AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280010353.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010353.01.T01 MTR_2g082580 98.696 230 3 0 1 230 1 230 7.35e-171 469
MsG0280010353.01.T01 MTR_5g041910 29.358 109 77 0 104 212 141 249 1.40e-12 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010353.01.T01 AT3G01440 55.357 224 94 3 1 223 1 219 4.80e-83 247
MsG0280010353.01.T01 AT4G21280 26.106 226 160 4 1 223 1 222 2.07e-18 80.9
MsG0280010353.01.T01 AT4G21280 25.991 227 160 5 1 223 1 223 9.98e-18 79.3
MsG0280010353.01.T01 AT4G05180 28.249 177 123 2 50 223 54 229 2.97e-15 72.8
MsG0280010353.01.T01 AT4G05180 28.249 177 123 2 50 223 54 229 2.97e-15 72.8
MsG0280010353.01.T01 AT1G14150 28.346 127 91 0 95 221 61 187 4.10e-13 65.9
MsG0280010353.01.T01 AT1G14150 30.303 99 69 0 95 193 61 159 2.76e-11 60.5

Find 42 sgRNAs with CRISPR-Local

Find 91 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TACTACTTGTCCTGTCTTAA+AGG 0.141076 2:+68443098 None:intergenic
TAGCTAAGGATAATGGATTT+TGG 0.177277 2:-68442948 MsG0280010353.01.T01:CDS
CTTGTTTCTCTAGTTCTTAC+AGG 0.240422 2:-68442994 MsG0280010353.01.T01:CDS
CAAGTAGTAGTTGGATTTCT+TGG 0.273988 2:-68443084 MsG0280010353.01.T01:CDS
TTAAAGGTTCTTTGTGCATT+TGG 0.275452 2:+68443114 None:intergenic
GAGTAGCTTCTTCACCATTA+TGG 0.285901 2:-68443196 MsG0280010353.01.T01:exon
TTTGGAACAAGGCATGTAAT+TGG 0.297323 2:+68443132 None:intergenic
CTATTAGTGACAGTTGGTTC+TGG 0.310416 2:+68442910 None:intergenic
AAACTCTACATGGCAAATAT+TGG 0.316818 2:-68442166 MsG0280010353.01.T01:CDS
GTGACAGTTGGTTCTGGAAT+AGG 0.317646 2:+68442916 None:intergenic
ATTTCACTAGCTAAGGATAA+TGG 0.333626 2:-68442955 MsG0280010353.01.T01:CDS
TGAAAGTAGACTTGAGTCTT+AGG 0.346421 2:+68442044 None:intergenic
TGTAATTGGAGTTAAAGTTT+TGG 0.348907 2:+68443146 None:intergenic
GATCCTTAAAACACTTCCTT+TGG 0.359342 2:+68442141 None:intergenic
GATATTGCAAATGAGAAAAC+GGG 0.400999 2:-68442211 MsG0280010353.01.T01:CDS
TGAAACACAAGCATGCTATA+AGG 0.409707 2:-68441592 MsG0280010353.01.T01:CDS
AATTGCTGCTTATCTTCAGC+TGG 0.415937 2:+68441986 None:intergenic
ACTCCATGCAAATTTGTTAG+AGG 0.418986 2:+68443171 None:intergenic
GACAGCTTGAAGAAGCTTCA+AGG 0.421927 2:-68441629 MsG0280010353.01.T01:intron
AAGACACACTCAACTATGTT+AGG 0.422431 2:-68442072 MsG0280010353.01.T01:CDS
GATTGTGTTGATTCAAGATA+AGG 0.436387 2:-68441453 MsG0280010353.01.T01:three_prime_UTR
AGATATTGCAAATGAGAAAA+CGG 0.438542 2:-68442212 MsG0280010353.01.T01:CDS
ATTTGTTAGAGGAGCCATAA+TGG 0.451258 2:+68443182 None:intergenic
AAGACAGGACAAGTAGTAGT+TGG 0.458371 2:-68443093 MsG0280010353.01.T01:CDS
ATCTTACTATTAGTGACAGT+TGG 0.488173 2:+68442904 None:intergenic
TTCTTTGTGCATTTGGAACA+AGG 0.495526 2:+68443121 None:intergenic
TGCATTTGATCTTCTTGCAA+TGG 0.504301 2:-68442110 MsG0280010353.01.T01:CDS
TGAGAAGATTTCACTAGCTA+AGG 0.522106 2:-68442962 MsG0280010353.01.T01:CDS
TGCTTAAAGATGTCATGGAC+AGG 0.522204 2:-68441557 MsG0280010353.01.T01:CDS
ATTTGATCTTCTTGCAATGG+CGG 0.551344 2:-68442107 MsG0280010353.01.T01:CDS
ATTGCTGCTTATCTTCAGCT+GGG 0.551798 2:+68441987 None:intergenic
ATGGCAAATATTGGAGCCAA+AGG 0.555680 2:-68442157 MsG0280010353.01.T01:CDS
GCACAAAGAACCTTTAAGAC+AGG 0.560597 2:-68443108 MsG0280010353.01.T01:CDS
TAAGCAGCAATTAACTGATG+TGG 0.578245 2:-68441975 MsG0280010353.01.T01:CDS
AGTTATGCTTAAAGATGTCA+TGG 0.580022 2:-68441562 MsG0280010353.01.T01:CDS
GCTCCTCTAACAAATTTGCA+TGG 0.591211 2:-68443174 MsG0280010353.01.T01:CDS
TATCAAGAAGAAACTCTACA+TGG 0.592066 2:-68442176 MsG0280010353.01.T01:CDS
ATGTATAAAACAATTTGACA+TGG 0.593271 2:-68441525 MsG0280010353.01.T01:exon
ACACACTCAACTATGTTAGG+AGG 0.598523 2:-68442069 MsG0280010353.01.T01:CDS
CTGTAAGAACTAGAGAAACA+AGG 0.599334 2:+68442995 None:intergenic
ATAGCATTTATCTATCTACA+AGG 0.601141 2:+68441421 None:intergenic
ATATTGCAAATGAGAAAACG+GGG 0.743479 2:-68442210 MsG0280010353.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTAATAATAAACAAATGTAA+TGG + Chr2:68442065-68442084 None:intergenic 10.0%
!! AAATATTAATTGTACTATCA+TGG - Chr2:68441929-68441948 MsG0280010353.01.T01:intron 15.0%
!! ATTCACATAATATTAAATTG+CGG + Chr2:68442918-68442937 None:intergenic 15.0%
!! TTATTAATAAACAAATGCAA+TGG - Chr2:68441976-68441995 MsG0280010353.01.T01:CDS 15.0%
!! TTTGTTTATTATTAAATCGA+TGG - Chr2:68442070-68442089 MsG0280010353.01.T01:CDS 15.0%
!!! ATTGTTTGATAATTTTGAAA+AGG - Chr2:68442659-68442678 MsG0280010353.01.T01:intron 15.0%
!! AATATTATGTGAATAGATGT+TGG - Chr2:68442924-68442943 MsG0280010353.01.T01:CDS 20.0%
!! ATACTCTATTATTCAAACTT+AGG + Chr2:68442234-68442253 None:intergenic 20.0%
!! ATGTATAAAACAATTTGACA+TGG - Chr2:68443079-68443098 MsG0280010353.01.T01:CDS 20.0%
!! CAATGTAAATGATGATTATA+TGG - Chr2:68442367-68442386 MsG0280010353.01.T01:intron 20.0%
!! TATAGCTAATGAATTTACAT+TGG - Chr2:68441733-68441752 MsG0280010353.01.T01:intron 20.0%
!! TATTATTAAATCGATGGTTA+TGG - Chr2:68442076-68442095 MsG0280010353.01.T01:CDS 20.0%
!! TTTATGTTTCAATTGACATT+GGG - Chr2:68441824-68441843 MsG0280010353.01.T01:intron 20.0%
!!! TTTTATGTTTCAATTGACAT+TGG - Chr2:68441823-68441842 MsG0280010353.01.T01:intron 20.0%
! AACTCTGTGATAAAATATTG+TGG - Chr2:68442287-68442306 MsG0280010353.01.T01:intron 25.0%
! AGATATTGCAAATGAGAAAA+CGG - Chr2:68442392-68442411 MsG0280010353.01.T01:intron 25.0%
! ATAGCATTTATCTATCTACA+AGG + Chr2:68443186-68443205 None:intergenic 25.0%
! GTTATGATTGAAATTTAGCA+TGG - Chr2:68441897-68441916 MsG0280010353.01.T01:intron 25.0%
! TATGTTATAGTCCAATTTAC+AGG + Chr2:68442188-68442207 None:intergenic 25.0%
!! CAATATTTTATCACAGAGTT+CGG + Chr2:68442287-68442306 None:intergenic 25.0%
!! TGTAATTGGAGTTAAAGTTT+TGG + Chr2:68441461-68441480 None:intergenic 25.0%
!!! ATCTGTTTACTTTTGAACTA+GGG - Chr2:68442332-68442351 MsG0280010353.01.T01:intron 25.0%
!!! GTATGCTCTTTTTTAAATTG+CGG - Chr2:68442681-68442700 MsG0280010353.01.T01:intron 25.0%
!!! TATCTGTTTACTTTTGAACT+AGG - Chr2:68442331-68442350 MsG0280010353.01.T01:intron 25.0%
AAACTCTACATGGCAAATAT+TGG - Chr2:68442438-68442457 MsG0280010353.01.T01:intron 30.0%
AGTTATGCTTAAAGATGTCA+TGG - Chr2:68443042-68443061 MsG0280010353.01.T01:CDS 30.0%
ATATTGCAAATGAGAAAACG+GGG - Chr2:68442394-68442413 MsG0280010353.01.T01:intron 30.0%
ATCTTACTATTAGTGACAGT+TGG + Chr2:68441703-68441722 None:intergenic 30.0%
ATTTCACTAGCTAAGGATAA+TGG - Chr2:68441649-68441668 MsG0280010353.01.T01:intron 30.0%
CAAAATATTGCAGACAAATG+TGG - Chr2:68442767-68442786 MsG0280010353.01.T01:intron 30.0%
CATAAAGTTGCAAACAAATG+TGG - Chr2:68442840-68442859 MsG0280010353.01.T01:intron 30.0%
GATATTGCAAATGAGAAAAC+GGG - Chr2:68442393-68442412 MsG0280010353.01.T01:intron 30.0%
TACCTATTAGTGAAGTACAA+TGG - Chr2:68442017-68442036 MsG0280010353.01.T01:CDS 30.0%
TATCAAGAAGAAACTCTACA+TGG - Chr2:68442428-68442447 MsG0280010353.01.T01:intron 30.0%
TATGGTTAACTTCATCATGA+TGG - Chr2:68442094-68442113 MsG0280010353.01.T01:CDS 30.0%
TTAAAGGTTCTTTGTGCATT+TGG + Chr2:68441493-68441512 None:intergenic 30.0%
! CACATTTGTCTGCAATATTT+TGG + Chr2:68442769-68442788 None:intergenic 30.0%
!! ATTTTAGTCCTTGATATTGC+AGG - Chr2:68442718-68442737 MsG0280010353.01.T01:intron 30.0%
!! CATGTACTTTGATTTTGACA+AGG - Chr2:68442581-68442600 MsG0280010353.01.T01:intron 30.0%
!! GATTGTGTTGATTCAAGATA+AGG - Chr2:68443151-68443170 MsG0280010353.01.T01:CDS 30.0%
!!! GATAATGGATTTTGGATTGA+TGG - Chr2:68441664-68441683 MsG0280010353.01.T01:intron 30.0%
!!! TAGCTAAGGATAATGGATTT+TGG - Chr2:68441656-68441675 MsG0280010353.01.T01:intron 30.0%
AAGACACACTCAACTATGTT+AGG - Chr2:68442532-68442551 MsG0280010353.01.T01:intron 35.0%
ATTTGATCTTCTTGCAATGG+CGG - Chr2:68442497-68442516 MsG0280010353.01.T01:intron 35.0%
CAAGTAGTAGTTGGATTTCT+TGG - Chr2:68441520-68441539 MsG0280010353.01.T01:exon 35.0%
CATAATCATGACCTCAATTG+TGG + Chr2:68442802-68442821 None:intergenic 35.0%
CTGTAAGAACTAGAGAAACA+AGG + Chr2:68441612-68441631 None:intergenic 35.0%
CTTGATATTGCAGGAAAAAG+TGG - Chr2:68442727-68442746 MsG0280010353.01.T01:intron 35.0%
GACATTGGGACAATTATGAT+TGG - Chr2:68441838-68441857 MsG0280010353.01.T01:intron 35.0%
GATCCTTAAAACACTTCCTT+TGG + Chr2:68442466-68442485 None:intergenic 35.0%
TAAGCAGCAATTAACTGATG+TGG - Chr2:68442629-68442648 MsG0280010353.01.T01:intron 35.0%
TACTACTTGTCCTGTCTTAA+AGG + Chr2:68441509-68441528 None:intergenic 35.0%
TGAAACACAAGCATGCTATA+AGG - Chr2:68443012-68443031 MsG0280010353.01.T01:CDS 35.0%
TGAAAGTAGACTTGAGTCTT+AGG + Chr2:68442563-68442582 None:intergenic 35.0%
TGAGAAGATTTCACTAGCTA+AGG - Chr2:68441642-68441661 MsG0280010353.01.T01:intron 35.0%
TGCATTTGATCTTCTTGCAA+TGG - Chr2:68442494-68442513 MsG0280010353.01.T01:intron 35.0%
TGCCATTGTACTTCACTAAT+AGG + Chr2:68442022-68442041 None:intergenic 35.0%
TTAGGGGTAATCCTGTAAAT+TGG - Chr2:68442174-68442193 MsG0280010353.01.T01:CDS 35.0%
TTGAGGTCATGATTATGTTG+TGG - Chr2:68442805-68442824 MsG0280010353.01.T01:intron 35.0%
! ATTTGTTAGAGGAGCCATAA+TGG + Chr2:68441425-68441444 None:intergenic 35.0%
! TTCTTTGTGCATTTGGAACA+AGG + Chr2:68441486-68441505 None:intergenic 35.0%
! TTTGGAACAAGGCATGTAAT+TGG + Chr2:68441475-68441494 None:intergenic 35.0%
!! ACTCCATGCAAATTTGTTAG+AGG + Chr2:68441436-68441455 None:intergenic 35.0%
!! CTTGTTTCTCTAGTTCTTAC+AGG - Chr2:68441610-68441629 MsG0280010353.01.T01:CDS 35.0%
!!! CACTTTTTCCTGCAATATCA+AGG + Chr2:68442729-68442748 None:intergenic 35.0%
AAGACAGGACAAGTAGTAGT+TGG - Chr2:68441511-68441530 MsG0280010353.01.T01:exon 40.0%
AATTGTGGCACAAATGTCGT+TGG + Chr2:68442884-68442903 None:intergenic 40.0%
ACACACTCAACTATGTTAGG+AGG - Chr2:68442535-68442554 MsG0280010353.01.T01:intron 40.0%
AGACCATACTAAGTGGCTTA+GGG - Chr2:68442157-68442176 MsG0280010353.01.T01:CDS 40.0%
ATGGCAAATATTGGAGCCAA+AGG - Chr2:68442447-68442466 MsG0280010353.01.T01:intron 40.0%
GAGTAGCTTCTTCACCATTA+TGG - Chr2:68441408-68441427 MsG0280010353.01.T01:three_prime_UTR 40.0%
GCAAACAAATGTGGCTAATG+CGG - Chr2:68442849-68442868 MsG0280010353.01.T01:intron 40.0%
GCTCCTCTAACAAATTTGCA+TGG - Chr2:68441430-68441449 MsG0280010353.01.T01:three_prime_UTR 40.0%
TAGACCATACTAAGTGGCTT+AGG - Chr2:68442156-68442175 MsG0280010353.01.T01:CDS 40.0%
TGCTTAAAGATGTCATGGAC+AGG - Chr2:68443047-68443066 MsG0280010353.01.T01:CDS 40.0%
! AATTGCTGCTTATCTTCAGC+TGG + Chr2:68442621-68442640 None:intergenic 40.0%
! ATTGCTGCTTATCTTCAGCT+GGG + Chr2:68442620-68442639 None:intergenic 40.0%
! CTATTAGTGACAGTTGGTTC+TGG + Chr2:68441697-68441716 None:intergenic 40.0%
!! GCACAAAGAACCTTTAAGAC+AGG - Chr2:68441496-68441515 MsG0280010353.01.T01:three_prime_UTR 40.0%
!!! GAGCCAAAGGAAGTGTTTTA+AGG - Chr2:68442460-68442479 MsG0280010353.01.T01:intron 40.0%
GACAGCTTGAAGAAGCTTCA+AGG - Chr2:68442975-68442994 MsG0280010353.01.T01:CDS 45.0%
GACCATACTAAGTGGCTTAG+GGG - Chr2:68442158-68442177 MsG0280010353.01.T01:CDS 45.0%
GCCACTTAGTATGGTCTAGT+CGG + Chr2:68442154-68442173 None:intergenic 45.0%
GTCAGAGACGTAGACACAAT+TGG - Chr2:68442261-68442280 MsG0280010353.01.T01:intron 45.0%
TACCCCTAAGCCACTTAGTA+TGG + Chr2:68442163-68442182 None:intergenic 45.0%
!! GTGACAGTTGGTTCTGGAAT+AGG + Chr2:68441691-68441710 None:intergenic 45.0%
ACAAATGTCGTTGGACCACG+CGG + Chr2:68442875-68442894 None:intergenic 50.0%
GCCGACTAGACCATACTAAG+TGG - Chr2:68442150-68442169 MsG0280010353.01.T01:CDS 50.0%
GCGGTCAACAACTGCAATTG+TGG + Chr2:68442899-68442918 None:intergenic 50.0%
GGCTGATGCGACCACAATTG+AGG - Chr2:68442788-68442807 MsG0280010353.01.T01:intron 55.0%
ATGTGGCTAATGCGGCCGCG+TGG - Chr2:68442857-68442876 MsG0280010353.01.T01:intron 65.0%
Chromosome Type Strat End Strand Name
Chr2 gene 68441371 68443255 68441371 ID=MsG0280010353.01;Name=MsG0280010353.01
Chr2 mRNA 68441371 68443255 68441371 ID=MsG0280010353.01.T01;Parent=MsG0280010353.01;Name=MsG0280010353.01.T01;_AED=0.41;_eAED=0.41;_QI=56|1|1|1|1|1|3|159|230
Chr2 exon 68441371 68441646 68441371 ID=MsG0280010353.01.T01:exon:18622;Parent=MsG0280010353.01.T01
Chr2 exon 68441946 68442232 68441946 ID=MsG0280010353.01.T01:exon:18621;Parent=MsG0280010353.01.T01
Chr2 exon 68442911 68443255 68442911 ID=MsG0280010353.01.T01:exon:18620;Parent=MsG0280010353.01.T01
Chr2 five_prime_UTR 68443200 68443255 68443200 ID=MsG0280010353.01.T01:five_prime_utr;Parent=MsG0280010353.01.T01
Chr2 CDS 68442911 68443199 68442911 ID=MsG0280010353.01.T01:cds;Parent=MsG0280010353.01.T01
Chr2 CDS 68441946 68442232 68441946 ID=MsG0280010353.01.T01:cds;Parent=MsG0280010353.01.T01
Chr2 CDS 68441530 68441646 68441530 ID=MsG0280010353.01.T01:cds;Parent=MsG0280010353.01.T01
Chr2 three_prime_UTR 68441371 68441529 68441371 ID=MsG0280010353.01.T01:three_prime_utr;Parent=MsG0280010353.01.T01
Gene Sequence

>MsG0280010353.01.T01

ATGGCTCCTCTAACAAATTTGCATGGAGTCTCCAAAACTTTAACTCCAATTACATGCCTTGTTCCAAATGCACAAAGAACCTTTAAGACAGGACAAGTAGTAGTTGGATTTCTTGGAAGCAAAACAAAGAAATCATCAGAATGTGAATCAGTTAACACTACAAGAAGAGCAGCTGCAATAAGCCTTGTTTCTCTAGTTCTTACAGGACAATTCACTGAGAAGATTTCACTAGCTAAGGATAATGGATTTTGGATTGATGGACCTATTCCAGAACCAACTGTCACTAATAATATTGCAAATGAGAAAACGGGGACACGTTCTTTTATCAAGAAGAAACTCTACATGGCAAATATTGGAGCCAAAGGAAGTGTTTTAAGGATCAAGAAATATGCATTTGATCTTCTTGCAATGGCGGATTTGATTGCACAAGACACACTCAACTATGTTAGGAGGTACCTAAGACTCAAGTCTACTTTCATGTACTTTGATTTTGACAAGGTTATCTCTGCTGTCCCAGCTGAAGATAAGCAGCAATTAACTGATGTGGCAAACAAATTGTTTGATAATTTTGAAAAGCTTGAAGAAGCTTCAAGGAACAAAAATTTACTTGAAACACAAGCATGCTATAAGGAAACTGAAGTTATGCTTAAAGATGTCATGGACAGGATGACTATAATGTATAAAACAATTTGA

Protein sequence

>MsG0280010353.01.T01

MAPLTNLHGVSKTLTPITCLVPNAQRTFKTGQVVVGFLGSKTKKSSECESVNTTRRAAAISLVSLVLTGQFTEKISLAKDNGFWIDGPIPEPTVTNNIANEKTGTRSFIKKKLYMANIGAKGSVLRIKKYAFDLLAMADLIAQDTLNYVRRYLRLKSTFMYFDFDKVISAVPAEDKQQLTDVANKLFDNFEKLEEASRNKNLLETQACYKETEVMLKDVMDRMTIMYKTI*