AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580029991.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580029991.01.T01 MTR_5g096150 85.000 320 23 3 1 296 1 319 0.0 509
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580029991.01.T01 AT4G37000 45.141 319 151 3 1 296 1 318 4.41e-86 261

Find 51 sgRNAs with CRISPR-Local

Find 110 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCTACGACCTTGCTTCTTC+TGG 0.137652 5:+104806303 None:intergenic
CTTCTTCTGGGTATCCATTA+TGG 0.219522 5:+104806316 None:intergenic
CTCGAAAAGACCTTGTTCTT+TGG 0.238806 5:-104804957 MsG0580029991.01.T01:CDS
CAAAGCAAGTGTTGGGGATA+TGG 0.247429 5:-104804727 MsG0580029991.01.T01:CDS
ATCAGCTCGAACACAAAATT+TGG 0.277458 5:+104805024 None:intergenic
CCCAACACTTGCTTTGAAAT+CGG 0.292400 5:+104804734 None:intergenic
TTCTGTTTCTTGTTCCATAA+TGG 0.319723 5:-104806330 MsG0580029991.01.T01:CDS
CGATACACATTGGCAGGCTT+TGG 0.333285 5:-104804896 MsG0580029991.01.T01:CDS
AGAACAAGAATTAGCATTGT+TGG 0.348949 5:+104804991 None:intergenic
TCAAGCTTTCCAAGGTTGTT+TGG 0.358482 5:-104804596 MsG0580029991.01.T01:CDS
AACAGTAAAATACTCCTTGA+TGG 0.363131 5:+104804544 None:intergenic
GCTACGACCTTGCTTCTTCT+GGG 0.370091 5:+104806304 None:intergenic
AAGACTATTGAGGTTGATCT+TGG 0.379733 5:-104804620 MsG0580029991.01.T01:CDS
AGAAGCTGCAAAACAGATAT+TGG 0.387915 5:-104804570 MsG0580029991.01.T01:CDS
CTCTTATAGTATTGAACATC+AGG 0.390571 5:+104806170 None:intergenic
TCCTACTTCTCTCTCGGAAC+AGG 0.405515 5:+104804691 None:intergenic
CCGATTTCAAAGCAAGTGTT+GGG 0.413297 5:-104804734 MsG0580029991.01.T01:CDS
CCAACACTTGCTTTGAAATC+GGG 0.426823 5:+104804735 None:intergenic
TTAGCATTGTTGGACTGCTT+CGG 0.427662 5:+104805001 None:intergenic
CCCGATTTCAAAGCAAGTGT+TGG 0.432798 5:-104804735 MsG0580029991.01.T01:CDS
ATCATTTGAACTGTTAAGAT+AGG 0.468826 5:+104805050 None:intergenic
GAGTGACAAGGTTGAACCTC+TGG 0.478104 5:+104804866 None:intergenic
CAATACTATAAGAGCAAGAA+TGG 0.480003 5:-104806161 MsG0580029991.01.T01:CDS
ATCAAGCATGAGATTCTTGT+GGG 0.484852 5:+104806250 None:intergenic
TTCCTCTCCTACTTCTCTCT+CGG 0.487400 5:+104804685 None:intergenic
ACAGATATTGGAAGCCATCA+AGG 0.487475 5:-104804558 MsG0580029991.01.T01:CDS
AGAAACAGAAGAACGAGAAG+TGG 0.502938 5:+104806343 None:intergenic
AGATGGAAAGTGATGAATGT+TGG 0.508445 5:+104806408 None:intergenic
ATCTTGGTTCAAGCTTTCCA+AGG 0.509846 5:-104804604 MsG0580029991.01.T01:CDS
GTGCATGCTGAGCTACCAAC+AGG 0.516588 5:-104805102 MsG0580029991.01.T01:CDS
TTGTGGGGTGCTGAAACATA+TGG 0.516911 5:+104806266 None:intergenic
AAAGTGATGAATGTTGGAAA+TGG 0.528882 5:+104806414 None:intergenic
TAAACTCGATACACATTGGC+AGG 0.536591 5:-104804902 MsG0580029991.01.T01:CDS
CATTAGAAACAAGACTATTG+AGG 0.540436 5:-104804630 MsG0580029991.01.T01:CDS
ACAGGGGAATCAGTGTTGCT+TGG 0.543335 5:+104806110 None:intergenic
ATTCAGACAGAAAATGATGA+AGG 0.546561 5:-104804794 MsG0580029991.01.T01:intron
GCTTCTGGACCAAACAACCT+TGG 0.551283 5:+104804587 None:intergenic
GCAAGTGTTGGGGATATGGT+TGG 0.554687 5:-104804723 MsG0580029991.01.T01:CDS
ACATCAGGTGGAAGTGAACA+AGG 0.566315 5:+104806185 None:intergenic
ATATCTAATGATCCTCCTGT+TGG 0.577783 5:+104805087 None:intergenic
GATCAAGCATGAGATTCTTG+TGG 0.577920 5:+104806249 None:intergenic
GCCTGTTCCGAGAGAGAAGT+AGG 0.581979 5:-104804692 MsG0580029991.01.T01:CDS
GGTAATCTGGCCAAAGAACA+AGG 0.591389 5:+104804947 None:intergenic
TTCCGAGAGAGAAGTAGGAG+AGG 0.601529 5:-104804687 MsG0580029991.01.T01:CDS
TTATAGTATTGAACATCAGG+TGG 0.606078 5:+104806173 None:intergenic
CGATTTCAAAGCAAGTGTTG+GGG 0.632172 5:-104804733 MsG0580029991.01.T01:CDS
ATGGATACCCAGAAGAAGCA+AGG 0.643978 5:-104806311 MsG0580029991.01.T01:CDS
ACACTAAACTCGATACACAT+TGG 0.661563 5:-104804906 MsG0580029991.01.T01:CDS
CATGCTGAGCTACCAACAGG+AGG 0.671949 5:-104805099 MsG0580029991.01.T01:CDS
TCAAGCATGAGATTCTTGTG+GGG 0.732179 5:+104806251 None:intergenic
TTACCTTAAAACTTTCTACG+AGG 0.733422 5:-104804929 MsG0580029991.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GATTATTTTAATTACTTATT+AGG - Chr5:104805397-104805416 MsG0580029991.01.T01:intron 10.0%
!!! TATTGTTATGTTATTTTATT+AGG - Chr5:104804979-104804998 MsG0580029991.01.T01:CDS 10.0%
!! AGTACACTAAATATTTATCA+TGG - Chr5:104805005-104805024 MsG0580029991.01.T01:CDS 20.0%
!! ATTATGTTTCTTCAACATAA+GGG + Chr5:104805510-104805529 None:intergenic 20.0%
!! TATACTCTAACATGAAAATA+TGG + Chr5:104804931-104804950 None:intergenic 20.0%
!! TATGCAAATAACAAATTAAG+TGG + Chr5:104805151-104805170 None:intergenic 20.0%
!! TCATATAACAAAACAATCAA+TGG + Chr5:104805723-104805742 None:intergenic 20.0%
!! TTCATGTTAGAGTATATATT+TGG - Chr5:104804935-104804954 MsG0580029991.01.T01:CDS 20.0%
! ATCATTTGAACTGTTAAGAT+AGG + Chr5:104805937-104805956 None:intergenic 25.0%
! CATTATGTTTCTTCAACATA+AGG + Chr5:104805511-104805530 None:intergenic 25.0%
! CTATCTAACTATCTACAAAT+AGG - Chr5:104805434-104805453 MsG0580029991.01.T01:intron 25.0%
! TATATATTTGGTTGAGAACT+AGG - Chr5:104804947-104804966 MsG0580029991.01.T01:CDS 25.0%
! TTCCTTAATTGTGATTGTTT+GGG - Chr5:104805353-104805372 MsG0580029991.01.T01:intron 25.0%
!! TCTCAGATAGATTTTGTAAT+GGG - Chr5:104805852-104805871 MsG0580029991.01.T01:intron 25.0%
!!! GAATTTTGAGAGAAAAAAGT+AGG + Chr5:104804909-104804928 None:intergenic 25.0%
!!! TAGAAAGTTTTAAGGTAATC+TGG + Chr5:104806053-104806072 None:intergenic 25.0%
!!! TATTTTTCCATTAGTTCTCT+AGG - Chr5:104805650-104805669 MsG0580029991.01.T01:intron 25.0%
AAAAGTAGGAGGAAAATTAC+AGG + Chr5:104804895-104804914 None:intergenic 30.0%
AAAGTAGGAGGAAAATTACA+GGG + Chr5:104804894-104804913 None:intergenic 30.0%
AAAGTGATGAATGTTGGAAA+TGG + Chr5:104804573-104804592 None:intergenic 30.0%
AACAGTAAAATACTCCTTGA+TGG + Chr5:104806443-104806462 None:intergenic 30.0%
AAGGACCACTTTAATCAAAT+TGG - Chr5:104805245-104805264 MsG0580029991.01.T01:intron 30.0%
AGAACAAGAATTAGCATTGT+TGG + Chr5:104805996-104806015 None:intergenic 30.0%
AGAAGAAGAAGAAGATAAGA+TGG + Chr5:104804596-104804615 None:intergenic 30.0%
ATTCAGACAGAAAATGATGA+AGG - Chr5:104806190-104806209 MsG0580029991.01.T01:CDS 30.0%
CAATACTATAAGAGCAAGAA+TGG - Chr5:104804823-104804842 MsG0580029991.01.T01:intron 30.0%
CATTAGAAACAAGACTATTG+AGG - Chr5:104806354-104806373 MsG0580029991.01.T01:CDS 30.0%
CATTGCCAATTTGATTAAAG+TGG + Chr5:104805253-104805272 None:intergenic 30.0%
GAAGAAACATAATGTTCATG+AGG - Chr5:104805517-104805536 MsG0580029991.01.T01:intron 30.0%
GCTTATCTGATAAAAAGAGA+TGG - Chr5:104806328-104806347 MsG0580029991.01.T01:CDS 30.0%
GTTCCTTAATTGTGATTGTT+TGG - Chr5:104805352-104805371 MsG0580029991.01.T01:intron 30.0%
TACCCAAACAATCACAATTA+AGG + Chr5:104805358-104805377 None:intergenic 30.0%
TCAAATAAGCTAATCCAAAC+AGG + Chr5:104805543-104805562 None:intergenic 30.0%
TTACCTTAAAACTTTCTACG+AGG - Chr5:104806055-104806074 MsG0580029991.01.T01:intron 30.0%
TTACTAACTAATCACCTTAG+AGG + Chr5:104805098-104805117 None:intergenic 30.0%
! CTCTTATAGTATTGAACATC+AGG + Chr5:104804817-104804836 None:intergenic 30.0%
! GTCTCAGATAGATTTTGTAA+TGG - Chr5:104805851-104805870 MsG0580029991.01.T01:intron 30.0%
! TTATAGTATTGAACATCAGG+TGG + Chr5:104804814-104804833 None:intergenic 30.0%
! TTCTGTTTCTTGTTCCATAA+TGG - Chr5:104804654-104804673 MsG0580029991.01.T01:CDS 30.0%
! TTGCTTACTTTAGAGAATGA+AGG - Chr5:104805226-104805245 MsG0580029991.01.T01:intron 30.0%
!! TTTTGAGAGAAAAAAGTAGG+AGG + Chr5:104804906-104804925 None:intergenic 30.0%
!!! AAGGAGTATTTTACTGTTTG+AGG - Chr5:104806445-104806464 MsG0580029991.01.T01:exon 30.0%
AAGCTATCCTAGAGAACTAA+TGG + Chr5:104805660-104805679 None:intergenic 35.0%
AAGTAGGAGGAAAATTACAG+GGG + Chr5:104804893-104804912 None:intergenic 35.0%
ACACTAAACTCGATACACAT+TGG - Chr5:104806078-104806097 MsG0580029991.01.T01:intron 35.0%
AGAAGCTGCAAAACAGATAT+TGG - Chr5:104806414-104806433 MsG0580029991.01.T01:CDS 35.0%
AGATGGAAAGTGATGAATGT+TGG + Chr5:104804579-104804598 None:intergenic 35.0%
ATATCTAATGATCCTCCTGT+TGG + Chr5:104805900-104805919 None:intergenic 35.0%
ATCAAGCATGAGATTCTTGT+GGG + Chr5:104804737-104804756 None:intergenic 35.0%
ATCAGCTCGAACACAAAATT+TGG + Chr5:104805963-104805982 None:intergenic 35.0%
CAAGTTGTTTATCCAACACA+TGG - Chr5:104805770-104805789 MsG0580029991.01.T01:intron 35.0%
CATGTGTTGGATAAACAACT+TGG + Chr5:104805772-104805791 None:intergenic 35.0%
CTGAATGCGAACAAATATAG+CGG + Chr5:104806176-104806195 None:intergenic 35.0%
CTTCTTCTTCTTCTTCTTCA+AGG - Chr5:104804608-104804627 MsG0580029991.01.T01:CDS 35.0%
GCTTATTTGAGCTTACATAC+TGG - Chr5:104805553-104805572 MsG0580029991.01.T01:intron 35.0%
! AAGACTATTGAGGTTGATCT+TGG - Chr5:104806364-104806383 MsG0580029991.01.T01:CDS 35.0%
! AATATCTGTTTTGCAGCTTC+TGG + Chr5:104806415-104806434 None:intergenic 35.0%
! TAGAGTGTCTAAAGTGAGAT+TGG + Chr5:104805061-104805080 None:intergenic 35.0%
! TGTCCTCGTAGAAAGTTTTA+AGG + Chr5:104806061-104806080 None:intergenic 35.0%
!! AGATTTTGTAATGGGAAGCT+GGG - Chr5:104805860-104805879 MsG0580029991.01.T01:intron 35.0%
!! TAGATTTTGTAATGGGAAGC+TGG - Chr5:104805859-104805878 MsG0580029991.01.T01:intron 35.0%
ACAGATATTGGAAGCCATCA+AGG - Chr5:104806426-104806445 MsG0580029991.01.T01:CDS 40.0%
ACCATAACTAGACCATGTGT+TGG + Chr5:104805785-104805804 None:intergenic 40.0%
AGAAACAGAAGAACGAGAAG+TGG + Chr5:104804644-104804663 None:intergenic 40.0%
ATCACCTTAGAGGAGAAACA+TGG + Chr5:104805088-104805107 None:intergenic 40.0%
ATCTACCAACCAGTGAATCA+AGG + Chr5:104805326-104805345 None:intergenic 40.0%
ATCTTGGTTCAAGCTTTCCA+AGG - Chr5:104806380-104806399 MsG0580029991.01.T01:CDS 40.0%
ATGAAAAGCGAAGAGTGACA+AGG + Chr5:104806133-104806152 None:intergenic 40.0%
ATGCGAACAAATATAGCGGT+TGG + Chr5:104806172-104806191 None:intergenic 40.0%
CCGATTTCAAAGCAAGTGTT+GGG - Chr5:104806250-104806269 MsG0580029991.01.T01:CDS 40.0%
CTCGAAAAGACCTTGTTCTT+TGG - Chr5:104806027-104806046 MsG0580029991.01.T01:intron 40.0%
CTTCTTCTGGGTATCCATTA+TGG + Chr5:104804671-104804690 None:intergenic 40.0%
GATCAAGCATGAGATTCTTG+TGG + Chr5:104804738-104804757 None:intergenic 40.0%
TAAACTCGATACACATTGGC+AGG - Chr5:104806082-104806101 MsG0580029991.01.T01:intron 40.0%
TAATGTTCATGAGGCCTGTT+TGG - Chr5:104805526-104805545 MsG0580029991.01.T01:intron 40.0%
TCAACCATGTTTCTCCTCTA+AGG - Chr5:104805081-104805100 MsG0580029991.01.T01:CDS 40.0%
TCAAGCATGAGATTCTTGTG+GGG + Chr5:104804736-104804755 None:intergenic 40.0%
TCAAGCTTTCCAAGGTTGTT+TGG - Chr5:104806388-104806407 MsG0580029991.01.T01:CDS 40.0%
TCCAACACATGGTCTAGTTA+TGG - Chr5:104805781-104805800 MsG0580029991.01.T01:intron 40.0%
TTAGCATTGTTGGACTGCTT+CGG + Chr5:104805986-104806005 None:intergenic 40.0%
! CAAAGAACAAGGTCTTTTCG+AGG + Chr5:104806029-104806048 None:intergenic 40.0%
! CGATTTCAAAGCAAGTGTTG+GGG - Chr5:104806251-104806270 MsG0580029991.01.T01:CDS 40.0%
! GCAAGGTCGTAGCAAATTTT+TGG - Chr5:104804690-104804709 MsG0580029991.01.T01:CDS 40.0%
!! AGGCTTTGGAAAAATTCCAG+AGG - Chr5:104806102-104806121 MsG0580029991.01.T01:intron 40.0%
!! CCAACACTTGCTTTGAAATC+GGG + Chr5:104806252-104806271 None:intergenic 40.0%
!! CCCAACACTTGCTTTGAAAT+CGG + Chr5:104806253-104806272 None:intergenic 40.0%
ACATCAGGTGGAAGTGAACA+AGG + Chr5:104804802-104804821 None:intergenic 45.0%
ATGGATACCCAGAAGAAGCA+AGG - Chr5:104804673-104804692 MsG0580029991.01.T01:CDS 45.0%
CAACCAGTGAATCAAGGCTT+AGG + Chr5:104805320-104805339 None:intergenic 45.0%
CCCGATTTCAAAGCAAGTGT+TGG - Chr5:104806249-104806268 MsG0580029991.01.T01:CDS 45.0%
CTAAGCCTTGATTCACTGGT+TGG - Chr5:104805318-104805337 MsG0580029991.01.T01:intron 45.0%
GGTAATCTGGCCAAAGAACA+AGG + Chr5:104806040-104806059 None:intergenic 45.0%
TAGCCTAAGCCTTGATTCAC+TGG - Chr5:104805314-104805333 MsG0580029991.01.T01:intron 45.0%
TTCCTCTCCTACTTCTCTCT+CGG + Chr5:104806302-104806321 None:intergenic 45.0%
!! AGAACAAGGTCTTTTCGAGG+TGG + Chr5:104806026-104806045 None:intergenic 45.0%
!! CAAAGCAAGTGTTGGGGATA+TGG - Chr5:104806257-104806276 MsG0580029991.01.T01:CDS 45.0%
!! TTGTGGGGTGCTGAAACATA+TGG + Chr5:104804721-104804740 None:intergenic 45.0%
CGATACACATTGGCAGGCTT+TGG - Chr5:104806088-104806107 MsG0580029991.01.T01:intron 50.0%
GAGTGACAAGGTTGAACCTC+TGG + Chr5:104806121-104806140 None:intergenic 50.0%
GCTACGACCTTGCTTCTTCT+GGG + Chr5:104804683-104804702 None:intergenic 50.0%
GCTTCTGGACCAAACAACCT+TGG + Chr5:104806400-104806419 None:intergenic 50.0%
TCCTACTTCTCTCTCGGAAC+AGG + Chr5:104806296-104806315 None:intergenic 50.0%
TGCTACGACCTTGCTTCTTC+TGG + Chr5:104804684-104804703 None:intergenic 50.0%
TTCCGAGAGAGAAGTAGGAG+AGG - Chr5:104806297-104806316 MsG0580029991.01.T01:CDS 50.0%
! ACAGGGGAATCAGTGTTGCT+TGG + Chr5:104804877-104804896 None:intergenic 50.0%
!! GCAAGTGTTGGGGATATGGT+TGG - Chr5:104806261-104806280 MsG0580029991.01.T01:CDS 50.0%
CATGCTGAGCTACCAACAGG+AGG - Chr5:104805885-104805904 MsG0580029991.01.T01:intron 55.0%
CGGTTGGAGATGCAACACTG+CGG + Chr5:104806156-104806175 None:intergenic 55.0%
GCCTGTTCCGAGAGAGAAGT+AGG - Chr5:104806292-104806311 MsG0580029991.01.T01:CDS 55.0%
GTGCATGCTGAGCTACCAAC+AGG - Chr5:104805882-104805901 MsG0580029991.01.T01:intron 55.0%
Chromosome Type Strat End Strand Name
Chr5 gene 104804541 104806465 104804541 ID=MsG0580029991.01;Name=MsG0580029991.01
Chr5 mRNA 104804541 104806465 104804541 ID=MsG0580029991.01.T01;Parent=MsG0580029991.01;Name=MsG0580029991.01.T01;_AED=0.50;_eAED=0.50;_QI=9|0.5|0.33|1|1|1|3|0|296
Chr5 exon 104804541 104804810 104804541 ID=MsG0580029991.01.T01:exon:8985;Parent=MsG0580029991.01.T01
Chr5 exon 104804873 104805148 104804873 ID=MsG0580029991.01.T01:exon:8984;Parent=MsG0580029991.01.T01
Chr5 exon 104806112 104806465 104806112 ID=MsG0580029991.01.T01:exon:8983;Parent=MsG0580029991.01.T01
Chr5 five_prime_UTR 104806457 104806465 104806457 ID=MsG0580029991.01.T01:five_prime_utr;Parent=MsG0580029991.01.T01
Chr5 CDS 104806112 104806456 104806112 ID=MsG0580029991.01.T01:cds;Parent=MsG0580029991.01.T01
Chr5 CDS 104804873 104805148 104804873 ID=MsG0580029991.01.T01:cds;Parent=MsG0580029991.01.T01
Chr5 CDS 104804541 104804810 104804541 ID=MsG0580029991.01.T01:cds;Parent=MsG0580029991.01.T01
Gene Sequence

>MsG0580029991.01.T01

ATGATAGTGATGATCTGTAGCCATTTCCAACATTCATCACTTTCCATCTTATCTTCTTCTTCTTCTTCTTCTTCTTCAAGGTTTCATCTTTCCACTTCTCGTTCTTCTGTTTCTTGTTCCATAATGGATACCCAGAAGAAGCAAGGTCGTAGCAAATTTTTGGAATTTCCATATGTTTCAGCACCCCACAAGAATCTCATGCTTGATCTTGTTTCAACAGTTGAAGATCGCTTTGAATCTCATCTTCTTCCTTGTTCACTTCCACCTGATGTTCAATACTATAAGAGCAAGAATGGTACTTCTCAAGTTTCATTGCATATTAGACCAAGCAACACTGATTCCCCTATAGATTTTGTAATGGGAAGCTGGGTGCATGCTGAGCTACCAACAGGAGGATCATTAGATATAACATCTCTTTCAGCCTATCTTAACAGTTCAAATGATGCACCAAATTTTGTGTTCGAGCTGATCCGAAGCAGTCCAACAATGCTAATTCTTGTTCTTGATTTGCCACCTCGAAAAGACCTTGTTCTTTGGCCAGATTACCTTAAAACTTTCTACGAGGACACTAAACTCGATACACATTGGCAGGCTTTGGAAAAATTCCAGAGGTTCAACCTTACAGAAAATGATGAAGGAGAGCGAATAGACGAGATCATCAAGAACAATATTGACCCGATTTCAAAGCAAGTGTTGGGGATATGGTTGGATCATTGCGCCTGTTCCGAGAGAGAAGTAGGAGAGGAAGATAAAGCTTATCTGATAAAAAGAGATGGTGTCATTAGAAACAAGACTATTGAGGTTGATCTTGGTTCAAGCTTTCCAAGGTTGTTTGGTCCAGAAGCTGCAAAACAGATATTGGAAGCCATCAAGGAGTATTTTACTGTTTGA

Protein sequence

>MsG0580029991.01.T01

MIVMICSHFQHSSLSILSSSSSSSSSRFHLSTSRSSVSCSIMDTQKKQGRSKFLEFPYVSAPHKNLMLDLVSTVEDRFESHLLPCSLPPDVQYYKSKNGTSQVSLHIRPSNTDSPIDFVMGSWVHAELPTGGSLDITSLSAYLNSSNDAPNFVFELIRSSPTMLILVLDLPPRKDLVLWPDYLKTFYEDTKLDTHWQALEKFQRFNLTENDEGERIDEIIKNNIDPISKQVLGIWLDHCACSEREVGEEDKAYLIKRDGVIRNKTIEVDLGSSFPRLFGPEAAKQILEAIKEYFTV*