MsG0780036063.01.T01:intron 45.0%
! CGGCCAGGCAAAATTTTTAC+TGG + Chr7:1989059-1989078 None:intergenic 45.0%
! GATGAATGTTGTTTAGGGGG+AGG - Chr7:1989407-1989426 MsG0780036063.01.T01:intron 45.0%
! GTTTTACAGAGCCGAAGACA+CGG - Chr7:1989509-1989528 MsG0780036063.01.T01:CDS 45.0%
GTGCAGGTGATTAAGGACCA+TGG - Chr7:1989621-1989640 MsG0780036063.01.T01:intron 50.0%
TTAGGGGGAGGAAGGAAAAG+AGG - Chr7:1989419-1989438 MsG0780036063.01.T01:intron 50.0%
TTTGCCTGGCCGGAAATCAT+GGG - Chr7:1989067-1989086 MsG0780036063.01.T01:intron 50.0%
! CGATTGGTTCCCGAATGATG+TGG + Chr7:1989166-1989185 None:intergenic 50.0%
! TCGTTCTTAGTGTACCGGTG+AGG + Chr7:1988410-1988429 None:intergenic 50.0%
! TTTTGCCTGGCCGGAAATCA+TGG - Chr7:1989066-1989085 MsG0780036063.01.T01:intron 50.0%
ACCCACCACCCCATGATTTC+CGG + Chr7:1989079-1989098 None:intergenic 55.0%
TCCGACGAAGCATGCATCGT+CGG + Chr7:1988351-1988370 None:intergenic 55.0%
TCCGACGATGCATGCTTCGT+CGG - Chr7:1988347-1988366 MsG0780036063.01.T01:intron 55.0%
TTGCCTGGCCGGAAATCATG+GGG - Chr7:1989068-1989087 MsG0780036063.01.T01:intron 55.0%
GCCGGAAATCATGGGGTGGT+GGG - Chr7:1989075-1989094 MsG0780036063.01.T01:intron 60.0%
CCACCCCATGATTTCCGGCC+AGG + Chr7:1989074-1989093 None:intergenic 65.0%
CCTGGCCGGAAATCATGGGG+TGG - Chr7:1989071-1989090 MsG0780036063.01.T01:intron 65.0%
GGCCGGAAATCATGGGGTGG+TGG - Chr7:1989074-1989093 MsG0780036063.01.T01:intron 65.0%
Chromosome Type Strat End Strand Name
Chr7 gene 1988194 1989943 1988194 ID=MsG0780036063.01;Name=MsG0780036063.01
Chr7 mRNA 1988194 1989943 1988194 ID=MsG0780036063.01.T01;Parent=MsG0780036063.01;Name=MsG0780036063.01.T01;_AED=0.49;_eAED=0.49;_QI=0|0.25|0|1|1|1|5|0|216
Chr7 exon 1989708 1989943 1989708 ID=MsG0780036063.01.T01:exon:38402;Parent=MsG0780036063.01.T01
Chr7 exon 1989502 1989601 1989502 ID=MsG0780036063.01.T01:exon:38401;Parent=MsG0780036063.01.T01
Chr7 exon 1988607 1988714 1988607 ID=MsG0780036063.01.T01:exon:38400;Parent=MsG0780036063.01.T01
Chr7 exon 1988409 1988510 1988409 ID=MsG0780036063.01.T01:exon:38399;Parent=MsG0780036063.01.T01
Chr7 exon 1988194 1988298 1988194 ID=MsG0780036063.01.T01:exon:38398;Parent=MsG0780036063.01.T01
Chr7 CDS 1989708 1989943 1989708 ID=MsG0780036063.01.T01:cds;Parent=MsG0780036063.01.T01
Chr7 CDS 1989502 1989601 1989502 ID=MsG0780036063.01.T01:cds;Parent=MsG0780036063.01.T01
Chr7 CDS 1988607 1988714 1988607 ID=MsG0780036063.01.T01:cds;Parent=MsG0780036063.01.T01
Chr7 CDS 1988409 1988510 1988409 ID=MsG0780036063.01.T01:cds;Parent=MsG0780036063.01.T01
Chr7 CDS 1988194 1988298 1988194 ID=MsG0780036063.01.T01:cds;Parent=MsG0780036063.01.T01
Gene Sequence

>MsG0780036063.01.T01

ATGCCTCAAAAACGCGTTCGTAAATCTTCCAAACAAGACGAAGTCGTTCCTCATTCTTCCAAACGGAAGAAAGCCAAACAATCTCCGGTTGAAGAAGAACTGGTTTCGCTTCTTCCTTCTAGAAGAAAGAAATCGAAGCAATCTTCGGTTAATTCCGACGATGCATGCTTCGTCGGAGAACTTATTCCGGCTGATGAAGCACAAAAGAAATGGCCTCACCGGTACACTAAGAACGATGAATCGAGTGAGGATGAAAGTTTGAAGGCGAAGTTTCACTATCGTGAAGCGAAGGTTGATGGGATTTTATATCAGCTGGAGGATAATGCTTTTGTCAAGGGGGAGGAAGGAAAAGAGGACTACATTGCTAAGATTGTGGAGATGTTTGAAACTCCTGATGAAGAACAATATTTTACTGCCCAATGGTTTTACAGAGCCGAAGACACGGTGATTAAGGACCATGGGAATCTAGTTGACAAAAAGAGGATTTTCATATCTGATGTAAAAGATGAAAATCCTTTAGATTGTTTAGTTAGGAAAGTTAACATTGCTGCAAAAAAGAAGAAAATTCCTCCTTGTGAATTCTATTTTGACATGAAGTACACTGTGCCCTATATAACTTTCTCAAATGTTGACAATGGTATGATTTCATAA
Protein sequence

>MsG0780036063.01.T01

MPQKRVRKSSKQDEVVPHSSKRKKAKQSPVEEELVSLLPSRRKKSKQSSVNSDDACFVGELIPADEAQKKWPHRYTKNDESSEDESLKAKFHYREAKVDGILYQLEDNAFVKGEEGKEDYIAKIVEMFETPDEEQYFTAQWFYRAEDTVIKDHGNLVDKKRIFISDVKDENPLDCLVRKVNIAAKKKKIPPCEFYFDMKYTVPYITFSNVDNGMIS*