AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene91444


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene91444.t1 MTR_1g104630 81.188 202 25 1 1 202 1 189 1.80e-115 327
MS.gene91444.t1 MTR_5g006130 77.358 212 31 2 1 202 1 205 7.91e-113 320
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene91444.t1 AT1G03130 79.290 169 29 1 40 202 32 200 4.97e-96 278
MS.gene91444.t1 AT4G02770 90.210 143 14 0 60 202 62 204 4.18e-95 276

Find 79 sgRNAs with CRISPR-Local

Find 85 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAGTGCTGCCACTGAAAAT+TGG 0.193952 1.2:+77558201 None:intergenic
CGACCCGGGTTCACTTTCTC+TGG 0.253150 1.2:+77557922 None:intergenic
CAACTTGGGCCTTACATAAA+AGG 0.267884 1.2:+77558175 None:intergenic
AAAATTGGGGAGGGAGTGTT+TGG 0.285103 1.2:+77558216 None:intergenic
AAGGGGTTGGTCAGAACTTT+AGG 0.293589 1.2:-77557897 MS.gene91444:CDS
ATTTCAAAGATTTGTTCTTT+TGG 0.302487 1.2:+77558123 None:intergenic
CCTTGCTAACTTGAGAAGAT+TGG 0.306141 1.2:+77558065 None:intergenic
CAGTGCTGCCACTGAAAATT+GGG 0.315756 1.2:+77558202 None:intergenic
GGTCAGAACTTTAGGTCTAT+TGG 0.344103 1.2:-77557889 MS.gene91444:CDS
ATTGTGAGCTTGAGAGGGTT+TGG 0.372107 1.2:+77558318 None:intergenic
AGAGATACGGTCATTAGGTT+TGG 0.376453 1.2:+77558380 None:intergenic
CTCTTCACCCATCCTCTCTC+TGG 0.383954 1.2:-77558405 MS.gene91444:CDS
AAAGAACAATGTTTGGCTCT+TGG 0.389124 1.2:-77558042 MS.gene91444:CDS
GGTACAGAGATACGGTCATT+AGG 0.394276 1.2:+77558375 None:intergenic
AGCAAGGAAAGAACAATGTT+TGG 0.394375 1.2:-77558049 MS.gene91444:CDS
CTTGCTAACTTGAGAAGATT+GGG 0.409133 1.2:+77558066 None:intergenic
TGGGAAACACTCTATAGAAT+TGG 0.417334 1.2:+77557986 None:intergenic
GAGATACGGTCATTAGGTTT+GGG 0.426468 1.2:+77558381 None:intergenic
TCTGGGTACACACCATCCTT+AGG 0.434810 1.2:+77557940 None:intergenic
TGACCAACCCCTTGGCGACC+CGG 0.439253 1.2:+77557907 None:intergenic
TCTATAGAGTGTTTCCCAAT+GGG 0.441504 1.2:-77557981 MS.gene91444:CDS
CCACTGAACTTAACCTCTAC+AGG 0.458444 1.2:+77557853 None:intergenic
AAGTATTGAACTTCCCCATT+GGG 0.462594 1.2:+77557967 None:intergenic
CTTGAAATTGTGAGCTTGAG+AGG 0.480961 1.2:+77558312 None:intergenic
CAAATCTTTGAAATGCCTAC+TGG 0.482126 1.2:-77558114 MS.gene91444:CDS
GACCCGGGTTCACTTTCTCT+GGG 0.486087 1.2:+77557923 None:intergenic
GTTTGGGACCAGAGAGAGGA+TGG 0.489586 1.2:+77558397 None:intergenic
AAAGTGAACCCGGGTCGCCA+AGG 0.500800 1.2:-77557916 MS.gene91444:CDS
TCACATAAAATTCCTCAACT+TGG 0.507482 1.2:+77558160 None:intergenic
AAATTGGGGAGGGAGTGTTT+GGG 0.508064 1.2:+77558217 None:intergenic
TCAGGTGGGGTGAAGCCAAT+TGG 0.510396 1.2:+77558246 None:intergenic
GAAGCAACAGAGGCACCAAT+TGG 0.510520 1.2:-77558261 MS.gene91444:CDS
AACCCGGGTCGCCAAGGGGT+TGG 0.516971 1.2:-77557910 MS.gene91444:CDS
AGAGAGAGGATGGGTGAAGA+GGG 0.517214 1.2:+77558407 None:intergenic
GACCAACCCCTTGGCGACCC+GGG 0.524362 1.2:+77557908 None:intergenic
AATGTGGGTGATTGTTTCCA+TGG 0.524862 1.2:+77558354 None:intergenic
CAGAGAGAGGATGGGTGAAG+AGG 0.528826 1.2:+77558406 None:intergenic
GAGCTTGAGAGGGTTTGGAT+TGG 0.531093 1.2:+77558323 None:intergenic
GAGAGGATGGGTGAAGAGGG+AGG 0.532061 1.2:+77558410 None:intergenic
TTCTATAGAGTGTTTCCCAA+TGG 0.534519 1.2:-77557982 MS.gene91444:CDS
GAGAGGGTTTGGATTGGTGA+AGG 0.539245 1.2:+77558329 None:intergenic
CAAGTATTGAACTTCCCCAT+TGG 0.539423 1.2:+77557966 None:intergenic
GAGGGAGGTTTGAGTTGTCA+TGG 0.540329 1.2:+77558425 None:intergenic
TGGATTGGTGAAGGACAATG+TGG 0.545639 1.2:+77558338 None:intergenic
AAGTGAACCCGGGTCGCCAA+GGG 0.549528 1.2:-77557915 MS.gene91444:CDS
GTTTCCATGGTACAGAGATA+CGG 0.551001 1.2:+77558367 None:intergenic
CACATAAAATTCCTCAACTT+GGG 0.551301 1.2:+77558161 None:intergenic
TTGAAATTGTGAGCTTGAGA+GGG 0.558382 1.2:+77558313 None:intergenic
ATTGGGACCTTCCCTCATGA+TGG 0.564788 1.2:+77558083 None:intergenic
GTACCCAGAGAAAGTGAACC+CGG 0.564935 1.2:-77557926 MS.gene91444:CDS
GGAGTGTTTGGGACTAACTC+AGG 0.569094 1.2:+77558228 None:intergenic
TAAAGTTCTGACCAACCCCT+TGG 0.570035 1.2:+77557899 None:intergenic
TTTATGTAAGGCCCAAGTTG+AGG 0.578463 1.2:-77558172 MS.gene91444:CDS
AGTTCAATACTTGCATCCTA+AGG 0.578655 1.2:-77557956 MS.gene91444:CDS
TGTTTGGGACTAACTCAGGT+GGG 0.578995 1.2:+77558232 None:intergenic
GTGTTTGGGACTAACTCAGG+TGG 0.582061 1.2:+77558231 None:intergenic
CCAATCTTCTCAAGTTAGCA+AGG 0.583877 1.2:-77558065 MS.gene91444:CDS
CAATACTTGCATCCTAAGGA+TGG 0.585635 1.2:-77557952 MS.gene91444:CDS
TGGCTCTTGGAACTACGTTG+AGG 0.587212 1.2:-77558029 MS.gene91444:CDS
CTGGTGGTGCAGCCATCATG+AGG 0.591206 1.2:-77558095 MS.gene91444:CDS
TAAGAATGTTAGTCCTGTAG+AGG 0.604608 1.2:-77557866 MS.gene91444:CDS
CTGCCACTGAAAATTGGGGA+GGG 0.607497 1.2:+77558207 None:intergenic
CCTGTAGAGGTTAAGTTCAG+TGG 0.610539 1.2:-77557853 MS.gene91444:CDS
CATAACAGCAGCTGTTGCTG+AGG 0.614265 1.2:-77558283 MS.gene91444:CDS
TTAGGTTTGGGACCAGAGAG+AGG 0.625510 1.2:+77558393 None:intergenic
AGTGCTGCCACTGAAAATTG+GGG 0.629529 1.2:+77558203 None:intergenic
GGTGCAGCCATCATGAGGGA+AGG 0.635464 1.2:-77558090 MS.gene91444:CDS
TTTGGGACCAGAGAGAGGAT+GGG 0.646221 1.2:+77558398 None:intergenic
TGTTGCTGAGGAAGCAACAG+AGG 0.646977 1.2:-77558271 MS.gene91444:CDS
ATGATGGCTGCACCACCAGT+AGG 0.647307 1.2:+77558099 None:intergenic
GTTTGGGACTAACTCAGGTG+GGG 0.653328 1.2:+77558233 None:intergenic
GCTGCCACTGAAAATTGGGG+AGG 0.656201 1.2:+77558206 None:intergenic
CTATAGAGTGTTTCCCAATG+GGG 0.656977 1.2:-77557980 MS.gene91444:CDS
AGTGAACCCGGGTCGCCAAG+GGG 0.658596 1.2:-77557914 MS.gene91444:CDS
ATCTTTGAAATGCCTACTGG+TGG 0.664160 1.2:-77558111 MS.gene91444:CDS
TGGTGGTGCAGCCATCATGA+GGG 0.675901 1.2:-77558094 MS.gene91444:CDS
TACCCAGAGAAAGTGAACCC+GGG 0.686978 1.2:-77557925 MS.gene91444:CDS
ATGACCGTATCTCTGTACCA+TGG 0.695290 1.2:-77558371 MS.gene91444:CDS
GGATTGGTGAAGGACAATGT+GGG 0.717553 1.2:+77558339 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTTCAAAGATTTGTTCTTT+TGG + chr1.2:77558155-77558174 None:intergenic 20.0%
CACATAAAATTCCTCAACTT+GGG + chr1.2:77558117-77558136 None:intergenic 30.0%
TCACATAAAATTCCTCAACT+TGG + chr1.2:77558118-77558137 None:intergenic 30.0%
! AGGAATTTTATGTGATCACA+TGG - chr1.2:77558123-77558142 MS.gene91444:CDS 30.0%
! GGAATTTTATGTGATCACAT+GGG - chr1.2:77558124-77558143 MS.gene91444:CDS 30.0%
AGCAAGGAAAGAACAATGTT+TGG - chr1.2:77558226-77558245 MS.gene91444:CDS 35.0%
AGTTCAATACTTGCATCCTA+AGG - chr1.2:77558319-77558338 MS.gene91444:CDS 35.0%
CTTGCTAACTTGAGAAGATT+GGG + chr1.2:77558212-77558231 None:intergenic 35.0%
TAAGAATGTTAGTCCTGTAG+AGG - chr1.2:77558409-77558428 MS.gene91444:CDS 35.0%
TGGGAAACACTCTATAGAAT+TGG + chr1.2:77558292-77558311 None:intergenic 35.0%
TTGAAATTGTGAGCTTGAGA+GGG + chr1.2:77557965-77557984 None:intergenic 35.0%
! TCTATAGAGTGTTTCCCAAT+GGG - chr1.2:77558294-77558313 MS.gene91444:CDS 35.0%
! TTCTATAGAGTGTTTCCCAA+TGG - chr1.2:77558293-77558312 MS.gene91444:CDS 35.0%
!! AAAGAACAATGTTTGGCTCT+TGG - chr1.2:77558233-77558252 MS.gene91444:CDS 35.0%
!! AAGTATTGAACTTCCCCATT+GGG + chr1.2:77558311-77558330 None:intergenic 35.0%
!! CAAATCTTTGAAATGCCTAC+TGG - chr1.2:77558161-77558180 MS.gene91444:CDS 35.0%
AATGTGGGTGATTGTTTCCA+TGG + chr1.2:77557924-77557943 None:intergenic 40.0%
AGAGATACGGTCATTAGGTT+TGG + chr1.2:77557898-77557917 None:intergenic 40.0%
CAACTTGGGCCTTACATAAA+AGG + chr1.2:77558103-77558122 None:intergenic 40.0%
CAATACTTGCATCCTAAGGA+TGG - chr1.2:77558323-77558342 MS.gene91444:CDS 40.0%
CCAATCTTCTCAAGTTAGCA+AGG - chr1.2:77558210-77558229 MS.gene91444:CDS 40.0%
CCTTGCTAACTTGAGAAGAT+TGG + chr1.2:77558213-77558232 None:intergenic 40.0%
CTTGAAATTGTGAGCTTGAG+AGG + chr1.2:77557966-77557985 None:intergenic 40.0%
GAGATACGGTCATTAGGTTT+GGG + chr1.2:77557897-77557916 None:intergenic 40.0%
GGTCAGAACTTTAGGTCTAT+TGG - chr1.2:77558386-77558405 MS.gene91444:CDS 40.0%
GTTTCCATGGTACAGAGATA+CGG + chr1.2:77557911-77557930 None:intergenic 40.0%
TTTATGTAAGGCCCAAGTTG+AGG - chr1.2:77558103-77558122 MS.gene91444:CDS 40.0%
! CTATAGAGTGTTTCCCAATG+GGG - chr1.2:77558295-77558314 MS.gene91444:CDS 40.0%
!! ATCTTTGAAATGCCTACTGG+TGG - chr1.2:77558164-77558183 MS.gene91444:CDS 40.0%
!! CAAGTATTGAACTTCCCCAT+TGG + chr1.2:77558312-77558331 None:intergenic 40.0%
AGTGCTGCCACTGAAAATTG+GGG + chr1.2:77558075-77558094 None:intergenic 45.0%
ATGACCGTATCTCTGTACCA+TGG - chr1.2:77557904-77557923 MS.gene91444:CDS 45.0%
ATTGTGAGCTTGAGAGGGTT+TGG + chr1.2:77557960-77557979 None:intergenic 45.0%
CAGTGCTGCCACTGAAAATT+GGG + chr1.2:77558076-77558095 None:intergenic 45.0%
CCACTGAACTTAACCTCTAC+AGG + chr1.2:77558425-77558444 None:intergenic 45.0%
CCTGTAGAGGTTAAGTTCAG+TGG - chr1.2:77558422-77558441 MS.gene91444:CDS 45.0%
GGTACAGAGATACGGTCATT+AGG + chr1.2:77557903-77557922 None:intergenic 45.0%
! CACTGGAGGCCTTTTATGTA+AGG - chr1.2:77558091-77558110 MS.gene91444:CDS 45.0%
! GGATTGGTGAAGGACAATGT+GGG + chr1.2:77557939-77557958 None:intergenic 45.0%
! TAAAGTTCTGACCAACCCCT+TGG + chr1.2:77558379-77558398 None:intergenic 45.0%
! TGTTTGGGACTAACTCAGGT+GGG + chr1.2:77558046-77558065 None:intergenic 45.0%
!! AAAATTGGGGAGGGAGTGTT+TGG + chr1.2:77558062-77558081 None:intergenic 45.0%
!! AAATTGGGGAGGGAGTGTTT+GGG + chr1.2:77558061-77558080 None:intergenic 45.0%
!! AAGGGGTTGGTCAGAACTTT+AGG - chr1.2:77558378-77558397 MS.gene91444:CDS 45.0%
!! TGGATTGGTGAAGGACAATG+TGG + chr1.2:77557940-77557959 None:intergenic 45.0%
AGAGAGAGGATGGGTGAAGA+GGG + chr1.2:77557871-77557890 None:intergenic 50.0%
ATTGGGACCTTCCCTCATGA+TGG + chr1.2:77558195-77558214 None:intergenic 50.0%
CATAACAGCAGCTGTTGCTG+AGG - chr1.2:77557992-77558011 MS.gene91444:CDS 50.0%
CCAGTGCTGCCACTGAAAAT+TGG + chr1.2:77558077-77558096 None:intergenic 50.0%
CTGCCACTGAAAATTGGGGA+GGG + chr1.2:77558071-77558090 None:intergenic 50.0%
GAGCTTGAGAGGGTTTGGAT+TGG + chr1.2:77557955-77557974 None:intergenic 50.0%
GTACCCAGAGAAAGTGAACC+CGG - chr1.2:77558349-77558368 MS.gene91444:CDS 50.0%
TACCCAGAGAAAGTGAACCC+GGG - chr1.2:77558350-77558369 MS.gene91444:CDS 50.0%
TCTGGGTACACACCATCCTT+AGG + chr1.2:77558338-77558357 None:intergenic 50.0%
TGGCTCTTGGAACTACGTTG+AGG - chr1.2:77558246-77558265 MS.gene91444:CDS 50.0%
TGTTGCTGAGGAAGCAACAG+AGG - chr1.2:77558004-77558023 MS.gene91444:CDS 50.0%
! ACTCCCTCCCCAATTTTCAG+TGG - chr1.2:77558065-77558084 MS.gene91444:CDS 50.0%
! CCAATTTTCAGTGGCAGCAC+TGG - chr1.2:77558074-77558093 MS.gene91444:CDS 50.0%
! GGAGTGTTTGGGACTAACTC+AGG + chr1.2:77558050-77558069 None:intergenic 50.0%
! GTGTTTGGGACTAACTCAGG+TGG + chr1.2:77558047-77558066 None:intergenic 50.0%
! GTTTGGGACTAACTCAGGTG+GGG + chr1.2:77558045-77558064 None:intergenic 50.0%
! TTAGGTTTGGGACCAGAGAG+AGG + chr1.2:77557885-77557904 None:intergenic 50.0%
! TTTGGGACCAGAGAGAGGAT+GGG + chr1.2:77557880-77557899 None:intergenic 50.0%
!! ATTTTCAGTGGCAGCACTGG+AGG - chr1.2:77558077-77558096 MS.gene91444:CDS 50.0%
!! GAAGCAACAGAGGCACCAAT+TGG - chr1.2:77558014-77558033 MS.gene91444:CDS 50.0%
!! GAGAGGGTTTGGATTGGTGA+AGG + chr1.2:77557949-77557968 None:intergenic 50.0%
!! GAGGGAGGTTTGAGTTGTCA+TGG + chr1.2:77557853-77557872 None:intergenic 50.0%
ATGATGGCTGCACCACCAGT+AGG + chr1.2:77558179-77558198 None:intergenic 55.0%
CAGAGAGAGGATGGGTGAAG+AGG + chr1.2:77557872-77557891 None:intergenic 55.0%
CTCTTCACCCATCCTCTCTC+TGG - chr1.2:77557870-77557889 MS.gene91444:CDS 55.0%
GACCCGGGTTCACTTTCTCT+GGG + chr1.2:77558355-77558374 None:intergenic 55.0%
GCTGCCACTGAAAATTGGGG+AGG + chr1.2:77558072-77558091 None:intergenic 55.0%
TCAGGTGGGGTGAAGCCAAT+TGG + chr1.2:77558032-77558051 None:intergenic 55.0%
! GTTTGGGACCAGAGAGAGGA+TGG + chr1.2:77557881-77557900 None:intergenic 55.0%
! TGGTGGTGCAGCCATCATGA+GGG - chr1.2:77558181-77558200 MS.gene91444:CDS 55.0%
AAAGTGAACCCGGGTCGCCA+AGG - chr1.2:77558359-77558378 MS.gene91444:CDS 60.0%
AAGTGAACCCGGGTCGCCAA+GGG - chr1.2:77558360-77558379 MS.gene91444:CDS 60.0%
CGACCCGGGTTCACTTTCTC+TGG + chr1.2:77558356-77558375 None:intergenic 60.0%
GAGAGGATGGGTGAAGAGGG+AGG + chr1.2:77557868-77557887 None:intergenic 60.0%
GGTGCAGCCATCATGAGGGA+AGG - chr1.2:77558185-77558204 MS.gene91444:CDS 60.0%
! CTGGTGGTGCAGCCATCATG+AGG - chr1.2:77558180-77558199 MS.gene91444:CDS 60.0%
AGTGAACCCGGGTCGCCAAG+GGG - chr1.2:77558361-77558380 MS.gene91444:CDS 65.0%
TGACCAACCCCTTGGCGACC+CGG + chr1.2:77558371-77558390 None:intergenic 65.0%
AACCCGGGTCGCCAAGGGGT+TGG - chr1.2:77558365-77558384 MS.gene91444:CDS 70.0%
GACCAACCCCTTGGCGACCC+GGG + chr1.2:77558370-77558389 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 77557846 77558451 77557846 ID=MS.gene91444
chr1.2 mRNA 77557846 77558451 77557846 ID=MS.gene91444.t1;Parent=MS.gene91444
chr1.2 exon 77557846 77558451 77557846 ID=MS.gene91444.t1.exon1;Parent=MS.gene91444.t1
chr1.2 CDS 77557846 77558451 77557846 ID=cds.MS.gene91444.t1;Parent=MS.gene91444.t1
Gene Sequence

>MS.gene91444

ATGGCCATGACAACTCAAACCTCCCTCTTCACCCATCCTCTCTCTGGTCCCAAACCTAATGACCGTATCTCTGTACCATGGAAACAATCACCCACATTGTCCTTCACCAATCCAAACCCTCTCAAGCTCACAATTTCAAGAAACATCATAACAGCAGCTGTTGCTGAGGAAGCAACAGAGGCACCAATTGGCTTCACCCCACCTGAGTTAGTCCCAAACACTCCCTCCCCAATTTTCAGTGGCAGCACTGGAGGCCTTTTATGTAAGGCCCAAGTTGAGGAATTTTATGTGATCACATGGGATTCACCAAAAGAACAAATCTTTGAAATGCCTACTGGTGGTGCAGCCATCATGAGGGAAGGTCCCAATCTTCTCAAGTTAGCAAGGAAAGAACAATGTTTGGCTCTTGGAACTACGTTGAGGTCAAAGTACAAGATCAAGTACCAATTCTATAGAGTGTTTCCCAATGGGGAAGTTCAATACTTGCATCCTAAGGATGGTGTGTACCCAGAGAAAGTGAACCCGGGTCGCCAAGGGGTTGGTCAGAACTTTAGGTCTATTGGTAAGAATGTTAGTCCTGTAGAGGTTAAGTTCAGTGGCAAGCAA

Protein sequence

>MS.gene91444.t1

MAMTTQTSLFTHPLSGPKPNDRISVPWKQSPTLSFTNPNPLKLTISRNIITAAVAEEATEAPIGFTPPELVPNTPSPIFSGSTGGLLCKAQVEEFYVITWDSPKEQIFEMPTGGAAIMREGPNLLKLARKEQCLALGTTLRSKYKIKYQFYRVFPNGEVQYLHPKDGVYPEKVNPGRQGVGQNFRSIGKNVSPVEVKFSGKQ