AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene74955

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene74955.t1 MTR_1g112340 100.000 108 0 0 1 108 1 108 3.45e-79 228
MS.gene74955.t1 MTR_2g025480 36.634 101 64 0 4 104 6 106 1.26e-18 74.7
MS.gene74955.t1 MTR_2g025470 35.227 88 57 0 2 89 4 91 2.14e-15 66.6
MS.gene74955.t1 MTR_2g025470 35.227 88 57 0 2 89 4 91 2.61e-15 65.9
MS.gene74955.t1 MTR_7g031440 49.231 65 31 2 44 106 13 77 1.22e-13 62.4
MS.gene74955.t1 MTR_2g025470 35.211 71 46 0 2 72 4 74 5.37e-12 57.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene74955.t1 AT5G20090 82.857 105 18 0 4 108 6 110 2.63e-66 195
MS.gene74955.t1 AT5G20090 82.857 105 18 0 4 108 6 110 2.63e-66 195
MS.gene74955.t1 AT5G20090 82.857 105 18 0 4 108 6 110 2.63e-66 195
MS.gene74955.t1 AT5G20090 85.870 92 13 0 4 95 6 97 7.79e-60 178
MS.gene74955.t1 AT4G14695 36.190 105 63 2 4 108 6 106 5.92e-17 70.5
MS.gene74955.t1 AT4G14695 36.190 105 63 2 4 108 6 106 5.92e-17 70.5
MS.gene74955.t1 AT4G22310 34.884 86 56 0 4 89 6 91 3.69e-16 68.6
MS.gene74955.t1 AT4G05590 34.091 88 58 0 2 89 4 91 9.46e-16 67.4
MS.gene74955.t1 AT4G05590 36.364 66 42 0 2 67 4 69 1.04e-11 56.2
MS.gene74955.t1 AT4G05590 51.163 43 21 0 2 44 4 46 3.11e-11 56.6

Find 23 sgRNAs with CRISPR-Local

Find 82 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGCTGCCTTCAAAGCATTT+TGG 0.198269 1.3:+76210174 MS.gene74955:CDS
TTTGGGGACCTGTTGCTAAC+TGG 0.209422 1.3:+76210228 MS.gene74955:CDS
GTCCTAAAACAACTCACTTT+TGG 0.228614 1.3:+76210210 MS.gene74955:CDS
CCCTTCTGCCCTTGCCCATC+TGG 0.254260 1.3:-76210669 None:intergenic
ATGTTGCCAGAGATCATTTC+TGG 0.312321 1.3:-76210434 None:intergenic
TTGGGGACCTGTTGCTAACT+GGG 0.366196 1.3:+76210229 MS.gene74955:CDS
ACTATTCCAAAATGCTTTGA+AGG 0.425288 1.3:-76210180 None:intergenic
ACAAATCCCCAGTTAGCAAC+AGG 0.476332 1.3:-76210236 None:intergenic
ACCAGATGGGCAAGGGCAGA+AGG 0.477199 1.3:+76210668 MS.gene74955:CDS
AAACCTCCAGAAATGATCTC+TGG 0.493647 1.3:+76210428 MS.gene74955:CDS
TAGGTATCTCTCGGGGAAGA+AGG 0.506852 1.3:+76211217 MS.gene74955:intron
ATGATCTCTGGCAACATGAC+AGG 0.524581 1.3:+76210440 MS.gene74955:CDS
CATTGTTCATGAGATTTGCA+TGG 0.542535 1.3:+76210573 MS.gene74955:CDS
AGCTCTATCAACATACCAGA+TGG 0.550987 1.3:+76210654 MS.gene74955:CDS
GTTCATGAGATTTGCATGGA+TGG 0.554530 1.3:+76210577 MS.gene74955:CDS
TGGGGACCTGTTGCTAACTG+GGG 0.569942 1.3:+76210230 MS.gene74955:CDS
CCAGATGGGCAAGGGCAGAA+GGG 0.596928 1.3:+76210669 MS.gene74955:CDS
TCAACATACCAGATGGGCAA+GGG 0.612119 1.3:+76210661 MS.gene74955:CDS
ATCAACATACCAGATGGGCA+AGG 0.629052 1.3:+76210660 MS.gene74955:CDS
TTGCCAGAGATCATTTCTGG+AGG 0.633949 1.3:-76210431 None:intergenic
ATCTCTGGCAACATGACAGG+AGG 0.639198 1.3:+76210443 MS.gene74955:CDS
GCTCTATCAACATACCAGAT+GGG 0.640411 1.3:+76210655 MS.gene74955:CDS
GCAAGAAGTAGATAGTTACG+TGG 0.764982 1.3:-76210605 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TATTTTATTTTATATGGAAA+GGG + chr1.3:76210389-76210408 MS.gene74955:intron 10.0%
!!! TTATTTTATTTTATATGGAA+AGG + chr1.3:76210388-76210407 MS.gene74955:intron 10.0%
!! AATAATAAATAGAAGATCAT+AGG - chr1.3:76210280-76210299 None:intergenic 15.0%
!! ACTTTATTAGTGTTAAAAAA+TGG + chr1.3:76210330-76210349 MS.gene74955:intron 15.0%
!! ATAATAAATAGAAGATCATA+GGG - chr1.3:76210279-76210298 None:intergenic 15.0%
!!! ATTTTATTTTATATGGAAAG+GGG + chr1.3:76210390-76210409 MS.gene74955:intron 15.0%
!!! AGTATTTTATTTTGACTGAA+TGG + chr1.3:76211141-76211160 MS.gene74955:intron 20.0%
! ATATGTCGGATTACTAATAA+AGG + chr1.3:76211170-76211189 MS.gene74955:intron 25.0%
!! ACAATGCATTGATATATGTA+GGG - chr1.3:76211087-76211106 None:intergenic 25.0%
!! ATCTTTGCAATTTCTTTTGT+AGG + chr1.3:76211198-76211217 MS.gene74955:intron 25.0%
!! GCATATTAGTTTAAAACCAA+AGG - chr1.3:76210362-76210381 None:intergenic 25.0%
!! TAAAAAATGGTCTTAACCTT+TGG + chr1.3:76210343-76210362 MS.gene74955:intron 25.0%
ACTATTCCAAAATGCTTTGA+AGG - chr1.3:76210183-76210202 None:intergenic 30.0%
TGAAAAGTTGACATTCTTCT+TGG + chr1.3:76210485-76210504 MS.gene74955:intron 30.0%
TTGTACATATATCGTTGTCA+TGG + chr1.3:76210946-76210965 MS.gene74955:intron 30.0%
! AATGCATTGATATATGTAGG+GGG - chr1.3:76211085-76211104 None:intergenic 30.0%
! CAATGCATTGATATATGTAG+GGG - chr1.3:76211086-76211105 None:intergenic 30.0%
! GACAATGCATTGATATATGT+AGG - chr1.3:76211088-76211107 None:intergenic 30.0%
! TTTCTTTTGTAGGTATCTCT+CGG + chr1.3:76211208-76211227 MS.gene74955:intron 30.0%
!! TCCTAAAACAACTCACTTTT+GGG + chr1.3:76210211-76210230 MS.gene74955:CDS 30.0%
!!! ACCTTTTAAGGTGAATAAGT+AGG + chr1.3:76211042-76211061 MS.gene74955:intron 30.0%
!!! CCTTTTAAGGTGAATAAGTA+GGG + chr1.3:76211043-76211062 MS.gene74955:intron 30.0%
AAAGTAGCAGCAAATAGAAC+AGG - chr1.3:76210735-76210754 None:intergenic 35.0%
CATTGTTCATGAGATTTGCA+TGG + chr1.3:76210573-76210592 MS.gene74955:CDS 35.0%
CCCTACTTATTCACCTTAAA+AGG - chr1.3:76211046-76211065 None:intergenic 35.0%
TACATATATCGTTGTCATGG+TGG + chr1.3:76210949-76210968 MS.gene74955:intron 35.0%
! ATGCATTGATATATGTAGGG+GGG - chr1.3:76211084-76211103 None:intergenic 35.0%
! GTCCTAAAACAACTCACTTT+TGG + chr1.3:76210210-76210229 MS.gene74955:CDS 35.0%
! TATTTTATATGGAAAGGGGC+TGG + chr1.3:76210394-76210413 MS.gene74955:intron 35.0%
! TCAACTTTTCATGAAAGCAG+AGG - chr1.3:76210476-76210495 None:intergenic 35.0%
! TGGCTAGAATTCACCTTTTA+AGG + chr1.3:76211030-76211049 MS.gene74955:intron 35.0%
! TTCTTTTGTAGGTATCTCTC+GGG + chr1.3:76211209-76211228 MS.gene74955:intron 35.0%
!! CCTAAAACAACTCACTTTTG+GGG + chr1.3:76210212-76210231 MS.gene74955:CDS 35.0%
!! CTGAATGGTGCTATATATGT+CGG + chr1.3:76211156-76211175 MS.gene74955:intron 35.0%
!!! TTTTTTGTCAAGTAGCCTAG+TGG + chr1.3:76211010-76211029 MS.gene74955:intron 35.0%
AAACCTCCAGAAATGATCTC+TGG + chr1.3:76210428-76210447 MS.gene74955:CDS 40.0%
AAAGGTGAATTCTAGCCACT+AGG - chr1.3:76211028-76211047 None:intergenic 40.0%
AGCTCTATCAACATACCAGA+TGG + chr1.3:76210654-76210673 MS.gene74955:CDS 40.0%
ATGTTGCCAGAGATCATTTC+TGG - chr1.3:76210437-76210456 None:intergenic 40.0%
GCAAGAAGTAGATAGTTACG+TGG - chr1.3:76210608-76210627 None:intergenic 40.0%
GCTCTATCAACATACCAGAT+GGG + chr1.3:76210655-76210674 MS.gene74955:CDS 40.0%
GTTCATGAGATTTGCATGGA+TGG + chr1.3:76210577-76210596 MS.gene74955:CDS 40.0%
TTGACATTCTTCTTGGCGTA+TGG + chr1.3:76210492-76210511 MS.gene74955:intron 40.0%
! AGGTGAATAAGTAGGGTGTT+CGG + chr1.3:76211050-76211069 MS.gene74955:intron 40.0%
! TCTTTTGTAGGTATCTCTCG+GGG + chr1.3:76211210-76211229 MS.gene74955:intron 40.0%
!! CCCCAAAAGTGAGTTGTTTT+AGG - chr1.3:76210215-76210234 None:intergenic 40.0%
!!! GCATTTTGGAATAGTCCAGT+TGG + chr1.3:76210188-76210207 MS.gene74955:CDS 40.0%
!!! TGAGTTGTTTTAGGACCAAC+TGG - chr1.3:76210206-76210225 None:intergenic 40.0%
ACAAATCCCCAGTTAGCAAC+AGG - chr1.3:76210239-76210258 None:intergenic 45.0%
ATCAACATACCAGATGGGCA+AGG + chr1.3:76210660-76210679 MS.gene74955:CDS 45.0%
ATGATCTCTGGCAACATGAC+AGG + chr1.3:76210440-76210459 MS.gene74955:CDS 45.0%
CACTAGTACTCTCTCTGTTC+TGG + chr1.3:76210846-76210865 MS.gene74955:intron 45.0%
TCAACATACCAGATGGGCAA+GGG + chr1.3:76210661-76210680 MS.gene74955:CDS 45.0%
TGAGCATAACTCAGTTGGCA+GGG - chr1.3:76211110-76211129 None:intergenic 45.0%
TGCCAACTGAGTTATGCTCA+CGG + chr1.3:76211110-76211129 MS.gene74955:intron 45.0%
! GGTGAATAAGTAGGGTGTTC+GGG + chr1.3:76211051-76211070 MS.gene74955:intron 45.0%
! GTGAATAAGTAGGGTGTTCG+GGG + chr1.3:76211052-76211071 MS.gene74955:intron 45.0%
! TACTCTCTCTGTTCTGGATC+TGG + chr1.3:76210852-76210871 MS.gene74955:intron 45.0%
! TTGCCAGAGATCATTTCTGG+AGG - chr1.3:76210434-76210453 None:intergenic 45.0%
!! AACAGAGAGAGTACTAGTGG+TGG - chr1.3:76210845-76210864 None:intergenic 45.0%
!! CAGAACAGAGAGAGTACTAG+TGG - chr1.3:76210848-76210867 None:intergenic 45.0%
!! TGGCTGCCTTCAAAGCATTT+TGG + chr1.3:76210174-76210193 MS.gene74955:CDS 45.0%
!! ATATAAAATAAAATAAAAGT+TGG - chr1.3:76210384-76210403 None:intergenic 5.0%
!!! AACTTTTATTTTATTTTATA+TGG + chr1.3:76210383-76210402 MS.gene74955:intron 5.0%
ATCTCTGGCAACATGACAGG+AGG + chr1.3:76210443-76210462 MS.gene74955:CDS 50.0%
CCAACTGAGTTATGCTCACG+GGG + chr1.3:76211112-76211131 MS.gene74955:intron 50.0%
GCCAACTGAGTTATGCTCAC+GGG + chr1.3:76211111-76211130 MS.gene74955:intron 50.0%
GTGAGCATAACTCAGTTGGC+AGG - chr1.3:76211111-76211130 None:intergenic 50.0%
TAGGTATCTCTCGGGGAAGA+AGG + chr1.3:76211217-76211236 MS.gene74955:intron 50.0%
TCTTCTTGGCGTATGGTCTG+TGG + chr1.3:76210499-76210518 MS.gene74955:intron 50.0%
TGGCAACATGACAGGAGGTT+TGG + chr1.3:76210448-76210467 MS.gene74955:intron 50.0%
TTGGGGACCTGTTGCTAACT+GGG + chr1.3:76210229-76210248 MS.gene74955:CDS 50.0%
TTTGGGGACCTGTTGCTAAC+TGG + chr1.3:76210228-76210247 MS.gene74955:CDS 50.0%
! CTCTGTTCTGGATCTGGTGT+TGG + chr1.3:76210858-76210877 MS.gene74955:intron 50.0%
!! TCTGGATCTGGTGTTGGTGT+GGG + chr1.3:76210864-76210883 MS.gene74955:intron 50.0%
!! TTCTGGATCTGGTGTTGGTG+TGG + chr1.3:76210863-76210882 MS.gene74955:intron 50.0%
CCCCGTGAGCATAACTCAGT+TGG - chr1.3:76211115-76211134 None:intergenic 55.0%
TGGGGACCTGTTGCTAACTG+GGG + chr1.3:76210230-76210249 MS.gene74955:CDS 55.0%
ACCAGATGGGCAAGGGCAGA+AGG + chr1.3:76210668-76210687 MS.gene74955:CDS 60.0%
CCAGATGGGCAAGGGCAGAA+GGG + chr1.3:76210669-76210688 MS.gene74955:CDS 60.0%
GGCAAGGGCAGAAGGGTAAG+TGG + chr1.3:76210676-76210695 MS.gene74955:intron 60.0%
CCCTTCTGCCCTTGCCCATC+TGG - chr1.3:76210672-76210691 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 76210173 76211262 76210173 ID=MS.gene74955
chr1.3 mRNA 76210173 76211262 76210173 ID=MS.gene74955.t1;Parent=MS.gene74955
chr1.3 exon 76210173 76210265 76210173 ID=MS.gene74955.t1.exon1;Parent=MS.gene74955.t1
chr1.3 CDS 76210173 76210265 76210173 ID=cds.MS.gene74955.t1;Parent=MS.gene74955.t1
chr1.3 exon 76210410 76210464 76210410 ID=MS.gene74955.t1.exon2;Parent=MS.gene74955.t1
chr1.3 CDS 76210410 76210464 76210410 ID=cds.MS.gene74955.t1;Parent=MS.gene74955.t1
chr1.3 exon 76210555 76210690 76210555 ID=MS.gene74955.t1.exon3;Parent=MS.gene74955.t1
chr1.3 CDS 76210555 76210690 76210555 ID=cds.MS.gene74955.t1;Parent=MS.gene74955.t1
chr1.3 exon 76211220 76211262 76211220 ID=MS.gene74955.t1.exon4;Parent=MS.gene74955.t1
chr1.3 CDS 76211220 76211262 76211220 ID=cds.MS.gene74955.t1;Parent=MS.gene74955.t1
Gene Sequence

>MS.gene74955

ATGGCTGCCTTCAAAGCATTTTGGAATAGTCCAGTTGGTCCTAAAACAACTCACTTTTGGGGACCTGTTGCTAACTGGGGATTTGTCGCAGCTGTGAGTTTCACCCTATGATCTTCTATTTATTATTATTATTATTAACAAAGTTGTGCATTTATTTACTTTATTAGTGTTAAAAAATGGTCTTAACCTTTGGTTTTAAACTAATATGCCAACTTTTATTTTATTTTATATGGAAAGGGGCTGGCTGACATCAATAAACCTCCAGAAATGATCTCTGGCAACATGACAGGAGGTTTGGCACCTCTGCTTTCATGAAAAGTTGACATTCTTCTTGGCGTATGGTCTGTGGATTAATCATTTTATCTCATTTTTATTGCTGCAGCAATGTGTATATATTCAGCATTGTTCATGAGATTTGCATGGATGGTACAGCCACGTAACTATCTACTTCTTGCATGTCATGCTTCAAATGAGACTGTTCAGCTCTATCAACATACCAGATGGGCAAGGGCAGAAGGGTAAGTGGCTAACATGCAAGCAAAACAAAACATTTTTTCAACCTGTTCTATTTGCTGCTACTTTACGAGACAACAATGTTTCATGTTTTATAAATGCTATTTTAACTTGTAACATGTTTATAATATTAATTGCAATATACTTTTAACTTGACCACCACTAGTACTCTCTCTGTTCTGGATCTGGTGTTGGTGTGGGAAAAGTTTTCTTCAAGTTACAATAAACAACAATACTTTGTGTATTCTCGTTTATTCAAATTGTACATATATCGTTGTCATGGTGGCGTGCACTTGTTCTTAAATGTAATGTTAGTATATATTTTTTTTTGTCAAGTAGCCTAGTGGCTAGAATTCACCTTTTAAGGTGAATAAGTAGGGTGTTCGGGGTTCGAACCCCCCTACATATATCAATGCATTGTCCCTGCCAACTGAGTTATGCTCACGGGGACTGTTAGTATTTTATTTTGACTGAATGGTGCTATATATGTCGGATTACTAATAAAGGTTTGTATCTTTGCAATTTCTTTTGTAGGTATCTCTCGGGGAAGAAGGAGAAAGAAGCTTCATCAGAGTGA
Protein sequence

>MS.gene74955.t1

MAAFKAFWNSPVGPKTTHFWGPVANWGFVAAGLADINKPPEMISGNMTGAMCIYSALFMRFAWMVQPRNYLLLACHASNETVQLYQHTRWARAEGYLSGKKEKEASSE