AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280009918.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280009918.01.T01 MTR_2g072940 80.749 187 17 1 2 169 116 302 9.86e-107 307
MsG0280009918.01.T01 MTR_2g072940 80.319 188 17 2 2 169 116 303 6.36e-105 303
MsG0280009918.01.T01 MTR_2g072940 87.342 79 10 0 2 80 116 194 5.29e-46 150
MsG0280009918.01.T01 MTR_2g072940 84.483 58 9 0 2 59 116 173 2.03e-29 106
MsG0280009918.01.T01 MTR_2g072940 83.051 59 10 0 2 60 116 174 2.21e-29 106
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280009918.01.T01 AT1G28100 35.260 173 83 6 2 154 116 279 1.38e-23 94.0
MsG0280009918.01.T01 AT1G28100 35.260 173 83 6 2 154 116 279 1.38e-23 94.0
MsG0280009918.01.T01 AT1G28100 35.260 173 83 6 2 154 116 279 1.38e-23 94.0
MsG0280009918.01.T01 AT1G28100 35.260 173 83 6 2 154 116 279 1.38e-23 94.0
MsG0280009918.01.T01 AT1G28100 35.057 174 84 6 1 154 123 287 2.04e-23 94.0

Find 32 sgRNAs with CRISPR-Local

Find 92 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACATAATCTATATGATTTA+AGG 0.100423 2:+60739258 None:intergenic
TTGTCATCAACATTTGTTAA+AGG 0.212830 2:+60739626 None:intergenic
CCTTAAAACTATAGACTTCA+TGG 0.298934 2:+60739404 None:intergenic
TTTCATGATCTTTAGTCATA+TGG 0.330310 2:+60739567 None:intergenic
TGTCATCAACATTTGTTAAA+GGG 0.337451 2:+60739627 None:intergenic
TTGAACATTTAGATGATCAT+TGG 0.349247 2:+60740817 None:intergenic
GAGCACTGATAAAGAACAAT+AGG 0.395901 2:+60739461 None:intergenic
TGATAGCAGTGCCTACTTTG+AGG 0.407599 2:-60740406 MsG0280009918.01.T01:intron
TTAAACTTGAGTGCTAATAT+CGG 0.411262 2:+60739509 None:intergenic
TGAACATTTAGATGATCATT+GGG 0.419933 2:+60740818 None:intergenic
TGCATCCAGAGATTTGATTT+CGG 0.428753 2:+60740790 None:intergenic
AGTAACCGAAATCAAATCTC+TGG 0.433438 2:-60740795 MsG0280009918.01.T01:CDS
TTTGAGGTTTGACCGTTGGA+TGG 0.469809 2:-60740390 MsG0280009918.01.T01:CDS
AATTACATTCATAAGAAAGA+AGG 0.472605 2:+60739341 None:intergenic
TTGAGGTTTGACCGTTGGAT+GGG 0.473321 2:-60740389 MsG0280009918.01.T01:CDS
GGAACAGAGCTTACAGTAGT+AGG 0.481905 2:+60739425 None:intergenic
AATGTTCTTGAAACCTTCAA+AGG 0.482925 2:+60739650 None:intergenic
GAAATGATTTACCTAAAACT+TGG 0.491490 2:+60740344 None:intergenic
GCAAGCAGTGAAGCCTTTGA+AGG 0.502040 2:-60739663 MsG0280009918.01.T01:CDS
CTTGTGAGACTTATATTACA+AGG 0.511170 2:+60740761 None:intergenic
ATCATTGGGATTGCGGAACT+CGG 0.513694 2:+60740832 None:intergenic
TGAGGTTTGACCGTTGGATG+GGG 0.525605 2:-60740388 MsG0280009918.01.T01:CDS
AATATAAGTCTCACAAGTGC+TGG 0.527940 2:-60740755 MsG0280009918.01.T01:intron
TTAGATGATCATTGGGATTG+CGG 0.530128 2:+60740825 None:intergenic
CTACTTTGAGGTTTGACCGT+TGG 0.553070 2:-60740394 MsG0280009918.01.T01:CDS
AAACAATCACAAGGCAGGAG+TGG 0.560119 2:-60740881 MsG0280009918.01.T01:CDS
TAATCGTTGGCCCCATCCAA+CGG 0.567276 2:+60740378 None:intergenic
CAAACTTTACAAGACTATGA+AGG 0.570719 2:-60739596 MsG0280009918.01.T01:CDS
TCTCAAAACAATCACAAGGC+AGG 0.573823 2:-60740886 MsG0280009918.01.T01:CDS
CAACGGTCAAACCTCAAAGT+AGG 0.579770 2:+60740395 None:intergenic
CGGTTTCGATAGCATCACAT+AGG 0.622330 2:+60739529 None:intergenic
GCAGTCTCAAAACAATCACA+AGG 0.679510 2:-60740890 MsG0280009918.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTGAAATAGTTTTAAATTA+TGG + Chr2:60740448-60740467 None:intergenic 10.0%
!! CAAATTGATAAAAATGTTAT+AGG - Chr2:60739657-60739676 MsG0280009918.01.T01:CDS 15.0%
!!! TTTTCAAATATGATTCAAAT+TGG - Chr2:60739327-60739346 MsG0280009918.01.T01:three_prime_UTR 15.0%
!! AATTACATTCATAAGAAAGA+AGG + Chr2:60740846-60740865 None:intergenic 20.0%
!! AATTTGTAGTCAAAACTATA+TGG + Chr2:60740421-60740440 None:intergenic 20.0%
!! TATGTCAATTACATTTAGAA+GGG + Chr2:60739734-60739753 None:intergenic 20.0%
!! TTATGTCAATTACATTTAGA+AGG + Chr2:60739735-60739754 None:intergenic 20.0%
!! TTATTTGACATGTTCAAATA+GGG - Chr2:60740497-60740516 MsG0280009918.01.T01:intron 20.0%
!! TTCTAAATGTAATTGACATA+AGG - Chr2:60739734-60739753 MsG0280009918.01.T01:intron 20.0%
!!! TATAGTTTTGACTACAAATT+CGG - Chr2:60740421-60740440 MsG0280009918.01.T01:intron 20.0%
! GAAATGATTTACCTAAAACT+TGG + Chr2:60739843-60739862 None:intergenic 25.0%
! GTTATTTGACATGTTCAAAT+AGG - Chr2:60740496-60740515 MsG0280009918.01.T01:intron 25.0%
! TCGGATGATAAAAAAAATCT+CGG - Chr2:60740110-60740129 MsG0280009918.01.T01:intron 25.0%
! TGAACATTTAGATGATCATT+GGG + Chr2:60739369-60739388 None:intergenic 25.0%
! TTAAACTTGAGTGCTAATAT+CGG + Chr2:60740678-60740697 None:intergenic 25.0%
! TTGAACATTTAGATGATCAT+TGG + Chr2:60739370-60739389 None:intergenic 25.0%
! TTTCATGATCTTTAGTCATA+TGG + Chr2:60740620-60740639 None:intergenic 25.0%
!! ATTTTCTTTCAAAATTGCAG+CGG - Chr2:60739923-60739942 MsG0280009918.01.T01:intron 25.0%
!! TCGAAGTTACATTGTAATTT+TGG + Chr2:60740309-60740328 None:intergenic 25.0%
!! TGTCATCAACATTTGTTAAA+GGG + Chr2:60740560-60740579 None:intergenic 25.0%
!! TTGTCATCAACATTTGTTAA+AGG + Chr2:60740561-60740580 None:intergenic 25.0%
AAGATACTTATAGCAGAATG+TGG + Chr2:60739881-60739900 None:intergenic 30.0%
AATGTTCTTGAAACCTTCAA+AGG + Chr2:60740537-60740556 None:intergenic 30.0%
AGTCATAATCCTATGAATTC+AGG - Chr2:60740054-60740073 MsG0280009918.01.T01:intron 30.0%
ATGCAATCCAAATTCATCAT+CGG + Chr2:60740032-60740051 None:intergenic 30.0%
CAAACTTTACAAGACTATGA+AGG - Chr2:60740588-60740607 MsG0280009918.01.T01:intron 30.0%
CCTTAAAACTATAGACTTCA+TGG + Chr2:60740783-60740802 None:intergenic 30.0%
CTTATTTCATACCTTCGTTT+CGG - Chr2:60739543-60739562 MsG0280009918.01.T01:CDS 30.0%
CTTGTGAGACTTATATTACA+AGG + Chr2:60739426-60739445 None:intergenic 30.0%
GATGATACATCATACATCTT+TGG - Chr2:60739470-60739489 MsG0280009918.01.T01:CDS 30.0%
GCAAATATGTATGCAATGTT+TGG + Chr2:60740195-60740214 None:intergenic 30.0%
TTACAATGTAACTTCGATTG+AGG - Chr2:60740312-60740331 MsG0280009918.01.T01:intron 30.0%
TTGTAGTCAAAACTATATGG+TGG + Chr2:60740418-60740437 None:intergenic 30.0%
! GTTCAGTGTTATTGTAAGTA+GGG + Chr2:60740010-60740029 None:intergenic 30.0%
! TCTTATGTCATTGTCTCTTT+TGG - Chr2:60739500-60739519 MsG0280009918.01.T01:CDS 30.0%
!! CCATGAAGTCTATAGTTTTA+AGG - Chr2:60740780-60740799 MsG0280009918.01.T01:CDS 30.0%
AATATAAGTCTCACAAGTGC+TGG - Chr2:60739429-60739448 MsG0280009918.01.T01:CDS 35.0%
AGTAACCGAAATCAAATCTC+TGG - Chr2:60739389-60739408 MsG0280009918.01.T01:three_prime_UTR 35.0%
ATACATATTTGCAACTGCTG+CGG - Chr2:60740203-60740222 MsG0280009918.01.T01:intron 35.0%
ATCGTTAGATCAAGATCAGA+CGG + Chr2:60740150-60740169 None:intergenic 35.0%
CTGGTGAGTGAAATTTGATT+TGG - Chr2:60739448-60739467 MsG0280009918.01.T01:CDS 35.0%
CTTCGCATCTTACAATAACA+AGG + Chr2:60739632-60739651 None:intergenic 35.0%
TGATCTAACGATCACTATTG+TGG - Chr2:60740158-60740177 MsG0280009918.01.T01:intron 35.0%
TTAGATGATCATTGGGATTG+CGG + Chr2:60739362-60739381 None:intergenic 35.0%
! CACAGGTCAGATAATTTTGA+AGG + Chr2:60740260-60740279 None:intergenic 35.0%
! GGTTCAGTGTTATTGTAAGT+AGG + Chr2:60740011-60740030 None:intergenic 35.0%
! TGCATCCAGAGATTTGATTT+CGG + Chr2:60739397-60739416 None:intergenic 35.0%
!! AAAATCTCGGTGTTGAAATC+TGG - Chr2:60740123-60740142 MsG0280009918.01.T01:intron 35.0%
!! AAATGTCGCTTCCAAGTTTT+AGG - Chr2:60739829-60739848 MsG0280009918.01.T01:intron 35.0%
!! CGCTTTTTAATTCTGCAAAG+GGG + Chr2:60739609-60739628 None:intergenic 35.0%
!! GAGCACTGATAAAGAACAAT+AGG + Chr2:60740726-60740745 None:intergenic 35.0%
!! GCGCTTTTTAATTCTGCAAA+GGG + Chr2:60739610-60739629 None:intergenic 35.0%
AAATTATCTGACCTGTGTCG+CGG - Chr2:60740263-60740282 MsG0280009918.01.T01:intron 40.0%
AACCATCATGTGACAATCCA+TGG + Chr2:60740375-60740394 None:intergenic 40.0%
CACTGAACCGATGATGAATT+TGG - Chr2:60740022-60740041 MsG0280009918.01.T01:intron 40.0%
GACTAAACCTGCATTCAATC+TGG + Chr2:60739988-60740007 None:intergenic 40.0%
GCAGTCTCAAAACAATCACA+AGG - Chr2:60739294-60739313 MsG0280009918.01.T01:three_prime_UTR 40.0%
TAGTGTGAAAACCGAAACGA+AGG + Chr2:60739557-60739576 None:intergenic 40.0%
TCTCAAAACAATCACAAGGC+AGG - Chr2:60739298-60739317 MsG0280009918.01.T01:three_prime_UTR 40.0%
TTCTTTCAAAATTGCAGCGG+CGG - Chr2:60739926-60739945 MsG0280009918.01.T01:intron 40.0%
!! CAAGAGTACTTAAGGAGGTT+AGG + Chr2:60739965-60739984 None:intergenic 40.0%
!! CAATCTGGCAAGAGTACTTA+AGG + Chr2:60739973-60739992 None:intergenic 40.0%
!! GGAAGCGACATTTTAATCGT+TGG + Chr2:60739822-60739841 None:intergenic 40.0%
!! GGCGCTTTTTAATTCTGCAA+AGG + Chr2:60739611-60739630 None:intergenic 40.0%
AAACAATCACAAGGCAGGAG+TGG - Chr2:60739303-60739322 MsG0280009918.01.T01:three_prime_UTR 45.0%
AACTTCGATTGAGGCCACAT+TGG - Chr2:60740321-60740340 MsG0280009918.01.T01:intron 45.0%
ACTCTTGCCAGATTGAATGC+AGG - Chr2:60739978-60739997 MsG0280009918.01.T01:intron 45.0%
ATCATTGGGATTGCGGAACT+CGG + Chr2:60739355-60739374 None:intergenic 45.0%
CAACGGTCAAACCTCAAAGT+AGG + Chr2:60739792-60739811 None:intergenic 45.0%
CGGTTTCGATAGCATCACAT+AGG + Chr2:60740658-60740677 None:intergenic 45.0%
GGAACAGAGCTTACAGTAGT+AGG + Chr2:60740762-60740781 None:intergenic 45.0%
GTGATCAAATGCAGCCAATG+TGG + Chr2:60740338-60740357 None:intergenic 45.0%
TGATAGCAGTGCCTACTTTG+AGG - Chr2:60739778-60739797 MsG0280009918.01.T01:intron 45.0%
TTGAGGTTTGACCGTTGGAT+GGG - Chr2:60739795-60739814 MsG0280009918.01.T01:intron 45.0%
! TGCCATGGATTGTCACATGA+TGG - Chr2:60740370-60740389 MsG0280009918.01.T01:CDS 45.0%
! TTTGAGGTTTGACCGTTGGA+TGG - Chr2:60739794-60739813 MsG0280009918.01.T01:intron 45.0%
!! CTACTTTGAGGTTTGACCGT+TGG - Chr2:60739790-60739809 MsG0280009918.01.T01:intron 45.0%
!! TCTGGCAAGAGTACTTAAGG+AGG + Chr2:60739970-60739989 None:intergenic 45.0%
ATTCAGGCAGTCAGCCACAT+CGG - Chr2:60740070-60740089 MsG0280009918.01.T01:intron 50.0%
CACGATTCTCTACACTGCCA+TGG - Chr2:60740355-60740374 MsG0280009918.01.T01:intron 50.0%
GCAAGCAGTGAAGCCTTTGA+AGG - Chr2:60740521-60740540 MsG0280009918.01.T01:intron 50.0%
GGCACTGCTATCAACATGCT+TGG + Chr2:60739771-60739790 None:intergenic 50.0%
GGCTGACTGCCTGAATTCAT+AGG + Chr2:60740066-60740085 None:intergenic 50.0%
TAATCGTTGGCCCCATCCAA+CGG + Chr2:60739809-60739828 None:intergenic 50.0%
TGAGGTTTGACCGTTGGATG+GGG - Chr2:60739796-60739815 MsG0280009918.01.T01:intron 50.0%
! GGTGGCGGTTGGATCAAAAT+CGG - Chr2:60740091-60740110 MsG0280009918.01.T01:intron 50.0%
AATCCATTGTGCCGCGACAC+AGG + Chr2:60740277-60740296 None:intergenic 55.0%
TGACCTGTGTCGCGGCACAA+TGG - Chr2:60740271-60740290 MsG0280009918.01.T01:intron 60.0%
TGATCCAACCGCCACCGATG+TGG + Chr2:60740087-60740106 None:intergenic 60.0%
CAGGCAGTCAGCCACATCGG+TGG - Chr2:60740073-60740092 MsG0280009918.01.T01:intron 65.0%
GCAGTCAGCCACATCGGTGG+CGG - Chr2:60740076-60740095 MsG0280009918.01.T01:intron 65.0%
! TCAGCCACATCGGTGGCGGT+TGG - Chr2:60740080-60740099 MsG0280009918.01.T01:intron 65.0%
Chromosome Type Strat End Strand Name
Chr2 gene 60739273 60740933 60739273 ID=MsG0280009918.01;Name=MsG0280009918.01
Chr2 mRNA 60739273 60740933 60739273 ID=MsG0280009918.01.T01;Parent=MsG0280009918.01;Name=MsG0280009918.01.T01;_AED=0.47;_eAED=0.47;_QI=0|0.5|0.66|1|1|1|3|148|169
Chr2 exon 60739273 60739688 60739273 ID=MsG0280009918.01.T01:exon:34420;Parent=MsG0280009918.01.T01
Chr2 exon 60740356 60740419 60740356 ID=MsG0280009918.01.T01:exon:34419;Parent=MsG0280009918.01.T01
Chr2 exon 60740756 60740933 60740756 ID=MsG0280009918.01.T01:exon:34418;Parent=MsG0280009918.01.T01
Chr2 CDS 60740756 60740933 60740756 ID=MsG0280009918.01.T01:cds;Parent=MsG0280009918.01.T01
Chr2 CDS 60740356 60740419 60740356 ID=MsG0280009918.01.T01:cds;Parent=MsG0280009918.01.T01
Chr2 CDS 60739421 60739688 60739421 ID=MsG0280009918.01.T01:cds;Parent=MsG0280009918.01.T01
Chr2 three_prime_UTR 60739273 60739420 60739273 ID=MsG0280009918.01.T01:three_prime_utr;Parent=MsG0280009918.01.T01
Gene Sequence

>MsG0280009918.01.T01

ATGTTCGAGCAGACTATTTCAGCAGTCTCAAAACAATCACAAGGCAGGAGTGGATTTTCAAATATGATTCAAATTGGTTCCGAGTTCCGCAATCCCAATGATCATCTAAATGTTCAAGTAACCGAAATCAAATCTCTGGATGCAGCAGATCCTTGTAATATAAGTCTCACAAGTGCTGTGCCTACTTTGAGGTTTGACCGTTGGATGGGGCCAACGATTAAAATGTCGCTTCCAAGTTTTAGGGTGCAAGCAGTGAAGCCTTTGAAGGTTTCAAGAACATTCCCTTTAACAAATGTTGATGACAAAGATCAACAAACTTTACAAGACTATGAAGGAAGTATCCATATGACTAAAGATCATGAAAAACAAAACTTCAGCACCTATGTGATGCTATCGAAACCGATATTAGCACTCAAGTTTAATCAAATGAACATGCAAGTAGAAGCTCCTATTGTTCTTTATCAGTGCTCAAATTCTTTAGAACCTACTACTGTAAGCTCTGTTCCATGA
Protein sequence

>MsG0280009918.01.T01

MFEQTISAVSKQSQGRSGFSNMIQIGSEFRNPNDHLNVQVTEIKSLDAADPCNISLTSAVPTLRFDRWMGPTIKMSLPSFRVQAVKPLKVSRTFPLTNVDDKDQQTLQDYEGSIHMTKDHEKQNFSTYVMLSKPILALKFNQMNMQVEAPIVLYQCSNSLEPTTVSSVP*