AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene51428

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene51428.t1 MTR_2g035220 90.805 87 8 0 1 87 71 157 3.36e-52 160
MS.gene51428.t1 MTR_2g035210 89.655 87 9 0 1 87 71 157 7.63e-52 159
MS.gene51428.t1 MTR_2g035190 87.356 87 11 0 1 87 71 157 8.01e-50 154
MS.gene51428.t1 MTR_2g035320 86.747 83 11 0 5 87 40 122 1.18e-48 150
MS.gene51428.t1 MTR_2g035320 82.759 87 15 0 1 87 71 157 1.59e-48 151
MS.gene51428.t1 MTR_6g033450 67.470 83 27 0 5 87 75 157 3.62e-32 109
MS.gene51428.t1 MTR_4g120970 67.470 83 27 0 5 87 75 157 3.62e-32 109
MS.gene51428.t1 MTR_2g035150 61.446 83 32 0 5 87 75 157 4.72e-30 104
MS.gene51428.t1 MTR_2g035100 59.036 83 34 0 5 87 75 157 5.94e-29 101
MS.gene51428.t1 MTR_2g035105 59.036 83 34 0 5 87 75 157 6.20e-29 101
MS.gene51428.t1 MTR_2g035120 59.036 83 34 0 5 87 75 157 4.14e-28 99.4
MS.gene51428.t1 MTR_2g035130 56.627 83 36 0 5 87 75 157 8.45e-28 98.6
MS.gene51428.t1 MTR_4g120940 65.753 73 25 0 15 87 47 119 2.36e-25 91.3
MS.gene51428.t1 MTR_2g035170 50.575 87 43 0 1 87 71 157 2.14e-24 90.1
MS.gene51428.t1 MTR_4g120950 41.176 85 48 2 5 87 74 158 1.49e-13 62.4
MS.gene51428.t1 MTR_2g435310 34.615 78 51 0 8 85 79 156 4.03e-11 55.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 30 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATACATTTACTTAATAATT+AGG 0.132764 2.2:+53659270 None:intergenic
CTTGATAAGTCCAGTTCCTT+TGG 0.324632 2.2:+53659320 None:intergenic
GGCCATTGAGGGCTACGTTT+TGG 0.338863 2.2:-53659298 MS.gene51428:CDS
ATACATTTACTTAATAATTA+GGG 0.345110 2.2:+53659271 None:intergenic
TACAGCATAGTGGGAGGAAC+AGG 0.371602 2.2:-53659486 MS.gene51428:CDS
AAGTCCAGTTCCTTTGGCTT+TGG 0.382566 2.2:+53659326 None:intergenic
AGATAGAGTTGCATCACCTT+TGG 0.394288 2.2:+53659368 None:intergenic
GCAGTGGAATGAGGCAAACT+TGG 0.418350 2.2:-53659517 MS.gene51428:CDS
GAGACCAAAGCCAAAGGAAC+TGG 0.425614 2.2:-53659330 MS.gene51428:CDS
AGTGTTGTGGCTGGCTCTGA+TGG 0.429803 2.2:-53659426 MS.gene51428:CDS
CAAAGGAACTGGACTTATCA+AGG 0.497615 2.2:-53659319 MS.gene51428:CDS
GGACTTATCAAGGCCATTGA+GGG 0.514208 2.2:-53659309 MS.gene51428:CDS
TGCCAAAACGTAGCCCTCAA+TGG 0.516239 2.2:+53659296 None:intergenic
GAGTTGCATCACCTTTGGTA+TGG 0.537356 2.2:+53659373 None:intergenic
GGGATACAACTACAGCATAG+TGG 0.549531 2.2:-53659496 MS.gene51428:CDS
GTTGTGGCTGGCTCTGATGG+TGG 0.558406 2.2:-53659423 MS.gene51428:CDS
TTTCACTGAAATCTTAACAA+TGG 0.567421 2.2:+53659398 None:intergenic
GGATACAACTACAGCATAGT+GGG 0.569267 2.2:-53659495 MS.gene51428:CDS
TGGACTTATCAAGGCCATTG+AGG 0.572485 2.2:-53659310 MS.gene51428:CDS
AAATTAGAAGCAGTGGAATG+AGG 0.586815 2.2:-53659526 MS.gene51428:intron
TTCGAGACAAGTGTTGTGGC+TGG 0.589865 2.2:-53659435 MS.gene51428:CDS
GCTACACAAATTAGAAGCAG+TGG 0.594145 2.2:-53659533 MS.gene51428:intron
CAGTGGAATGAGGCAAACTT+GGG 0.600389 2.2:-53659516 MS.gene51428:CDS
CATAGTGGGAGGAACAGGGT+TGG 0.609437 2.2:-53659481 MS.gene51428:CDS
TCAGTGAAATACCATACCAA+AGG 0.652605 2.2:-53659384 MS.gene51428:CDS
TGAATTCGAGACAAGTGTTG+TGG 0.660471 2.2:-53659439 MS.gene51428:CDS
CGTGAGGAGACCAAAGCCAA+AGG 0.666854 2.2:-53659336 MS.gene51428:CDS
TCTATCTGAAGCAGTACGTG+AGG 0.676642 2.2:-53659352 MS.gene51428:CDS
ACAGCATAGTGGGAGGAACA+GGG 0.682935 2.2:-53659485 MS.gene51428:CDS
TACAACTACAGCATAGTGGG+AGG 0.704851 2.2:-53659492 MS.gene51428:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTTGTATATAAATTATGA+TGG - chr2.2:53659788-53659807 MS.gene51428:intron 10.0%
!! ATTTGTATATAAATTATGAT+GGG - chr2.2:53659789-53659808 MS.gene51428:intron 10.0%
!! TTAATAACTTAATTGTAAAT+AGG - chr2.2:53659307-53659326 MS.gene51428:CDS 10.0%
!! AAGAAACTATAACATTTAAA+CGG - chr2.2:53659619-53659638 MS.gene51428:intron 15.0%
!! AATTTAACTAAAGATTGTTT+CGG + chr2.2:53659747-53659766 None:intergenic 15.0%
!! CTTATTATCATTTACGAATA+TGG + chr2.2:53659334-53659353 None:intergenic 20.0%
!!! AACGGTTTATTTTTTTTTTC+CGG - chr2.2:53659637-53659656 MS.gene51428:intron 20.0%
! AAAATACCAAAATACCTTCA+CGG - chr2.2:53659448-53659467 MS.gene51428:CDS 25.0%
! TTTCACTGAAATCTTAACAA+TGG + chr2.2:53659979-53659998 None:intergenic 25.0%
!!! AAGGTATTTTGGTATTTTCA+CGG + chr2.2:53659446-53659465 None:intergenic 25.0%
AATCAGCCTAACATAATATG+TGG - chr2.2:53659365-53659384 MS.gene51428:CDS 30.0%
ATCGGAGATTTGAAAGTAAT+TGG + chr2.2:53659722-53659741 None:intergenic 30.0%
TAGAGACGTGTAAATGTTAT+AGG + chr2.2:53659596-53659615 None:intergenic 30.0%
TGTAGACCACATATTATGTT+AGG + chr2.2:53659374-53659393 None:intergenic 30.0%
! TAATTTGTGTAGCACAAAGT+CGG + chr2.2:53659834-53659853 None:intergenic 30.0%
!! AATTATGATGGGTGTATTGT+AGG - chr2.2:53659800-53659819 MS.gene51428:intron 30.0%
AAATTAGAAGCAGTGGAATG+AGG - chr2.2:53659848-53659867 MS.gene51428:intron 35.0%
CTAAAGATTGTTTCGGTCAT+CGG + chr2.2:53659740-53659759 None:intergenic 35.0%
TCAGTGAAATACCATACCAA+AGG - chr2.2:53659990-53660009 MS.gene51428:intron 35.0%
TGTGGTCTACAACTATAACA+TGG - chr2.2:53659383-53659402 MS.gene51428:CDS 35.0%
! TTGGTATTTTCACGGTACAT+TGG + chr2.2:53659438-53659457 None:intergenic 35.0%
!!! TAACTACCGTGAAGGTATTT+TGG + chr2.2:53659457-53659476 None:intergenic 35.0%
ACCAACAATCAACTCTAGTC+CGG + chr2.2:53659659-53659678 None:intergenic 40.0%
AGATAGAGTTGCATCACCTT+TGG + chr2.2:53660009-53660028 None:intergenic 40.0%
AGTGATGGTTAAATGTCGCT+TGG - chr2.2:53659510-53659529 MS.gene51428:CDS 40.0%
CAAAGGAACTGGACTTATCA+AGG - chr2.2:53660055-53660074 MS.gene51428:intron 40.0%
CACGGTACATTGGAGTAAAA+AGG + chr2.2:53659428-53659447 None:intergenic 40.0%
CTTGATAAGTCCAGTTCCTT+TGG + chr2.2:53660057-53660076 None:intergenic 40.0%
GCTACACAAATTAGAAGCAG+TGG - chr2.2:53659841-53659860 MS.gene51428:intron 40.0%
GGATACAACTACAGCATAGT+GGG - chr2.2:53659879-53659898 MS.gene51428:intron 40.0%
TCACTCAGCAAATGTTGTTG+TGG - chr2.2:53659483-53659502 MS.gene51428:CDS 40.0%
! GTGATGGTTAAATGTCGCTT+GGG - chr2.2:53659511-53659530 MS.gene51428:CDS 40.0%
! TGAATTCGAGACAAGTGTTG+TGG - chr2.2:53659935-53659954 MS.gene51428:intron 40.0%
! TGATGGTTAAATGTCGCTTG+GGG - chr2.2:53659512-53659531 MS.gene51428:CDS 40.0%
!! AAATGTCGCTTGGGGTATTT+TGG - chr2.2:53659520-53659539 MS.gene51428:CDS 40.0%
!! TATGATGGGTGTATTGTAGG+TGG - chr2.2:53659803-53659822 MS.gene51428:intron 40.0%
CAGTGGAATGAGGCAAACTT+GGG - chr2.2:53659858-53659877 MS.gene51428:intron 45.0%
GAGTTGCATCACCTTTGGTA+TGG + chr2.2:53660004-53660023 None:intergenic 45.0%
GGACTTATCAAGGCCATTGA+GGG - chr2.2:53660065-53660084 MS.gene51428:intron 45.0%
GGGATACAACTACAGCATAG+TGG - chr2.2:53659878-53659897 MS.gene51428:intron 45.0%
TGGACTTATCAAGGCCATTG+AGG - chr2.2:53660064-53660083 MS.gene51428:intron 45.0%
TGTTGTTGTGGAGTGAGTGA+TGG - chr2.2:53659495-53659514 MS.gene51428:CDS 45.0%
! AAGTCCAGTTCCTTTGGCTT+TGG + chr2.2:53660051-53660070 None:intergenic 45.0%
! TACAACTACAGCATAGTGGG+AGG - chr2.2:53659882-53659901 MS.gene51428:intron 45.0%
! TCCGGACTAGAGTTGATTGT+TGG - chr2.2:53659655-53659674 MS.gene51428:intron 45.0%
! TCTATCTGAAGCAGTACGTG+AGG - chr2.2:53660022-53660041 MS.gene51428:intron 45.0%
!!! TTAAATTTTATTTACATTTA+AGG - chr2.2:53659760-53659779 MS.gene51428:intron 5.0%
GAGACCAAAGCCAAAGGAAC+TGG - chr2.2:53660044-53660063 MS.gene51428:intron 50.0%
GCAGTGGAATGAGGCAAACT+TGG - chr2.2:53659857-53659876 MS.gene51428:intron 50.0%
TGCCAAAACGTAGCCCTCAA+TGG + chr2.2:53660081-53660100 None:intergenic 50.0%
! ACAGCATAGTGGGAGGAACA+GGG - chr2.2:53659889-53659908 MS.gene51428:intron 50.0%
! TACAGCATAGTGGGAGGAAC+AGG - chr2.2:53659888-53659907 MS.gene51428:intron 50.0%
! TTCGAGACAAGTGTTGTGGC+TGG - chr2.2:53659939-53659958 MS.gene51428:intron 50.0%
CGTGAGGAGACCAAAGCCAA+AGG - chr2.2:53660038-53660057 MS.gene51428:intron 55.0%
GACAGCGCTAACTACCGTGA+AGG + chr2.2:53659465-53659484 None:intergenic 55.0%
! CATAGTGGGAGGAACAGGGT+TGG - chr2.2:53659893-53659912 MS.gene51428:intron 55.0%
! GGCCATTGAGGGCTACGTTT+TGG - chr2.2:53660076-53660095 MS.gene51428:intron 55.0%
!! AGTGTTGTGGCTGGCTCTGA+TGG - chr2.2:53659948-53659967 MS.gene51428:intron 55.0%
!! GTTGTGGCTGGCTCTGATGG+TGG - chr2.2:53659951-53659970 MS.gene51428:intron 60.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 53659281 53660115 53659281 ID=MS.gene51428
chr2.2 mRNA 53659281 53660115 53659281 ID=MS.gene51428.t1;Parent=MS.gene51428
chr2.2 exon 53660113 53660115 53660113 ID=MS.gene51428.t1.exon1;Parent=MS.gene51428.t1
chr2.2 CDS 53660113 53660115 53660113 ID=cds.MS.gene51428.t1;Parent=MS.gene51428.t1
chr2.2 exon 53659281 53659541 53659281 ID=MS.gene51428.t1.exon2;Parent=MS.gene51428.t1
chr2.2 CDS 53659281 53659541 53659281 ID=cds.MS.gene51428.t1;Parent=MS.gene51428.t1
Gene Sequence

>MS.gene51428

ATGGTAAATAGGTCATTTTCAAAAAATTAATAACTTAATTGTAAATAGGTCCATATTCGTAAATGATAATAAGATCAACTTTATAATCAGCCTAACATAATATGTGGTCTACAACTATAACATGGAAATTGCTCTTCTCGCTTTCCTTTTTACTCCAATGTACCGTGAAAATACCAAAATACCTTCACGGTAGTTAGCGCTGTCACTCAGCAAATGTTGTTGTGGAGTGAGTGATGGTTAAATGTCGCTTGGGGTATTTTGGTATTTTTGCAGTGTTTGAAAAGAAAAAATGAAAGTGAGAAAAATTGCTTTCCTATAACATTTACACGTCTCTAAAAAAGAAACTATAACATTTAAACGGTTTATTTTTTTTTTCCGGACTAGAGTTGATTGTTGGTATAGTTAAATCAGATTCAGCAATCAAGTGATTAATGATATCCAATTACTTTCAAATCTCCGATGACCGAAACAATCTTTAGTTAAATTTTATTTACATTTAAGGAACAAAATTTGTATATAAATTATGATGGGTGTATTGTAGGTGGCAAAACCGACTTTGTGCTACACAAATTAGAAGCAGTGGAATGAGGCAAACTTGGGATACAACTACAGCATAGTGGGAGGAACAGGGTTGGATGAAAGTTTAGAGAAAGTTGAATTCGAGACAAGTGTTGTGGCTGGCTCTGATGGTGGATCCATTGTTAAGATTTCAGTGAAATACCATACCAAAGGTGATGCAACTCTATCTGAAGCAGTACGTGAGGAGACCAAAGCCAAAGGAACTGGACTTATCAAGGCCATTGAGGGCTACGTTTTGGCAAACCCTAATTATTAA
Protein sequence

>MS.gene51428.t1

MKQWNEANLGYNYSIVGGTGLDESLEKVEFETSVVAGSDGGSIVKISVKYHTKGDATLSEAVREETKAKGTGLIKAIEGYVLANPNY