AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380014642.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380014642.01.T01 MTR_3g061480 91.724 145 12 0 5 149 1 145 1.97e-86 249
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380014642.01.T01 AT2G01870 37.398 123 61 5 34 149 13 126 1.89e-15 69.3

Find 36 sgRNAs with CRISPR-Local

Find 76 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTTCTCGTGTCTTAAAATT+TGG 0.120400 3:+57641337 MsG0380014642.01.T01:five_prime_UTR
GGAAATGAAGATAATGTTTA+TGG 0.128032 3:-57641311 None:intergenic
AAGCTCTTTGAGGGCTTCTT+TGG 0.197880 3:-57641608 None:intergenic
CTGCATAGTTCATGCATTAA+AGG 0.282045 3:+57641549 MsG0380014642.01.T01:CDS
CTTCTCGTGTCTTAAAATTT+GGG 0.300531 3:+57641338 MsG0380014642.01.T01:five_prime_UTR
AGGGCTTCTTTGGCTTTCTC+TGG 0.317033 3:-57641598 None:intergenic
GGAGAGAGTACCCTTGAGTT+TGG 0.359139 3:-57641673 None:intergenic
TTCGCGACATATAAAAGTTA+AGG 0.372625 3:+57642555 MsG0380014642.01.T01:three_prime_UTR
GAAAGTGATGCAAATAATAA+TGG 0.386523 3:-57641445 None:intergenic
GACATATAAAAGTTAAGGTT+TGG 0.397728 3:+57642560 MsG0380014642.01.T01:three_prime_UTR
GTAATTAAGCCAGCCATTGA+TGG 0.399846 3:+57642480 MsG0380014642.01.T01:CDS
TTATTACATAATAACGATAA+AGG 0.404120 3:+57641475 MsG0380014642.01.T01:CDS
CTGCACTTGGATATAGGTTA+TGG 0.412024 3:-57642504 None:intergenic
TTTCTGGTCAAGCTCTTTGA+GGG 0.426726 3:-57641617 None:intergenic
ACCTTTCTTGCACTTCTAGC+TGG 0.428554 3:+57642411 MsG0380014642.01.T01:CDS
CACACACTGCACTTGGATAT+AGG 0.429892 3:-57642510 None:intergenic
GTGTGATATTAATTAATTTG+CGG 0.439644 3:+57642528 MsG0380014642.01.T01:three_prime_UTR
TTAATATCACACACTGCACT+TGG 0.458769 3:-57642517 None:intergenic
TTTCTTGCACTTCTAGCTGG+TGG 0.505803 3:+57642414 MsG0380014642.01.T01:CDS
ACCAGCTAGAAGTGCAAGAA+AGG 0.506989 3:-57642412 None:intergenic
GGCTGCTTATAGATGCTAAG+AGG 0.520680 3:-57641421 None:intergenic
TATAGGTTATGGACCATCAA+TGG 0.534653 3:-57642493 None:intergenic
AAGTTTCCTCTCCAAACTCA+AGG 0.548341 3:+57641662 MsG0380014642.01.T01:CDS
TGGCTGGCTTAATTACAGTA+AGG 0.551216 3:-57642473 None:intergenic
GGTTATGGACCATCAATGGC+TGG 0.567707 3:-57642489 None:intergenic
CTTATCACCTCCTCTCTCGT+AGG 0.590439 3:-57642357 None:intergenic
ATAAAGGCATATTCAAAGAG+AGG 0.608157 3:+57641491 MsG0380014642.01.T01:CDS
GAGTACCCTTGAGTTTGGAG+AGG 0.618346 3:-57641668 None:intergenic
GAATAACATCTGAATATGAG+TGG 0.621057 3:-57641389 None:intergenic
AGAAATGAAGCCTACGAGAG+AGG 0.629871 3:+57642347 MsG0380014642.01.T01:CDS
AGTTTCCTCTCCAAACTCAA+GGG 0.655529 3:+57641663 MsG0380014642.01.T01:CDS
AAGGCATATTCAAAGAGAGG+AGG 0.658459 3:+57641494 MsG0380014642.01.T01:CDS
AATGAAGCCTACGAGAGAGG+AGG 0.660242 3:+57642350 MsG0380014642.01.T01:CDS
GTGAATGTAGTGAAGAGTGA+AGG 0.676798 3:+57641360 MsG0380014642.01.T01:five_prime_UTR
AGTGATGCAAATAATAATGG+TGG 0.676828 3:-57641442 None:intergenic
GAGGTGATAAGTGACAACAA+TGG 0.780630 3:+57642369 MsG0380014642.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAACCGTAAAATTAAAAAA+GGG - Chr3:57641843-57641862 None:intergenic 15.0%
!! AAATATGTTGAATAATAACA+AGG + Chr3:57642144-57642163 MsG0380014642.01.T01:intron 15.0%
!! ATTATTCAACATATTTGAAT+TGG - Chr3:57642140-57642159 None:intergenic 15.0%
!! TTATTACATAATAACGATAA+AGG + Chr3:57641475-57641494 MsG0380014642.01.T01:CDS 15.0%
!!! ATTTCCCTTTTTTAATTTTA+CGG + Chr3:57641836-57641855 MsG0380014642.01.T01:intron 15.0%
!!! TTTGGAAAAAACAATTATTT+TGG + Chr3:57641874-57641893 MsG0380014642.01.T01:intron 15.0%
!! AAGTATGTACTATTTATAAG+TGG - Chr3:57642302-57642321 None:intergenic 20.0%
!! ACAAAATAAGAGAAAAAGAA+CGG - Chr3:57641697-57641716 None:intergenic 20.0%
!! ACATCATATATAGTTAATCT+TGG - Chr3:57642108-57642127 None:intergenic 20.0%
!! ACGAAATGTAAATTTAGAAA+AGG - Chr3:57642053-57642072 None:intergenic 20.0%
!! CAAAACCGTAAAATTAAAAA+AGG - Chr3:57641844-57641863 None:intergenic 20.0%
!! CGAAATGTAAATTTAGAAAA+GGG - Chr3:57642052-57642071 None:intergenic 20.0%
!!! GTGTGATATTAATTAATTTG+CGG + Chr3:57642528-57642547 MsG0380014642.01.T01:three_prime_UTR 20.0%
!!! TTACATTTTATCTTGAGTTA+AGG - Chr3:57641925-57641944 None:intergenic 20.0%
! AATAATAAGGTGTAAAGTCA+AGG + Chr3:57642009-57642028 MsG0380014642.01.T01:intron 25.0%
! ATAATAAGGTGTAAAGTCAA+GGG + Chr3:57642010-57642029 MsG0380014642.01.T01:intron 25.0%
! GAAAGTGATGCAAATAATAA+TGG - Chr3:57641448-57641467 None:intergenic 25.0%
! GAAGTTTATGTCTTATGATA+AGG + Chr3:57641754-57641773 MsG0380014642.01.T01:intron 25.0%
! GAATTGCAATTGATTATAGT+AGG + Chr3:57641811-57641830 MsG0380014642.01.T01:intron 25.0%
! GACATATAAAAGTTAAGGTT+TGG + Chr3:57642560-57642579 MsG0380014642.01.T01:three_prime_UTR 25.0%
! GACTTTACACCTTATTATTA+CGG - Chr3:57642008-57642027 None:intergenic 25.0%
! GGAAATGAAGATAATGTTTA+TGG - Chr3:57641314-57641333 None:intergenic 25.0%
!! TAGAGATAGATTGAATTTTC+TGG - Chr3:57641636-57641655 None:intergenic 25.0%
!! TGTAGTGCTTTTAAATTTTG+TGG + Chr3:57641732-57641751 MsG0380014642.01.T01:intron 25.0%
!!! CGGTTTTGTTTATTTCTTTT+TGG + Chr3:57641856-57641875 MsG0380014642.01.T01:intron 25.0%
!!! TTCTCTTCATTTTTCATTCT+AGG + Chr3:57642179-57642198 MsG0380014642.01.T01:intron 25.0%
AATTGACCACCGTAATAATA+AGG + Chr3:57641996-57642015 MsG0380014642.01.T01:intron 30.0%
ACTTGTATAATCTTAGGAGA+GGG - Chr3:57642081-57642100 None:intergenic 30.0%
AGTGATGCAAATAATAATGG+TGG - Chr3:57641445-57641464 None:intergenic 30.0%
CTTCTCGTGTCTTAAAATTT+GGG + Chr3:57641338-57641357 MsG0380014642.01.T01:five_prime_UTR 30.0%
GAATAACATCTGAATATGAG+TGG - Chr3:57641392-57641411 None:intergenic 30.0%
TTCGCGACATATAAAAGTTA+AGG + Chr3:57642555-57642574 MsG0380014642.01.T01:three_prime_UTR 30.0%
TTTACACCTTATTATTACGG+TGG - Chr3:57642005-57642024 None:intergenic 30.0%
! ATAAAGGCATATTCAAAGAG+AGG + Chr3:57641491-57641510 MsG0380014642.01.T01:CDS 30.0%
!! TCATTTTTCATTCTAGGAGT+GGG + Chr3:57642185-57642204 MsG0380014642.01.T01:intron 30.0%
!! TTCATTTTTCATTCTAGGAG+TGG + Chr3:57642184-57642203 MsG0380014642.01.T01:intron 30.0%
AAAATGATACTCTTCGAGTG+AGG - Chr3:57642212-57642231 None:intergenic 35.0%
AAATGATACTCTTCGAGTGA+GGG - Chr3:57642211-57642230 None:intergenic 35.0%
CTCAATGAACTCAAACTCTT+TGG + Chr3:57642270-57642289 MsG0380014642.01.T01:intron 35.0%
CTGCATAGTTCATGCATTAA+AGG + Chr3:57641549-57641568 MsG0380014642.01.T01:CDS 35.0%
GACTTGTATAATCTTAGGAG+AGG - Chr3:57642082-57642101 None:intergenic 35.0%
GCTTCTCGTGTCTTAAAATT+TGG + Chr3:57641337-57641356 MsG0380014642.01.T01:five_prime_UTR 35.0%
TATAGGTTATGGACCATCAA+TGG - Chr3:57642496-57642515 None:intergenic 35.0%
TCAAAGACTAAACCGACTAA+CGG - Chr3:57641970-57641989 None:intergenic 35.0%
TTAATATCACACACTGCACT+TGG - Chr3:57642520-57642539 None:intergenic 35.0%
! GGCATGACTTGTATAATCTT+AGG - Chr3:57642087-57642106 None:intergenic 35.0%
!!! TTTTAAGACACGAGAAGCAA+TGG - Chr3:57641335-57641354 None:intergenic 35.0%
AAAATCCTTCGTGTCTAACG+AGG - Chr3:57641780-57641799 None:intergenic 40.0%
AAGGCATATTCAAAGAGAGG+AGG + Chr3:57641494-57641513 MsG0380014642.01.T01:CDS 40.0%
AAGTTTCCTCTCCAAACTCA+AGG + Chr3:57641662-57641681 MsG0380014642.01.T01:CDS 40.0%
ACCATTAACGAGTGCAAAGT+AGG - Chr3:57641902-57641921 None:intergenic 40.0%
AGTTTCCTCTCCAAACTCAA+GGG + Chr3:57641663-57641682 MsG0380014642.01.T01:CDS 40.0%
CTGCACTTGGATATAGGTTA+TGG - Chr3:57642507-57642526 None:intergenic 40.0%
GAGGTGATAAGTGACAACAA+TGG + Chr3:57642369-57642388 MsG0380014642.01.T01:CDS 40.0%
GTAATTAAGCCAGCCATTGA+TGG + Chr3:57642480-57642499 MsG0380014642.01.T01:CDS 40.0%
GTGAATGTAGTGAAGAGTGA+AGG + Chr3:57641360-57641379 MsG0380014642.01.T01:five_prime_UTR 40.0%
TAAGGTGTAAAGTCAAGGGT+CGG + Chr3:57642014-57642033 MsG0380014642.01.T01:intron 40.0%
TCCTACTTTGCACTCGTTAA+TGG + Chr3:57641898-57641917 MsG0380014642.01.T01:intron 40.0%
! TTTCTGGTCAAGCTCTTTGA+GGG - Chr3:57641620-57641639 None:intergenic 40.0%
!! TGGCTGGCTTAATTACAGTA+AGG - Chr3:57642476-57642495 None:intergenic 40.0%
!! TTTTCTGGTCAAGCTCTTTG+AGG - Chr3:57641621-57641640 None:intergenic 40.0%
ACCTTTCTTGCACTTCTAGC+TGG + Chr3:57642411-57642430 MsG0380014642.01.T01:CDS 45.0%
AGAAATGAAGCCTACGAGAG+AGG + Chr3:57642347-57642366 MsG0380014642.01.T01:CDS 45.0%
AGACGTGTACATCCGTTAGT+CGG + Chr3:57641955-57641974 MsG0380014642.01.T01:intron 45.0%
CACACACTGCACTTGGATAT+AGG - Chr3:57642513-57642532 None:intergenic 45.0%
GGCTGCTTATAGATGCTAAG+AGG - Chr3:57641424-57641443 None:intergenic 45.0%
! AAGCTCTTTGAGGGCTTCTT+TGG - Chr3:57641611-57641630 None:intergenic 45.0%
! ACCAGCTAGAAGTGCAAGAA+AGG - Chr3:57642415-57642434 None:intergenic 45.0%
! TTTCTTGCACTTCTAGCTGG+TGG + Chr3:57642414-57642433 MsG0380014642.01.T01:CDS 45.0%
AATGAAGCCTACGAGAGAGG+AGG + Chr3:57642350-57642369 MsG0380014642.01.T01:CDS 50.0%
CTTATCACCTCCTCTCTCGT+AGG - Chr3:57642360-57642379 None:intergenic 50.0%
GAGTACCCTTGAGTTTGGAG+AGG - Chr3:57641671-57641690 None:intergenic 50.0%
GGTTATGGACCATCAATGGC+TGG - Chr3:57642492-57642511 None:intergenic 50.0%
TAAGGCCTCGTTAGACACGA+AGG + Chr3:57641772-57641791 MsG0380014642.01.T01:intron 50.0%
!! AGGGCTTCTTTGGCTTTCTC+TGG - Chr3:57641601-57641620 None:intergenic 50.0%
!! GGAGAGAGTACCCTTGAGTT+TGG - Chr3:57641676-57641695 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
Chr3 gene 57641301 57642611 57641301 ID=MsG0380014642.01;Name=MsG0380014642.01
Chr3 mRNA 57641301 57642611 57641301 ID=MsG0380014642.01.T01;Parent=MsG0380014642.01;Name=MsG0380014642.01.T01;_AED=0.50;_eAED=0.50;_QI=102|0|0.5|1|0|0|2|102|149
Chr3 exon 57641301 57641685 57641301 ID=MsG0380014642.01.T01:exon:11155;Parent=MsG0380014642.01.T01
Chr3 exon 57642343 57642611 57642343 ID=MsG0380014642.01.T01:exon:11156;Parent=MsG0380014642.01.T01
Chr3 five_prime_UTR 57641301 57641402 57641301 ID=MsG0380014642.01.T01:five_prime_utr;Parent=MsG0380014642.01.T01
Chr3 CDS 57641403 57641685 57641403 ID=MsG0380014642.01.T01:cds;Parent=MsG0380014642.01.T01
Chr3 CDS 57642343 57642509 57642343 ID=MsG0380014642.01.T01:cds;Parent=MsG0380014642.01.T01
Chr3 three_prime_UTR 57642510 57642611 57642510 ID=MsG0380014642.01.T01:three_prime_utr;Parent=MsG0380014642.01.T01
Gene Sequence

>MsG0380014642.01.T01

ATGTTATTCTCTATGAAACCTCTTAGCATCTATAAGCAGCCACCATTATTATTTGCATCACTTTCTAAATCGTTATTACATAATAACGATAAAGGCATATTCAAAGAGAGGAGGCTCATAAAATATTCTTCTTCATTTAATTTATGCTGCATAGTTCATGCATTAAAGGAAGATTCAAAGCAATATGAGATAGATCCAGAGAAAGCCAAAGAAGCCCTCAAAGAGCTTGACCAGAAAATTCAATCTATCTCTAGTAGAGAAGTTTCCTCTCCAAACTCAAGGGTATCAGAAATGAAGCCTACGAGAGAGGAGGTGATAAGTGACAACAATGGTAAGCTAGAAATTTCAGAGACCTTTCTTGCACTTCTAGCTGGTGGACTTGTTCTCTTTACTATATTGTACAATGTACTATTCCTTACTGTAATTAAGCCAGCCATTGATGGTCCATAA

Protein sequence

>MsG0380014642.01.T01

MLFSMKPLSIYKQPPLLFASLSKSLLHNNDKGIFKERRLIKYSSSFNLCCIVHALKEDSKQYEIDPEKAKEALKELDQKIQSISSREVSSPNSRVSEMKPTREEVISDNNGKLEISETFLALLAGGLVLFTILYNVLFLTVIKPAIDGP*