AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580029706.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580029706.01.T01 MTR_5g091190 89.189 111 12 0 32 142 68 178 2.45e-68 204
MsG0580029706.01.T01 MTR_5g016040 69.792 96 7 3 32 124 1 77 7.44e-36 119
MsG0580029706.01.T01 MTR_7g035145 57.895 76 27 2 32 104 1 74 5.12e-24 89.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580029706.01.T01 AT2G42975 82.828 99 16 1 45 142 89 187 4.02e-53 166

Find 17 sgRNAs with CRISPR-Local

Find 82 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACAACTATGAGAGCATTTC+TGG 0.142745 5:-101019936 MsG0580029706.01.T01:intron
CTTCCACCTCTTATAATATT+AGG 0.180970 5:-101019673 MsG0580029706.01.T01:CDS
TGAGAGCATTTCTGGCTTCT+AGG 0.242799 5:-101019928 MsG0580029706.01.T01:intron
ATCTTCTTCTCGTGCACAAC+TGG 0.315548 5:-101020883 MsG0580029706.01.T01:CDS
TCGTGCACAACTGGATCTTT+TGG 0.328038 5:-101020874 MsG0580029706.01.T01:CDS
TTAGGAATAGCTATATTAAC+TGG 0.345201 5:-101019655 MsG0580029706.01.T01:CDS
TCGCGAACAGCTTGCGCAGT+TGG 0.451182 5:-101019869 MsG0580029706.01.T01:CDS
TTGCGCAGTTGGTTGGAGAA+AGG 0.457947 5:-101019858 MsG0580029706.01.T01:CDS
GCTATTCCTAATATTATAAG+AGG 0.461561 5:+101019667 None:intergenic
TGCGCAGTTGGTTGGAGAAA+GGG 0.462113 5:-101019857 MsG0580029706.01.T01:CDS
GATGATTTCAGCCTTCCCTT+AGG 0.492206 5:-101019832 MsG0580029706.01.T01:CDS
GAACAGCTTGCGCAGTTGGT+TGG 0.536982 5:-101019865 MsG0580029706.01.T01:CDS
ATTCCTAATATTATAAGAGG+TGG 0.564920 5:+101019670 None:intergenic
ATCTAAATGAAGTGTCTCAA+AGG 0.575590 5:-101019738 MsG0580029706.01.T01:CDS
TCTACAAGCTCATCAGTCAC+TGG 0.588562 5:-101020840 MsG0580029706.01.T01:CDS
CTTCTAGGTTATGAAAGTGA+TGG 0.609052 5:-101019913 MsG0580029706.01.T01:CDS
AGTTCTTAACAACATCACAA+AGG 0.710069 5:-101019783 MsG0580029706.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CCAAAAATAATTTTTTTGAA+AGG - Chr5:101019952-101019971 MsG0580029706.01.T01:intron 15.0%
!!! CCTTTCAAAAAAATTATTTT+TGG + Chr5:101019955-101019974 None:intergenic 15.0%
!! TTAAACCAAATCTAAGAAAT+AGG + Chr5:101020581-101020600 None:intergenic 20.0%
!!! CTTTTCATAGACATTATTTT+TGG + Chr5:101019984-101020003 None:intergenic 20.0%
!!! TTAACTTCTTTCTTTGATTT+TGG - Chr5:101020597-101020616 MsG0580029706.01.T01:intron 20.0%
!!! TTTTGATGACTTTTATTGTT+AGG - Chr5:101019646-101019665 MsG0580029706.01.T01:CDS 20.0%
! ATTCCTAATATTATAAGAGG+TGG + Chr5:101020891-101020910 None:intergenic 25.0%
! CAAATCTAAGAAATAGGTTA+CGG + Chr5:101020575-101020594 None:intergenic 25.0%
! GCTATTCCTAATATTATAAG+AGG + Chr5:101020894-101020913 None:intergenic 25.0%
! TCTCTTCATAGACATTAATT+TGG + Chr5:101020275-101020294 None:intergenic 25.0%
! TTAGGAATAGCTATATTAAC+TGG - Chr5:101020903-101020922 MsG0580029706.01.T01:CDS 25.0%
!! CACTTGAATTTTCAATGATA+TGG + Chr5:101019900-101019919 None:intergenic 25.0%
!! TTATACACAGTTTTCAATCT+CGG - Chr5:101020415-101020434 MsG0580029706.01.T01:intron 25.0%
!!! TTCTTCAAGTTTTTACCTAA+GGG + Chr5:101020744-101020763 None:intergenic 25.0%
!!! TTTCTTCAAGTTTTTACCTA+AGG + Chr5:101020745-101020764 None:intergenic 25.0%
AACTTTACATTACCTTCACA+TGG - Chr5:101020229-101020248 MsG0580029706.01.T01:intron 30.0%
ACACATTAACATAGAGATCA+GGG + Chr5:101020348-101020367 None:intergenic 30.0%
AGTTCTTAACAACATCACAA+AGG - Chr5:101020775-101020794 MsG0580029706.01.T01:intron 30.0%
CTTCCACCTCTTATAATATT+AGG - Chr5:101020885-101020904 MsG0580029706.01.T01:CDS 30.0%
GAGAAAAACCAATTGTTCAA+TGG - Chr5:101019790-101019809 MsG0580029706.01.T01:CDS 30.0%
TCTCAAAGATTCATCTGAAA+GGG - Chr5:101020526-101020545 MsG0580029706.01.T01:intron 30.0%
TTGCAAAACCATTGAACAAT+TGG + Chr5:101019801-101019820 None:intergenic 30.0%
! ACTAGAGAGAATGAATTTTC+TGG - Chr5:101020200-101020219 MsG0580029706.01.T01:intron 30.0%
! ATCTAAATGAAGTGTCTCAA+AGG - Chr5:101020820-101020839 MsG0580029706.01.T01:intron 30.0%
! CGTAACCTATTTCTTAGATT+TGG - Chr5:101020573-101020592 MsG0580029706.01.T01:intron 30.0%
! TTAATGTGTCACTACTGATA+TGG - Chr5:101020359-101020378 MsG0580029706.01.T01:intron 30.0%
!! ATGGTTTTGCAAATCTCTAA+AGG - Chr5:101019809-101019828 MsG0580029706.01.T01:CDS 30.0%
!! GTAGTATCTTTGAAATCATG+TGG - Chr5:101019851-101019870 MsG0580029706.01.T01:CDS 30.0%
!!! TCAACTTTTTTCGCAACTAT+AGG - Chr5:101020849-101020868 MsG0580029706.01.T01:CDS 30.0%
AGACATACATGCATATCAGT+AGG + Chr5:101020509-101020528 None:intergenic 35.0%
AGTTGAACCTAACACACATT+TGG - Chr5:101020122-101020141 MsG0580029706.01.T01:intron 35.0%
CACATAAAAGTTCCATGTGA+AGG + Chr5:101020244-101020263 None:intergenic 35.0%
CTTCTAGGTTATGAAAGTGA+TGG - Chr5:101020645-101020664 MsG0580029706.01.T01:intron 35.0%
GACACATTAACATAGAGATC+AGG + Chr5:101020349-101020368 None:intergenic 35.0%
GACATACATGCATATCAGTA+GGG + Chr5:101020508-101020527 None:intergenic 35.0%
GTATCATACCATGTTGAGTA+TGG + Chr5:101020175-101020194 None:intergenic 35.0%
GTCTCAAAGATTCATCTGAA+AGG - Chr5:101020525-101020544 MsG0580029706.01.T01:intron 35.0%
GTTGAACCTAACACACATTT+GGG - Chr5:101020123-101020142 MsG0580029706.01.T01:intron 35.0%
TAACATAGAGATCAGGGTAT+GGG + Chr5:101020342-101020361 None:intergenic 35.0%
TGTCACTACTGATATGGATT+TGG - Chr5:101020365-101020384 MsG0580029706.01.T01:intron 35.0%
TTAACATAGAGATCAGGGTA+TGG + Chr5:101020343-101020362 None:intergenic 35.0%
TTAGGTTCAACTGTTTGTTC+TGG + Chr5:101020114-101020133 None:intergenic 35.0%
! TCAAGTTTTTACCTAAGGGA+AGG + Chr5:101020740-101020759 None:intergenic 35.0%
!! AACAACTATGAGAGCATTTC+TGG - Chr5:101020622-101020641 MsG0580029706.01.T01:intron 35.0%
! GCTCTTAATTTGATATCGCG+TGG - Chr5:101020437-101020456 MsG0580029706.01.T01:intron 40.0%
! GTTCAACTGTTTGTTCTGGA+GGG + Chr5:101020110-101020129 None:intergenic 40.0%
! TAACCGCATACTTTTCCCAT+TGG + Chr5:101020398-101020417 None:intergenic 40.0%
ACAGTTTAGAGATCAGGGCA+TGG + Chr5:101020054-101020073 None:intergenic 45.0%
ATCTTCTTCTCGTGCACAAC+TGG - Chr5:101019675-101019694 MsG0580029706.01.T01:CDS 45.0%
ATGGTTCGTAGGCACAAAAG+AGG + Chr5:101020156-101020175 None:intergenic 45.0%
CAGTTTAGAGATCAGGGCAT+GGG + Chr5:101020053-101020072 None:intergenic 45.0%
CCATGTTGAGTATGGTTCGT+AGG + Chr5:101020167-101020186 None:intergenic 45.0%
CCTACGAACCATACTCAACA+TGG - Chr5:101020164-101020183 MsG0580029706.01.T01:intron 45.0%
GATCAGGGTATGGGAGAAAT+AGG + Chr5:101020333-101020352 None:intergenic 45.0%
GATGATTTCAGCCTTCCCTT+AGG - Chr5:101020726-101020745 MsG0580029706.01.T01:intron 45.0%
GCGGTACAGTTTAGAGATCA+GGG + Chr5:101020059-101020078 None:intergenic 45.0%
GGATTTGGATTCCGTCCAAT+GGG - Chr5:101020380-101020399 MsG0580029706.01.T01:intron 45.0%
GGTTCAACTGTTTGTTCTGG+AGG + Chr5:101020111-101020130 None:intergenic 45.0%
TCTACAAGCTCATCAGTCAC+TGG - Chr5:101019718-101019737 MsG0580029706.01.T01:CDS 45.0%
TGAAATCATGTGGTGCGAAG+TGG - Chr5:101019861-101019880 MsG0580029706.01.T01:CDS 45.0%
TGGATTTGGATTCCGTCCAA+TGG - Chr5:101020379-101020398 MsG0580029706.01.T01:intron 45.0%
TGGTTCGTAGGCACAAAAGA+GGG + Chr5:101020155-101020174 None:intergenic 45.0%
! CGCATACTTTTCCCATTGGA+CGG + Chr5:101020394-101020413 None:intergenic 45.0%
! CGTCCAATGGGAAAAGTATG+CGG - Chr5:101020392-101020411 MsG0580029706.01.T01:intron 45.0%
! TCGTGCACAACTGGATCTTT+TGG - Chr5:101019684-101019703 MsG0580029706.01.T01:CDS 45.0%
!! TGAGAGCATTTCTGGCTTCT+AGG - Chr5:101020630-101020649 MsG0580029706.01.T01:intron 45.0%
ATCTCTAAACTGTACCGCGC+GGG - Chr5:101020061-101020080 MsG0580029706.01.T01:intron 50.0%
CGCGGTACAGTTTAGAGATC+AGG + Chr5:101020060-101020079 None:intergenic 50.0%
GATCAGGGCATGGGAGAAAT+AGG + Chr5:101020044-101020063 None:intergenic 50.0%
GATCTCTAAACTGTACCGCG+CGG - Chr5:101020060-101020079 MsG0580029706.01.T01:intron 50.0%
GCAAGGCCCAAATGTGTGTT+AGG + Chr5:101020132-101020151 None:intergenic 50.0%
GGTTCGTAGGCACAAAAGAG+GGG + Chr5:101020154-101020173 None:intergenic 50.0%
TGCGCAGTTGGTTGGAGAAA+GGG - Chr5:101020701-101020720 MsG0580029706.01.T01:intron 50.0%
TTGCGCAGTTGGTTGGAGAA+AGG - Chr5:101020700-101020719 MsG0580029706.01.T01:intron 50.0%
!! GTTTGTTCTGGAGGGCAACT+GGG + Chr5:101020102-101020121 None:intergenic 50.0%
!! TGTTTGTTCTGGAGGGCAAC+TGG + Chr5:101020103-101020122 None:intergenic 50.0%
!! TTTGTTCTGGAGGGCAACTG+GGG + Chr5:101020101-101020120 None:intergenic 50.0%
GAACAGCTTGCGCAGTTGGT+TGG - Chr5:101020693-101020712 MsG0580029706.01.T01:intron 55.0%
GTAGGCACAAAAGAGGGGCA+AGG + Chr5:101020149-101020168 None:intergenic 55.0%
TCGCGAACAGCTTGCGCAGT+TGG - Chr5:101020689-101020708 MsG0580029706.01.T01:intron 60.0%
TGCAGGTCTGATAGCCCGCG+CGG + Chr5:101020078-101020097 None:intergenic 65.0%
CTGGAGGGCAACTGGGGTGC+AGG + Chr5:101020095-101020114 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr5 gene 101019633 101020947 101019633 ID=MsG0580029706.01;Name=MsG0580029706.01
Chr5 mRNA 101019633 101020947 101019633 ID=MsG0580029706.01.T01;Parent=MsG0580029706.01;Name=MsG0580029706.01.T01;_AED=0.47;_eAED=0.64;_QI=0|0|0|1|0|0|2|0|142
Chr5 exon 101020833 101020947 101020833 ID=MsG0580029706.01.T01:exon:36693;Parent=MsG0580029706.01.T01
Chr5 exon 101019633 101019946 101019633 ID=MsG0580029706.01.T01:exon:36692;Parent=MsG0580029706.01.T01
Chr5 CDS 101020833 101020947 101020833 ID=MsG0580029706.01.T01:cds;Parent=MsG0580029706.01.T01
Chr5 CDS 101019633 101019946 101019633 ID=MsG0580029706.01.T01:cds;Parent=MsG0580029706.01.T01
Gene Sequence

>MsG0580029706.01.T01

ATGACTGAATTGTTTTTGATGACTTTTATTGTTAGGATCTTTATCTTCTTCTCGTGCACAACTGGATCTTTTGGAGCAATTTACATCTACAAGCTCATCAGTCACTGGTATGCAAAGCATTTCTGGCTTCTAGGTTATGAAAGTGATGGCAGCTCTCAGAGACTTACAATTCGCGAACAGCTTGCGCAGTTGGTTGGAGAAAGGGATGATGATTTCAGCCTTCCCTTAGGTAAAAACTTGAAGAAAGTGAGTGCAAAGTTCTTAACAACATCACAAAGGAGAAATATCAAGAGACAGAGTTATCTAAATGAAGTGTCTCAAAGGAATGATTCAACTTTTTTCGCAACTATAGGAGCATTTGTACTTCTTCCACCTCTTATAATATTAGGAATAGCTATATTAACTGGTTATGTACAGCTTTTACCTTGA

Protein sequence

>MsG0580029706.01.T01

MTELFLMTFIVRIFIFFSCTTGSFGAIYIYKLISHWYAKHFWLLGYESDGSSQRLTIREQLAQLVGERDDDFSLPLGKNLKKVSAKFLTTSQRRNIKRQSYLNEVSQRNDSTFFATIGAFVLLPPLIILGIAILTGYVQLLP*