AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280007951.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007951.01.T01 MTR_2g436150 94.086 186 7 2 1 185 1 183 1.21e-126 354
MsG0280007951.01.T01 MTR_2g435810 94.086 186 7 2 1 185 1 183 1.21e-126 354
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007951.01.T01 AT3G06840 56.633 196 65 8 1 185 1 187 7.31e-55 172
MsG0280007951.01.T01 AT5G49170 52.941 204 58 11 1 185 1 185 2.83e-53 168

Find 64 sgRNAs with CRISPR-Local

Find 82 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCCTTTCGGGCCACAATTTC+TGG 0.043078 2:+23601638 MsG0280007951.01.T01:CDS
GAGGAGTCTTTGGTATTATT+TGG 0.111128 2:-23601110 None:intergenic
ATATACCTTACTTGAGTTTA+AGG 0.160955 2:+23601777 MsG0280007951.01.T01:CDS
AGCCCGGGCTAAGGCCTTTC+GGG 0.260893 2:+23601625 MsG0280007951.01.T01:CDS
AAGCCCGGGCTAAGGCCTTT+CGG 0.297451 2:+23601624 MsG0280007951.01.T01:CDS
CCTCAACATTTCAGTGACTA+TGG 0.308915 2:+23601258 MsG0280007951.01.T01:CDS
CCTTTCGGGCCACAATTTCT+GGG 0.320318 2:+23601639 MsG0280007951.01.T01:CDS
AGATTCACGTTTGTGCTTCA+TGG 0.345486 2:-23601411 None:intergenic
GAAGAAAGAGTAGAATGAAA+TGG 0.353111 2:-23601163 None:intergenic
CTTGAAGTGTATGGAATCTA+TGG 0.354127 2:-23601441 None:intergenic
CGCCGGTGGCGTCAAAGTTC+CGG 0.354589 2:-23601741 None:intergenic
ATTTAAGTAACAAAGTAAAT+AGG 0.355099 2:-23601848 None:intergenic
TTTCTTCTTCAAAAGGAAAT+GGG 0.386249 2:+23601550 MsG0280007951.01.T01:CDS
GTGGGTCTACTACTCCTTAC+AGG 0.390731 2:+23601687 MsG0280007951.01.T01:CDS
GAAATGTTGAGGGTCTGATA+TGG 0.391377 2:-23601247 None:intergenic
TATACCTTACTTGAGTTTAA+GGG 0.394223 2:+23601778 MsG0280007951.01.T01:CDS
CCTGAAAATAGTTGATTTGT+GGG 0.429495 2:-23601287 None:intergenic
ACCTGAAAATAGTTGATTTG+TGG 0.442721 2:-23601288 None:intergenic
CTACTCTCAGTCAAGTAAAC+AGG 0.449601 2:-23601662 None:intergenic
CAAAGTTCCGGCGAGTGGTC+CGG 0.450141 2:-23601729 None:intergenic
AAGTGAAATGTGAAATGGTT+TGG 0.454017 2:+23602012 MsG0280007951.01.T01:three_prime_UTR
GATGTTCAGCTTAACAATAT+CGG 0.466594 2:+23601937 MsG0280007951.01.T01:three_prime_UTR
TGGCCCGAAAGGCCTTAGCC+CGG 0.482164 2:-23601628 None:intergenic
CGCCGGAACTTTGACGCCAC+CGG 0.488326 2:+23601739 MsG0280007951.01.T01:CDS
GAGTCTTTGGTATTATTTGG+AGG 0.501248 2:-23601107 None:intergenic
ACTTTGACGCCACCGGCGAT+CGG 0.501681 2:+23601746 MsG0280007951.01.T01:CDS
CCGGCGAGTGGTCCGGAGGA+AGG 0.503710 2:-23601722 None:intergenic
AGCTCCCTTAAACTCAAGTA+AGG 0.506363 2:-23601782 None:intergenic
ACAATGATATTCATCAAGCC+CGG 0.514048 2:+23601609 MsG0280007951.01.T01:CDS
GGCCCGAAAGGCCTTAGCCC+GGG 0.515825 2:-23601627 None:intergenic
GAATGAAATGGAGTAGAAGA+TGG 0.517975 2:-23601151 None:intergenic
CCTCTGTTGCTGCTGTTCCA+TGG 0.519512 2:-23601807 None:intergenic
CCCAGAAATTGTGGCCCGAA+AGG 0.523869 2:-23601639 None:intergenic
GCCACCGGCGATCGGTGCGG+TGG 0.537637 2:+23601754 MsG0280007951.01.T01:CDS
GGCCTACTAGTAGTCCTGTA+AGG 0.538444 2:-23601701 None:intergenic
CATAGTCACTGAAATGTTGA+GGG 0.543224 2:-23601257 None:intergenic
CTCCTTACAGGACTACTAGT+AGG 0.544863 2:+23601699 MsG0280007951.01.T01:CDS
TACTTGACTGAGAGTAGAAG+TGG 0.545520 2:+23601668 MsG0280007951.01.T01:CDS
ACAATATCGGCATTGTCTGA+TGG 0.546331 2:+23601950 MsG0280007951.01.T01:three_prime_UTR
CCATAGTCACTGAAATGTTG+AGG 0.547303 2:-23601258 None:intergenic
AAATGTTGAGGGTCTGATAT+GGG 0.548060 2:-23601246 None:intergenic
TATTCATCAAGCCCGGGCTA+AGG 0.551656 2:+23601616 MsG0280007951.01.T01:CDS
GTAAACAGGCCCAGAAATTG+TGG 0.553194 2:-23601648 None:intergenic
TGAAATGGAGTAGAAGATGG+TGG 0.554680 2:-23601148 None:intergenic
CCTTCCTCCGGACCACTCGC+CGG 0.558888 2:+23601722 MsG0280007951.01.T01:CDS
GGCGTCAAAGTTCCGGCGAG+TGG 0.559631 2:-23601734 None:intergenic
CCATTTCAAAAGAAGAATCA+AGG 0.563731 2:+23601474 MsG0280007951.01.T01:CDS
ATATCCACCGCACCGATCGC+CGG 0.579605 2:-23601758 None:intergenic
GAGTTTAAGGGAGCTTACCA+TGG 0.580907 2:+23601790 MsG0280007951.01.T01:CDS
AATCAAAGAAGAAACGTTGG+TGG 0.590435 2:+23601516 MsG0280007951.01.T01:CDS
TAAGCTGAACATCTTCACTC+AGG 0.592776 2:-23601927 None:intergenic
CAATGATATTCATCAAGCCC+GGG 0.594820 2:+23601610 MsG0280007951.01.T01:CDS
GATGATCGTTACAATGATGA+TGG 0.595872 2:+23601584 MsG0280007951.01.T01:CDS
TCCACCGCACCGATCGCCGG+TGG 0.612156 2:-23601755 None:intergenic
ACTACTAGTAGGCCTTCCTC+CGG 0.614378 2:+23601710 MsG0280007951.01.T01:CDS
CCATGGAACAGCAGCAACAG+AGG 0.617936 2:+23601807 MsG0280007951.01.T01:CDS
CAAAATCAAAGAAGAAACGT+TGG 0.619265 2:+23601513 MsG0280007951.01.T01:CDS
GACGCCACCGGCGATCGGTG+CGG 0.625663 2:+23601751 MsG0280007951.01.T01:CDS
AGTTCCGGCGAGTGGTCCGG+AGG 0.639091 2:-23601726 None:intergenic
GCAACAGAGGATGTCTACCT+CGG 0.665726 2:+23601820 MsG0280007951.01.T01:CDS
AAAGTAAATAGGCATAGCCG+AGG 0.668649 2:-23601837 None:intergenic
ACTTGACTGAGAGTAGAAGT+GGG 0.674202 2:+23601669 MsG0280007951.01.T01:CDS
CATCATTGTAACGATCATCA+CGG 0.676457 2:-23601580 None:intergenic
TATTCGCACATTCAACTGCG+AGG 0.728660 2:+23601892 MsG0280007951.01.T01:three_prime_UTR

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTTAAGTAACAAAGTAAAT+AGG - Chr2:23601851-23601870 None:intergenic 15.0%
!!! AATTTTTTATTTTCAAAACC+AGG + Chr2:23601376-23601395 MsG0280007951.01.T01:intron 15.0%
!!! TTTGACATTTTTGTGATAAT+GGG - Chr2:23601210-23601229 None:intergenic 20.0%
! ATATACCTTACTTGAGTTTA+AGG + Chr2:23601777-23601796 MsG0280007951.01.T01:CDS 25.0%
! CAAAAAAGTGAAATGTGAAA+TGG + Chr2:23602007-23602026 MsG0280007951.01.T01:three_prime_UTR 25.0%
! GTTAGATAAAAAATTCAGCT+AGG - Chr2:23601188-23601207 None:intergenic 25.0%
! TATACCTTACTTGAGTTTAA+GGG + Chr2:23601778-23601797 MsG0280007951.01.T01:CDS 25.0%
! TTTCTTCTTCAAAAGGAAAT+GGG + Chr2:23601550-23601569 MsG0280007951.01.T01:CDS 25.0%
!! GTTTGACATTTTTGTGATAA+TGG - Chr2:23601211-23601230 None:intergenic 25.0%
!! TTTTCTTCTTCAAAAGGAAA+TGG + Chr2:23601549-23601568 MsG0280007951.01.T01:CDS 25.0%
!!! CTTGATTCTTCTTTTGAAAT+GGG - Chr2:23601476-23601495 None:intergenic 25.0%
!!! GTTTCTTCTTTGATTTTGTA+TGG - Chr2:23601511-23601530 None:intergenic 25.0%
AAGTGAAATGTGAAATGGTT+TGG + Chr2:23602012-23602031 MsG0280007951.01.T01:three_prime_UTR 30.0%
AATTAGCGAAAGAGAGTTAA+AGG - Chr2:23601316-23601335 None:intergenic 30.0%
ATTAGCGAAAGAGAGTTAAA+GGG - Chr2:23601315-23601334 None:intergenic 30.0%
CAAAATCAAAGAAGAAACGT+TGG + Chr2:23601513-23601532 MsG0280007951.01.T01:CDS 30.0%
CCATTTCAAAAGAAGAATCA+AGG + Chr2:23601474-23601493 MsG0280007951.01.T01:CDS 30.0%
GAAGAAAGAGTAGAATGAAA+TGG - Chr2:23601166-23601185 None:intergenic 30.0%
GATGTTCAGCTTAACAATAT+CGG + Chr2:23601937-23601956 MsG0280007951.01.T01:three_prime_UTR 30.0%
! ATGCTCTTTTCTTCTTCAAA+AGG + Chr2:23601543-23601562 MsG0280007951.01.T01:CDS 30.0%
! TTTTTGTAGCTTGAAGTGTA+TGG - Chr2:23601453-23601472 None:intergenic 30.0%
!! ACCTGAAAATAGTTGATTTG+TGG - Chr2:23601291-23601310 None:intergenic 30.0%
!! CCTGAAAATAGTTGATTTGT+GGG - Chr2:23601290-23601309 None:intergenic 30.0%
!! CCTTGATTCTTCTTTTGAAA+TGG - Chr2:23601477-23601496 None:intergenic 30.0%
AAATGTTGAGGGTCTGATAT+GGG - Chr2:23601249-23601268 None:intergenic 35.0%
AATCAAAGAAGAAACGTTGG+TGG + Chr2:23601516-23601535 MsG0280007951.01.T01:CDS 35.0%
ACAATGATATTCATCAAGCC+CGG + Chr2:23601609-23601628 MsG0280007951.01.T01:CDS 35.0%
CATAGTCACTGAAATGTTGA+GGG - Chr2:23601260-23601279 None:intergenic 35.0%
CATCATTGTAACGATCATCA+CGG - Chr2:23601583-23601602 None:intergenic 35.0%
CTTGAAGTGTATGGAATCTA+TGG - Chr2:23601444-23601463 None:intergenic 35.0%
GAATGAAATGGAGTAGAAGA+TGG - Chr2:23601154-23601173 None:intergenic 35.0%
GAGGAGTCTTTGGTATTATT+TGG - Chr2:23601113-23601132 None:intergenic 35.0%
GAGTCTTTGGTATTATTTGG+AGG - Chr2:23601110-23601129 None:intergenic 35.0%
GATGATCGTTACAATGATGA+TGG + Chr2:23601584-23601603 MsG0280007951.01.T01:CDS 35.0%
! CCCACAAATCAACTATTTTC+AGG + Chr2:23601287-23601306 MsG0280007951.01.T01:CDS 35.0%
AAAGTAAATAGGCATAGCCG+AGG - Chr2:23601840-23601859 None:intergenic 40.0%
ACAATATCGGCATTGTCTGA+TGG + Chr2:23601950-23601969 MsG0280007951.01.T01:three_prime_UTR 40.0%
ACTTGACTGAGAGTAGAAGT+GGG + Chr2:23601669-23601688 MsG0280007951.01.T01:CDS 40.0%
AGATTCACGTTTGTGCTTCA+TGG - Chr2:23601414-23601433 None:intergenic 40.0%
AGCTCCCTTAAACTCAAGTA+AGG - Chr2:23601785-23601804 None:intergenic 40.0%
CAATGATATTCATCAAGCCC+GGG + Chr2:23601610-23601629 MsG0280007951.01.T01:CDS 40.0%
CCATAGTCACTGAAATGTTG+AGG - Chr2:23601261-23601280 None:intergenic 40.0%
CCTCAACATTTCAGTGACTA+TGG + Chr2:23601258-23601277 MsG0280007951.01.T01:CDS 40.0%
CTACTCTCAGTCAAGTAAAC+AGG - Chr2:23601665-23601684 None:intergenic 40.0%
GAAATGTTGAGGGTCTGATA+TGG - Chr2:23601250-23601269 None:intergenic 40.0%
GGGTCTGATATGGGAAAAAT+TGG - Chr2:23601240-23601259 None:intergenic 40.0%
TAAGCTGAACATCTTCACTC+AGG - Chr2:23601930-23601949 None:intergenic 40.0%
TACTTGACTGAGAGTAGAAG+TGG + Chr2:23601668-23601687 MsG0280007951.01.T01:CDS 40.0%
TCATGGCTTCTTCTAATACC+TGG - Chr2:23601397-23601416 None:intergenic 40.0%
TGAAATGGAGTAGAAGATGG+TGG - Chr2:23601151-23601170 None:intergenic 40.0%
CTCCTTACAGGACTACTAGT+AGG + Chr2:23601699-23601718 MsG0280007951.01.T01:CDS 45.0%
GAGTTTAAGGGAGCTTACCA+TGG + Chr2:23601790-23601809 MsG0280007951.01.T01:CDS 45.0%
GTAAACAGGCCCAGAAATTG+TGG - Chr2:23601651-23601670 None:intergenic 45.0%
TATTCGCACATTCAACTGCG+AGG + Chr2:23601892-23601911 MsG0280007951.01.T01:three_prime_UTR 45.0%
ACTACTAGTAGGCCTTCCTC+CGG + Chr2:23601710-23601729 MsG0280007951.01.T01:CDS 50.0%
CCTTTCGGGCCACAATTTCT+GGG + Chr2:23601639-23601658 MsG0280007951.01.T01:CDS 50.0%
GAGAGAGAGAGAGGAGTCTT+TGG - Chr2:23601123-23601142 None:intergenic 50.0%
GCAACAGAGGATGTCTACCT+CGG + Chr2:23601820-23601839 MsG0280007951.01.T01:CDS 50.0%
GGCCTACTAGTAGTCCTGTA+AGG - Chr2:23601704-23601723 None:intergenic 50.0%
GTGGGTCTACTACTCCTTAC+AGG + Chr2:23601687-23601706 MsG0280007951.01.T01:CDS 50.0%
TATTCATCAAGCCCGGGCTA+AGG + Chr2:23601616-23601635 MsG0280007951.01.T01:CDS 50.0%
CCATGGAACAGCAGCAACAG+AGG + Chr2:23601807-23601826 MsG0280007951.01.T01:CDS 55.0%
CCCAGAAATTGTGGCCCGAA+AGG - Chr2:23601642-23601661 None:intergenic 55.0%
CCTCTGTTGCTGCTGTTCCA+TGG - Chr2:23601810-23601829 None:intergenic 55.0%
GCCTTTCGGGCCACAATTTC+TGG + Chr2:23601638-23601657 MsG0280007951.01.T01:CDS 55.0%
GTGGAGAGAGAGAGAGAGAG+AGG - Chr2:23601132-23601151 None:intergenic 55.0%
AAGCCCGGGCTAAGGCCTTT+CGG + Chr2:23601624-23601643 MsG0280007951.01.T01:CDS 60.0%
ACTTTGACGCCACCGGCGAT+CGG + Chr2:23601746-23601765 MsG0280007951.01.T01:CDS 60.0%
CAAAGTTCCGGCGAGTGGTC+CGG - Chr2:23601732-23601751 None:intergenic 60.0%
! ATATCCACCGCACCGATCGC+CGG - Chr2:23601761-23601780 None:intergenic 60.0%
AGCCCGGGCTAAGGCCTTTC+GGG + Chr2:23601625-23601644 MsG0280007951.01.T01:CDS 65.0%
CGCCGGAACTTTGACGCCAC+CGG + Chr2:23601739-23601758 MsG0280007951.01.T01:CDS 65.0%
CGCCGGTGGCGTCAAAGTTC+CGG - Chr2:23601744-23601763 None:intergenic 65.0%
GGCGTCAAAGTTCCGGCGAG+TGG - Chr2:23601737-23601756 None:intergenic 65.0%
TGGCCCGAAAGGCCTTAGCC+CGG - Chr2:23601631-23601650 None:intergenic 65.0%
AGTTCCGGCGAGTGGTCCGG+AGG - Chr2:23601729-23601748 None:intergenic 70.0%
CCTTCCTCCGGACCACTCGC+CGG + Chr2:23601722-23601741 MsG0280007951.01.T01:CDS 70.0%
GGCCCGAAAGGCCTTAGCCC+GGG - Chr2:23601630-23601649 None:intergenic 70.0%
CCGGCGAGTGGTCCGGAGGA+AGG - Chr2:23601725-23601744 None:intergenic 75.0%
GACGCCACCGGCGATCGGTG+CGG + Chr2:23601751-23601770 MsG0280007951.01.T01:CDS 75.0%
! TCCACCGCACCGATCGCCGG+TGG - Chr2:23601758-23601777 None:intergenic 75.0%
! GCCACCGGCGATCGGTGCGG+TGG + Chr2:23601754-23601773 MsG0280007951.01.T01:CDS 80.0%
Chromosome Type Strat End Strand Name
Chr2 gene 23601104 23602042 23601104 ID=MsG0280007951.01;Name=MsG0280007951.01
Chr2 mRNA 23601104 23602042 23601104 ID=MsG0280007951.01.T01;Parent=MsG0280007951.01;Name=MsG0280007951.01.T01;_AED=0.27;_eAED=0.27;_QI=118|1|1|1|1|1|2|174|185
Chr2 exon 23601104 23601308 23601104 ID=MsG0280007951.01.T01:exon:18528;Parent=MsG0280007951.01.T01
Chr2 exon 23601398 23602042 23601398 ID=MsG0280007951.01.T01:exon:18529;Parent=MsG0280007951.01.T01
Chr2 five_prime_UTR 23601104 23601221 23601104 ID=MsG0280007951.01.T01:five_prime_utr;Parent=MsG0280007951.01.T01
Chr2 CDS 23601222 23601308 23601222 ID=MsG0280007951.01.T01:cds;Parent=MsG0280007951.01.T01
Chr2 CDS 23601398 23601868 23601398 ID=MsG0280007951.01.T01:cds;Parent=MsG0280007951.01.T01
Chr2 three_prime_UTR 23601869 23602042 23601869 ID=MsG0280007951.01.T01:three_prime_utr;Parent=MsG0280007951.01.T01
Gene Sequence

>MsG0280007951.01.T01

ATGTCAAACAAGACTCCAATTTTTCCCATATCAGACCCTCAACATTTCAGTGACTATGGTTTTGACCCACAAATCAACTATTTTCAGGTATTAGAAGAAGCCATGAAGCACAAACGTGAATCTTCAAGATCCATAGATTCCATACACTTCAAGCTACAAAAACCCATTTCAAAAGAAGAATCAAGGAACAAGTTTCACCATACAAAATCAAAGAAGAAACGTTGGTGGAAAAATGCTCTTTTCTTCTTCAAAAGGAAATGGGCTCATAACCGTGATGATCGTTACAATGATGATGGTAACAATGATATTCATCAAGCCCGGGCTAAGGCCTTTCGGGCCACAATTTCTGGGCCTGTTTACTTGACTGAGAGTAGAAGTGGGTCTACTACTCCTTACAGGACTACTAGTAGGCCTTCCTCCGGACCACTCGCCGGAACTTTGACGCCACCGGCGATCGGTGCGGTGGATATACCTTACTTGAGTTTAAGGGAGCTTACCATGGAACAGCAGCAACAGAGGATGTCTACCTCGGCTATGCCTATTTACTTTGTTACTTAA
Protein sequence

>MsG0280007951.01.T01

MSNKTPIFPISDPQHFSDYGFDPQINYFQVLEEAMKHKRESSRSIDSIHFKLQKPISKEESRNKFHHTKSKKKRWWKNALFFFKRKWAHNRDDRYNDDGNNDIHQARAKAFRATISGPVYLTESRSGSTTPYRTTSRPSSGPLAGTLTPPAIGAVDIPYLSLRELTMEQQQQRMSTSAMPIYFVT*