AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880047428.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880047428.01.T01 MTR_4g127160 94.915 59 3 0 122 180 43 101 1.42e-20 87.8
MsG0880047428.01.T01 MTR_4g127160 94.915 59 3 0 122 180 112 170 1.71e-20 88.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 30 sgRNAs with CRISPR-Local

Find 79 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGAGATGTGCCGCAAATAT+TGG 0.300167 8:-86136496 MsG0880047428.01.T01:CDS
TCGTGGCGATTAAATCTTAA+TGG 0.327765 8:-86135643 MsG0880047428.01.T01:CDS
TTTCAATTACTGCTAATTGC+AGG 0.373898 8:-86135615 MsG0880047428.01.T01:CDS
CCACAGTTGGTGACTCCAAT+TGG 0.405640 8:+86135497 None:intergenic
CTCAGCACCATTATCAACTT+TGG 0.421101 8:+86135435 None:intergenic
ACAGATGCCAAAGTTGATAA+TGG 0.427492 8:-86135442 MsG0880047428.01.T01:CDS
TACCATGTTTCCAATATTTG+CGG 0.456834 8:+86136486 None:intergenic
TTCTCTTGCTTCTTGAATCG+TGG 0.488012 8:-86135660 MsG0880047428.01.T01:CDS
AAATGCTATAGCAAGATCAT+AGG 0.488901 8:+86135991 None:intergenic
AACAATAAGTCAAATATTGA+AGG 0.491836 8:-86135380 MsG0880047428.01.T01:CDS
TTCATCTCTCTTCAGTAGCA+AGG 0.496685 8:-86135812 MsG0880047428.01.T01:CDS
TAATGTGGAAGACAACCAAT+TGG 0.510929 8:-86135512 MsG0880047428.01.T01:CDS
GGTCTGAAGAATACAAATGT+AGG 0.524324 8:+86136030 None:intergenic
GGTTACAGAAAACAAAGTTA+AGG 0.544978 8:-86135476 MsG0880047428.01.T01:CDS
ACAATAAGTCAAATATTGAA+GGG 0.546642 8:-86135379 MsG0880047428.01.T01:CDS
ATAGGTAGTGGGATAACTGC+TGG 0.551052 8:+86136009 None:intergenic
TATAGCAAGATCATAGGTAG+TGG 0.551975 8:+86135997 None:intergenic
TGAATCTGTTGTTGATAATG+TGG 0.576162 8:-86135527 MsG0880047428.01.T01:CDS
ATTACTGCTAATTGCAGGTG+TGG 0.594772 8:-86135610 MsG0880047428.01.T01:CDS
TGCCGCAAATATTGGAAACA+TGG 0.603504 8:-86136488 MsG0880047428.01.T01:intron
ATAGCAAGATCATAGGTAGT+GGG 0.616041 8:+86135998 None:intergenic
CAATAAGTCAAATATTGAAG+GGG 0.625288 8:-86135378 MsG0880047428.01.T01:CDS
ATGGTGCTGAGACAGAGAAA+CGG 0.644173 8:-86135423 MsG0880047428.01.T01:CDS
TGGCGATTAAATCTTAATGG+TGG 0.646248 8:-86135640 MsG0880047428.01.T01:CDS
ATGCAGAACGATAATACAGA+GGG 0.648262 8:-86136536 MsG0880047428.01.T01:CDS
CCAATTGGAGTCACCAACTG+TGG 0.648790 8:-86135497 MsG0880047428.01.T01:CDS
AATAAGTCAAATATTGAAGG+GGG 0.651885 8:-86135377 MsG0880047428.01.T01:CDS
GATGCAGAACGATAATACAG+AGG 0.716767 8:-86136537 MsG0880047428.01.T01:CDS
TAATACAGAGGGTTCCACAG+TGG 0.729759 8:-86136525 MsG0880047428.01.T01:CDS
CATCTCTTCTAGATCCACTG+TGG 0.742631 8:+86136511 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GAATTATTTATTTTTTCTAA+GGG - Chr8:86136199-86136218 MsG0880047428.01.T01:intron 10.0%
!!! CGAATTATTTATTTTTTCTA+AGG - Chr8:86136198-86136217 MsG0880047428.01.T01:intron 15.0%
!! AACAATAAGTCAAATATTGA+AGG - Chr8:86136525-86136544 MsG0880047428.01.T01:CDS 20.0%
!! ACAATAAGTCAAATATTGAA+GGG - Chr8:86136526-86136545 MsG0880047428.01.T01:CDS 20.0%
!! TTTCTATCTAGTAATTGATA+TGG + Chr8:86135649-86135668 None:intergenic 20.0%
!!! ACAGTATGAAAATTTTATAG+CGG + Chr8:86135729-86135748 None:intergenic 20.0%
!!! ACTTATTGTTCTTTTTCTTT+TGG + Chr8:86136515-86136534 None:intergenic 20.0%
!!! CTTATTGTTCTTTTTCTTTT+GGG + Chr8:86136514-86136533 None:intergenic 20.0%
!!! TTGCTTAAAACAATTTTCTA+TGG - Chr8:86135777-86135796 MsG0880047428.01.T01:CDS 20.0%
!!! TTTTACAGCATTTTATAGTA+TGG - Chr8:86135843-86135862 MsG0880047428.01.T01:CDS 20.0%
! AATAAGTCAAATATTGAAGG+GGG - Chr8:86136528-86136547 MsG0880047428.01.T01:CDS 25.0%
! AATCTGATATTGAGAACTAT+GGG - Chr8:86135961-86135980 MsG0880047428.01.T01:intron 25.0%
! ACAGAAATGACAATACTAAT+TGG + Chr8:86136036-86136055 None:intergenic 25.0%
! ATGTTATAAACAAGAGAGAT+AGG + Chr8:86136178-86136197 None:intergenic 25.0%
! CAATAAGTCAAATATTGAAG+GGG - Chr8:86136527-86136546 MsG0880047428.01.T01:CDS 25.0%
! TGTACTGTGTAGTTTATAAT+CGG + Chr8:86135493-86135512 None:intergenic 25.0%
!! CTTAAAACAATTTTCTATGG+CGG - Chr8:86135780-86135799 MsG0880047428.01.T01:CDS 25.0%
!! GCTATAAAATTTTCATACTG+TGG - Chr8:86135728-86135747 MsG0880047428.01.T01:intron 25.0%
!! TAATTGATATGGTTGATACA+TGG + Chr8:86135638-86135657 None:intergenic 25.0%
!! TTTCTTTTTCTTTTTTCCCT+TGG + Chr8:86136344-86136363 None:intergenic 25.0%
AAATCTTGAAGTGTAGAACA+AGG + Chr8:86135459-86135478 None:intergenic 30.0%
AAATGATGAGGAAAAATCCA+AGG - Chr8:86136324-86136343 MsG0880047428.01.T01:intron 30.0%
AAATGCTATAGCAAGATCAT+AGG + Chr8:86135917-86135936 None:intergenic 30.0%
AATGACAATACTAATTGGTG+TGG + Chr8:86136031-86136050 None:intergenic 30.0%
AATGATGAGGAAAAATCCAA+GGG - Chr8:86136325-86136344 MsG0880047428.01.T01:intron 30.0%
CAATCTGATATTGAGAACTA+TGG - Chr8:86135960-86135979 MsG0880047428.01.T01:intron 30.0%
CAATTACTAGATAGAAAGCT+TGG - Chr8:86135652-86135671 MsG0880047428.01.T01:CDS 30.0%
GGTTACAGAAAACAAAGTTA+AGG - Chr8:86136429-86136448 MsG0880047428.01.T01:intron 30.0%
TACCATGTTTCCAATATTTG+CGG + Chr8:86135422-86135441 None:intergenic 30.0%
TTGTTCTACACTTCAAGATT+TGG - Chr8:86135458-86135477 MsG0880047428.01.T01:CDS 30.0%
TTTCAATTACTGCTAATTGC+AGG - Chr8:86136290-86136309 MsG0880047428.01.T01:intron 30.0%
! ATTTTCATACTGTGGCATAT+TGG - Chr8:86135736-86135755 MsG0880047428.01.T01:intron 30.0%
!! TGAATCTGTTGTTGATAATG+TGG - Chr8:86136378-86136397 MsG0880047428.01.T01:intron 30.0%
!!! TGTTCTTTTTCTTTTGGGTT+TGG + Chr8:86136509-86136528 None:intergenic 30.0%
AGTGTACAGTTTACAGGATT+AGG + Chr8:86135521-86135540 None:intergenic 35.0%
ATAGCAAGATCATAGGTAGT+GGG + Chr8:86135910-86135929 None:intergenic 35.0%
ATGCAGAACGATAATACAGA+GGG - Chr8:86135369-86135388 MsG0880047428.01.T01:CDS 35.0%
GGTCTGAAGAATACAAATGT+AGG + Chr8:86135878-86135897 None:intergenic 35.0%
TAATGTGGAAGACAACCAAT+TGG - Chr8:86136393-86136412 MsG0880047428.01.T01:intron 35.0%
TATAGCAAGATCATAGGTAG+TGG + Chr8:86135911-86135930 None:intergenic 35.0%
TCGTGGCGATTAAATCTTAA+TGG - Chr8:86136262-86136281 MsG0880047428.01.T01:intron 35.0%
TGGCGATTAAATCTTAATGG+TGG - Chr8:86136265-86136284 MsG0880047428.01.T01:intron 35.0%
TGTATAAAGTACAGTGTGAC+TGG - Chr8:86135588-86135607 MsG0880047428.01.T01:CDS 35.0%
! ACAAGAGAGATAGGTTTTCA+AGG + Chr8:86136169-86136188 None:intergenic 35.0%
! ATCAATGATCAAAAAGCGCA+AGG - Chr8:86136130-86136149 MsG0880047428.01.T01:intron 35.0%
! ATCTTGCTATAGCATTTGTG+GGG - Chr8:86135920-86135939 MsG0880047428.01.T01:intron 35.0%
! GATCTTGCTATAGCATTTGT+GGG - Chr8:86135919-86135938 MsG0880047428.01.T01:intron 35.0%
! GTGCTACTAACAATTATGAC+TGG + Chr8:86135679-86135698 None:intergenic 35.0%
! TGATCTTGCTATAGCATTTG+TGG - Chr8:86135918-86135937 MsG0880047428.01.T01:intron 35.0%
! TTGTTTTCTGTAACCACAGT+TGG + Chr8:86136424-86136443 None:intergenic 35.0%
!! ACAGATGCCAAAGTTGATAA+TGG - Chr8:86136463-86136482 MsG0880047428.01.T01:intron 35.0%
AAGAGATGTGCCGCAAATAT+TGG - Chr8:86135409-86135428 MsG0880047428.01.T01:CDS 40.0%
ATGCTGTAAAATAGCAGCCA+TGG + Chr8:86135834-86135853 None:intergenic 40.0%
ATTACTGCTAATTGCAGGTG+TGG - Chr8:86136295-86136314 MsG0880047428.01.T01:intron 40.0%
CTAAGAACAGTTTGCACTAG+TGG + Chr8:86135556-86135575 None:intergenic 40.0%
CTCAGCACCATTATCAACTT+TGG + Chr8:86136473-86136492 None:intergenic 40.0%
CTGATATTGAGAACTATGGG+AGG - Chr8:86135964-86135983 MsG0880047428.01.T01:intron 40.0%
CTTGTCAGTGTACAGTTTAC+AGG + Chr8:86135527-86135546 None:intergenic 40.0%
GTGTGGACTCAAAAATGATG+AGG - Chr8:86136312-86136331 MsG0880047428.01.T01:intron 40.0%
TAGCAGTGAAAAGTAGCAGT+TGG - Chr8:86135703-86135722 MsG0880047428.01.T01:intron 40.0%
TGAAGTGTAGAACAAGGCTA+AGG + Chr8:86135453-86135472 None:intergenic 40.0%
TGCCGCAAATATTGGAAACA+TGG - Chr8:86135417-86135436 MsG0880047428.01.T01:CDS 40.0%
TGTAGAACAAGGCTAAGGTT+GGG + Chr8:86135448-86135467 None:intergenic 40.0%
TTCATCTCTCTTCAGTAGCA+AGG - Chr8:86136093-86136112 MsG0880047428.01.T01:intron 40.0%
TTCTCTTGCTTCTTGAATCG+TGG - Chr8:86136245-86136264 MsG0880047428.01.T01:intron 40.0%
CATCTCTTCTAGATCCACTG+TGG + Chr8:86135397-86135416 None:intergenic 45.0%
CTGTAAAATAGCAGCCATGG+CGG + Chr8:86135831-86135850 None:intergenic 45.0%
GCCATTGTCTCATGTTGTTG+GGG - Chr8:86135610-86135629 MsG0880047428.01.T01:CDS 45.0%
GGCCATTGTCTCATGTTGTT+GGG - Chr8:86135609-86135628 MsG0880047428.01.T01:CDS 45.0%
GTGTAGAACAAGGCTAAGGT+TGG + Chr8:86135449-86135468 None:intergenic 45.0%
TAATACAGAGGGTTCCACAG+TGG - Chr8:86135380-86135399 MsG0880047428.01.T01:CDS 45.0%
TCCCCAACAACATGAGACAA+TGG + Chr8:86135614-86135633 None:intergenic 45.0%
TGCTATAGCATTTGTGGGGT+TGG - Chr8:86135924-86135943 MsG0880047428.01.T01:intron 45.0%
TGGCCATTGTCTCATGTTGT+TGG - Chr8:86135608-86135627 MsG0880047428.01.T01:CDS 45.0%
! ATGGTGCTGAGACAGAGAAA+CGG - Chr8:86136482-86136501 MsG0880047428.01.T01:intron 45.0%
!! ATAGGTAGTGGGATAACTGC+TGG + Chr8:86135899-86135918 None:intergenic 45.0%
CCAATTGGAGTCACCAACTG+TGG - Chr8:86136408-86136427 MsG0880047428.01.T01:intron 50.0%
TTCACTACGTCATTCCGCCA+TGG - Chr8:86135814-86135833 MsG0880047428.01.T01:CDS 50.0%
!! CCACAGTTGGTGACTCCAAT+TGG + Chr8:86136411-86136430 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
Chr8 gene 86135369 86136558 86135369 ID=MsG0880047428.01;Name=MsG0880047428.01
Chr8 mRNA 86135369 86136558 86135369 ID=MsG0880047428.01.T01;Parent=MsG0880047428.01;Name=MsG0880047428.01.T01;_AED=0.46;_eAED=0.48;_QI=0|0|0|1|0|0.25|4|0|199
Chr8 exon 86136489 86136558 86136489 ID=MsG0880047428.01.T01:exon:2039;Parent=MsG0880047428.01.T01
Chr8 exon 86135991 86136076 86135991 ID=MsG0880047428.01.T01:exon:2038;Parent=MsG0880047428.01.T01
Chr8 exon 86135776 86135886 86135776 ID=MsG0880047428.01.T01:exon:2037;Parent=MsG0880047428.01.T01
Chr8 exon 86135369 86135701 86135369 ID=MsG0880047428.01.T01:exon:2036;Parent=MsG0880047428.01.T01
Chr8 CDS 86136489 86136558 86136489 ID=MsG0880047428.01.T01:cds;Parent=MsG0880047428.01.T01
Chr8 CDS 86135991 86136076 86135991 ID=MsG0880047428.01.T01:cds;Parent=MsG0880047428.01.T01
Chr8 CDS 86135776 86135886 86135776 ID=MsG0880047428.01.T01:cds;Parent=MsG0880047428.01.T01
Chr8 CDS 86135369 86135701 86135369 ID=MsG0880047428.01.T01:cds;Parent=MsG0880047428.01.T01
Gene Sequence

>MsG0880047428.01.T01

ATGCAGAACGATAATACAGAGGGTTCCACAGTGGATCTAGAAGAGATGTGCCGCAAATATTGGAAACATGCATTTTATAGTATGGATTATTTATCCTACATTTGTATTCTTCAGACCAGCAGTTATCCCACTACCTATGATCTTGCTATAGCATTTTATTGTCATTTCTGTCTTGTTTATATGCTAATTGAGCTTTTTGTTCTTGTTTTTCATCTCTCTTCAGTAGCAAGGATGCTAAGTCAACTATCAATGATCAAAAAGCGCAAGATGTTTCTTGCATATCTCATTCTCTTGCTTCTTGAATCGTGGCGATTAAATCTTAATGGTGGCTTTTCAATTACTGCTAATTGCAGGTGTGGACTCAAAAATGATGAGGAAAAATCCAAGGGAAAAAAGAAAAAGAAAAGCAACGTAGTTTCTGAATCTGTTGTTGATAATGTGGAAGACAACCAATTGGAGTCACCAACTGTGGTTACAGAAAACAAAGTTAAGGATGATTTATCTACAGATGCCAAAGTTGATAATGGTGCTGAGACAGAGAAACGGTCCAAACCCAAAAGAAAAAGAACAATAAGTCAAATATTGAAGGGGGTGCAATAG

Protein sequence

>MsG0880047428.01.T01

MQNDNTEGSTVDLEEMCRKYWKHAFYSMDYLSYICILQTSSYPTTYDLAIAFYCHFCLVYMLIELFVLVFHLSSVARMLSQLSMIKKRKMFLAYLILLLLESWRLNLNGGFSITANCRCGLKNDEEKSKGKKKKKSNVVSESVVDNVEDNQLESPTVVTENKVKDDLSTDAKVDNGAETEKRSKPKRKRTISQILKGVQ*