AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene57247

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene57247.t1 MTR_1g016170 70.000 50 12 1 26 72 185 234 1.10e-19 80.9
MS.gene57247.t1 MTR_7g112330 42.857 63 36 0 24 86 18 80 1.53e-15 66.6
MS.gene57247.t1 MTR_1g016200 52.459 61 26 1 12 72 47 104 1.20e-14 63.9
MS.gene57247.t1 MTR_4g126350 78.788 33 7 0 25 57 183 215 2.82e-14 66.2
MS.gene57247.t1 MTR_4g121110 54.717 53 19 2 28 80 30 77 5.68e-14 63.2
MS.gene57247.t1 MTR_2g038720 78.125 32 7 0 26 57 162 193 6.82e-14 65.1
MS.gene57247.t1 MTR_5g020230 65.714 35 12 0 28 62 122 156 4.27e-12 59.7
MS.gene57247.t1 MTR_8g077510 62.857 35 13 0 28 62 125 159 1.63e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene57247.t1 AT3G16870 53.226 62 28 1 26 87 40 100 4.65e-16 69.7
MS.gene57247.t1 AT5G56860 55.738 61 24 1 4 61 203 263 4.85e-16 71.6
MS.gene57247.t1 AT5G26930 43.836 73 32 1 26 89 24 96 7.20e-15 64.7
MS.gene57247.t1 AT5G49300 51.852 54 21 1 14 62 17 70 1.34e-14 64.7
MS.gene57247.t1 AT4G26150 73.529 34 9 0 26 59 197 230 1.71e-14 67.0
MS.gene57247.t1 AT4G16141 62.222 45 16 1 26 70 35 78 1.44e-13 63.2
MS.gene57247.t1 AT2G18380 48.276 58 25 1 9 66 78 130 1.61e-13 63.2
MS.gene57247.t1 AT4G36620 50.000 50 25 0 28 77 75 124 6.21e-13 61.6
MS.gene57247.t1 AT3G06740 66.667 33 11 0 30 62 43 75 3.10e-12 58.9
MS.gene57247.t1 AT3G50870 65.714 35 12 0 28 62 152 186 5.46e-12 60.1

Find 23 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATTCCTCCAAAGGGGAGTC+TGG 0.241417 1.4:-6148438 None:intergenic
TGCAAAAGCTGCTAAAGGTT+TGG 0.372433 1.4:+6149400 MS.gene57247:CDS
GTGTTAAATGCTCTAGCCTT+TGG 0.380174 1.4:-6148367 None:intergenic
CCTTTGGAGGAATGGACCTA+TGG 0.408130 1.4:+6148447 MS.gene57247:CDS
CAGACTCCCCTTTGGAGGAA+TGG 0.484698 1.4:+6148439 MS.gene57247:CDS
AAACAACCCAGACTCCCCTT+TGG 0.489759 1.4:+6148431 MS.gene57247:CDS
TGCTCTAGCCTTTGGATATG+TGG 0.489809 1.4:-6148359 None:intergenic
CAACCCAGACTCCCCTTTGG+AGG 0.510000 1.4:+6148434 MS.gene57247:CDS
ATTCCTCCAAAGGGGAGTCT+GGG 0.513653 1.4:-6148437 None:intergenic
AAAGTTGCAAAAGCTGCTAA+AGG 0.521958 1.4:+6149395 MS.gene57247:CDS
CTTTGGAGGAATGGACCTAT+GGG 0.526288 1.4:+6148448 MS.gene57247:CDS
CATAGGTCCATTCCTCCAAA+GGG 0.526859 1.4:-6148446 None:intergenic
ACTCTAGTAGTTGTAGCAGC+TGG 0.535951 1.4:-6148394 None:intergenic
GAATGGACCTATGGGTCCTA+AGG 0.540865 1.4:+6148456 MS.gene57247:CDS
AGTAGTTGTAGCAGCTGGAA+TGG 0.562471 1.4:-6148389 None:intergenic
CCATAGGTCCATTCCTCCAA+AGG 0.569794 1.4:-6148447 None:intergenic
CTAATTACCTTAGGACCCAT+AGG 0.580046 1.4:-6148463 None:intergenic
CGATGAAAGCTCATCATCTG+AGG 0.597007 1.4:+6149445 MS.gene57247:CDS
CATGTGGCCTAAAACAGAGA+AGG 0.633100 1.4:+6149372 MS.gene57247:CDS
CAGTCGTTGTGCAACGCATG+TGG 0.634101 1.4:+6149356 MS.gene57247:intron
TGCTACCACCACATATCCAA+AGG 0.634178 1.4:+6148351 MS.gene57247:CDS
TCTAGCCTTTGGATATGTGG+TGG 0.675688 1.4:-6148356 None:intergenic
ATAGGTCCATTCCTCCAAAG+GGG 0.737737 1.4:-6148445 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAATTTGAATATATATCT+AGG + chr1.4:6148847-6148866 MS.gene57247:intron 10.0%
!!! AAAAATATAATTGATTTGTA+AGG - chr1.4:6149107-6149126 None:intergenic 10.0%
!!! TACTTTTAATATTATCTTAA+GGG + chr1.4:6149208-6149227 MS.gene57247:intron 10.0%
!!! TTACTTTTAATATTATCTTA+AGG + chr1.4:6149207-6149226 MS.gene57247:intron 10.0%
!!! TTTGAATATTTTTTTTTTGA+AGG + chr1.4:6148822-6148841 MS.gene57247:intron 10.0%
!! ATATTTATTGATCCAAAATA+TGG - chr1.4:6149184-6149203 None:intergenic 15.0%
!! TATTATCTTAAGGGTTAAAT+TGG + chr1.4:6149217-6149236 MS.gene57247:intron 20.0%
!! TATTGTTTCATTTACTTTCA+TGG + chr1.4:6148705-6148724 MS.gene57247:intron 20.0%
! ATAGTTAACATGAAACATGT+TGG + chr1.4:6149331-6149350 MS.gene57247:intron 25.0%
! TTGGACACTAAAAAAGAAAA+GGG + chr1.4:6149419-6149438 MS.gene57247:CDS 25.0%
! TTTGGACACTAAAAAAGAAA+AGG + chr1.4:6149418-6149437 MS.gene57247:CDS 25.0%
!! ACAAGATTTTCTCATAAGTT+GGG - chr1.4:6148504-6148523 None:intergenic 25.0%
ACTTATGAGAAAATCTTGTG+TGG + chr1.4:6148505-6148524 MS.gene57247:intron 30.0%
AGAGACTAACTAATTACCTT+AGG - chr1.4:6148475-6148494 None:intergenic 30.0%
CAAATACAGAGGTAAAATAG+AGG - chr1.4:6149134-6149153 None:intergenic 30.0%
TTACTTTCATGGTACACTTT+AGG + chr1.4:6148716-6148735 MS.gene57247:intron 30.0%
! CAAGATTTTCTCATAAGTTG+GGG - chr1.4:6148503-6148522 None:intergenic 30.0%
! CACAAGATTTTCTCATAAGT+TGG - chr1.4:6148505-6148524 None:intergenic 30.0%
!!! ATATGTTGGTAGCCATATTT+TGG + chr1.4:6149169-6149188 MS.gene57247:intron 30.0%
AAAACCAAAATTCTTGGTCC+TGG + chr1.4:6148657-6148676 MS.gene57247:intron 35.0%
AAAGTTGCAAAAGCTGCTAA+AGG + chr1.4:6149395-6149414 MS.gene57247:CDS 35.0%
GTGACCAAAACCAAAATTCT+TGG + chr1.4:6148651-6148670 MS.gene57247:intron 35.0%
TGAAATGAGAAACACTTGTG+TGG - chr1.4:6148684-6148703 None:intergenic 35.0%
! CAACTTTCCTTCTCTGTTTT+AGG - chr1.4:6149382-6149401 None:intergenic 35.0%
!!! AGGACCAAGAATTTTGGTTT+TGG - chr1.4:6148658-6148677 None:intergenic 35.0%
ACTCTTGTCGAGCTATATGT+TGG + chr1.4:6149155-6149174 MS.gene57247:intron 40.0%
CTAATTACCTTAGGACCCAT+AGG - chr1.4:6148466-6148485 None:intergenic 40.0%
TGCAAAAGCTGCTAAAGGTT+TGG + chr1.4:6149400-6149419 MS.gene57247:CDS 40.0%
! GTGTTAAATGCTCTAGCCTT+TGG - chr1.4:6148370-6148389 None:intergenic 40.0%
ACTCTAGTAGTTGTAGCAGC+TGG - chr1.4:6148397-6148416 None:intergenic 45.0%
AGTAGTTGTAGCAGCTGGAA+TGG - chr1.4:6148392-6148411 None:intergenic 45.0%
ATAGGTCCATTCCTCCAAAG+GGG - chr1.4:6148448-6148467 None:intergenic 45.0%
CATAGGTCCATTCCTCCAAA+GGG - chr1.4:6148449-6148468 None:intergenic 45.0%
CATGTGGCCTAAAACAGAGA+AGG + chr1.4:6149372-6149391 MS.gene57247:CDS 45.0%
CGATGAAAGCTCATCATCTG+AGG + chr1.4:6149445-6149464 MS.gene57247:CDS 45.0%
GAGAAAATCTTGTGTGGTCC+TGG + chr1.4:6148511-6148530 MS.gene57247:intron 45.0%
GAGAAGAGAAGAGAGAGAGA+AGG + chr1.4:6148613-6148632 MS.gene57247:intron 45.0%
TGCTACCACCACATATCCAA+AGG + chr1.4:6148351-6148370 MS.gene57247:CDS 45.0%
! CGACAAGAGTGCAAATACAG+AGG - chr1.4:6149145-6149164 None:intergenic 45.0%
! CTTTGGAGGAATGGACCTAT+GGG + chr1.4:6148448-6148467 MS.gene57247:CDS 45.0%
! TCTAGCCTTTGGATATGTGG+TGG - chr1.4:6148359-6148378 None:intergenic 45.0%
! TGCTCTAGCCTTTGGATATG+TGG - chr1.4:6148362-6148381 None:intergenic 45.0%
! TGGACCAGGACCAAGAATTT+TGG - chr1.4:6148664-6148683 None:intergenic 45.0%
!!! AAAAAAGTTTTAAATATTTA+TGG + chr1.4:6148925-6148944 MS.gene57247:intron 5.0%
AAACAACCCAGACTCCCCTT+TGG + chr1.4:6148431-6148450 MS.gene57247:CDS 50.0%
AAAGACCACTTGTGTGGACC+AGG - chr1.4:6148532-6148551 None:intergenic 50.0%
ATTCCTCCAAAGGGGAGTCT+GGG - chr1.4:6148440-6148459 None:intergenic 50.0%
CCATAGGTCCATTCCTCCAA+AGG - chr1.4:6148450-6148469 None:intergenic 50.0%
GAATGGACCTATGGGTCCTA+AGG + chr1.4:6148456-6148475 MS.gene57247:CDS 50.0%
GAGAAACACTTGTGTGGACC+AGG - chr1.4:6148678-6148697 None:intergenic 50.0%
GTGACCAAAGACCACTTGTG+TGG - chr1.4:6148538-6148557 None:intergenic 50.0%
TGGTCCACACAAGTGGTCTT+TGG + chr1.4:6148531-6148550 MS.gene57247:intron 50.0%
! CCTTTGGAGGAATGGACCTA+TGG + chr1.4:6148447-6148466 MS.gene57247:CDS 50.0%
CAGTCGTTGTGCAACGCATG+TGG + chr1.4:6149356-6149375 MS.gene57247:intron 55.0%
CATTCCTCCAAAGGGGAGTC+TGG - chr1.4:6148441-6148460 None:intergenic 55.0%
! CAGACTCCCCTTTGGAGGAA+TGG + chr1.4:6148439-6148458 MS.gene57247:CDS 55.0%
CAACCCAGACTCCCCTTTGG+AGG + chr1.4:6148434-6148453 MS.gene57247:CDS 60.0%
GTGGTCCTGGTCCACACAAG+TGG + chr1.4:6148524-6148543 MS.gene57247:intron 60.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 6148331 6149484 6148331 ID=MS.gene57247
chr1.4 mRNA 6148331 6149484 6148331 ID=MS.gene57247.t1;Parent=MS.gene57247
chr1.4 exon 6148331 6148477 6148331 ID=MS.gene57247.t1.exon1;Parent=MS.gene57247.t1
chr1.4 CDS 6148331 6148477 6148331 ID=cds.MS.gene57247.t1;Parent=MS.gene57247.t1
chr1.4 exon 6149359 6149484 6149359 ID=MS.gene57247.t1.exon2;Parent=MS.gene57247.t1
chr1.4 CDS 6149359 6149484 6149359 ID=cds.MS.gene57247.t1;Parent=MS.gene57247.t1
Gene Sequence

>MS.gene57247

ATGAGAATGAAGAAAACAACTGCTACCACCACATATCCAAAGGCTAGAGCATTTAACACCATTCCAGCTGCTACAACTACTAGAGTTTGTTCAGATTGTCAAACAACCCAGACTCCCCTTTGGAGGAATGGACCTATGGGTCCTAAGGTAATTAGTTAGTCTCTCTACTCCCCAACTTATGAGAAAATCTTGTGTGGTCCTGGTCCACACAAGTGGTCTTTGGTCACACAAAGAGAAAAAAGAGAAGAGAGAGAAGAGAGAAGAGAGAGAAAATGAAGAAGAGAGAAGAGAAGAGAGAGAGAAGGAAAAAACTTGTGTGTGTGACCAAAACCAAAATTCTTGGTCCTGGTCCACACAAGTGTTTCTCATTTCACTATTGTTTCATTTACTTTCATGGTACACTTTAGGTTTTAATGTCATGATCAATTTAAATTCAACAATTTCATTTCAATTCTTGCAAGTGTTATTTCAACTTATGTATTGATAAATAATTTGAATATTTTTTTTTTGAAGGAAAATAATTTGAATATATATCTAGGTTTTAATGTCATGATCAACTTAAATTCAACAATTTCATTTCGATTCGTGCATTATAAAAAAGTTTTAAATATTTATGGTTTATATATAAGATTTTTTTATCGAAGAAAATAAAAAATTCTCACACAAACACACACTTGTCTTCAATAAATTTCGTTTATAAAAAAGATATAGTAAAAAGTTGAACAAGTGATAAAATAACATGACATTCATCATGAATGTTAGAAACATCAAAACCTTACAAATCAATTATATTTTTTCTGCCTCTATTTTACCTCTGTATTTGCACTCTTGTCGAGCTATATGTTGGTAGCCATATTTTGGATCAATAAATATTTATTACTTTTAATATTATCTTAAGGGTTAAATTGGTTTAATACTTCAATAGATCACACTATAGACTCATGCAAGTGTTATTTCATACTTATACATTGATAAATAATTTGAATATCTAGTTATGTATATAGTTAACATGAAACATGTTGGTGCAGTCGTTGTGCAACGCATGTGGCCTAAAACAGAGAAGGAAAGTTGCAAAAGCTGCTAAAGGTTTGGACACTAAAAAAGAAAAGGGCAACGATGAAAGCTCATCATCTGAGGATGTGAAGAAGCTTTAA
Protein sequence

>MS.gene57247.t1

MRMKKTTATTTYPKARAFNTIPAATTTRVCSDCQTTQTPLWRNGPMGPKSLCNACGLKQRRKVAKAAKGLDTKKEKGNDESSSSEDVKKL