AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene023784

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene023784.t1 MTR_7g077620 66.756 373 114 7 1 366 1 370 8.92e-164 464
MS.gene023784.t1 MTR_7g077650 60.836 383 124 13 1 368 1 372 2.94e-146 419
MS.gene023784.t1 MTR_7g077660 60.916 371 132 9 5 368 4 368 9.96e-142 407
MS.gene023784.t1 MTR_7g076100 72.574 237 58 4 137 368 66 300 2.65e-112 330
MS.gene023784.t1 MTR_7g076100 86.538 52 7 0 1 52 1 52 2.96e-25 104
MS.gene023784.t1 MTR_7g076110 57.483 294 114 6 85 368 21 313 4.64e-104 309
MS.gene023784.t1 MTR_5g038260 44.000 400 165 16 6 368 6 383 9.13e-85 262
MS.gene023784.t1 MTR_1g108740 44.444 387 148 16 3 366 2 344 1.18e-83 258
MS.gene023784.t1 MTR_5g038230 42.025 395 150 16 6 366 4 353 4.49e-77 241
MS.gene023784.t1 MTR_1g064570 40.380 421 171 17 5 368 3 400 3.46e-73 233
MS.gene023784.t1 MTR_5g082770 44.839 310 132 11 6 301 4 288 5.37e-68 216
MS.gene023784.t1 MTR_7g076130 68.548 124 35 2 167 286 25 148 1.77e-52 171
MS.gene023784.t1 MTR_1g016150 48.223 197 93 5 3 193 2 195 3.58e-50 168
MS.gene023784.t1 MTR_1g016150 57.812 64 19 2 254 314 177 235 3.87e-12 65.9
MS.gene023784.t1 MTR_5g082780 41.150 226 101 7 112 323 1 208 2.17e-41 145
MS.gene023784.t1 MTR_1g108750 44.156 154 52 4 6 158 4 124 7.74e-24 95.5
MS.gene023784.t1 MTR_3g114970 23.711 388 231 16 5 364 3 353 1.48e-13 71.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 70 sgRNAs with CRISPR-Local

Find 84 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAGCAACGACATAATTATT+TGG 0.166448 7.1:-27130557 None:intergenic
AAAGAGCAAGCCAACCATTT+TGG 0.203122 7.1:+27130609 MS.gene023784:CDS
AAGTCTTGATGTTTATAAAT+TGG 0.207106 7.1:+27130904 MS.gene023784:CDS
ACCATCAAAATCATCAATTT+AGG 0.213093 7.1:+27130234 MS.gene023784:CDS
TTCTCATAGTAAGTAAAATT+AGG 0.229231 7.1:-27130761 None:intergenic
TATCCCATATGAAAATTAAA+TGG 0.231038 7.1:+27130378 MS.gene023784:CDS
TAATTATTTGGGCTTGTAAT+GGG 0.291906 7.1:-27130545 None:intergenic
GGTATACTACTACACTTAAA+AGG 0.301808 7.1:-27130467 None:intergenic
CAGCAACGACATAATTATTT+GGG 0.330157 7.1:-27130556 None:intergenic
TATGTCGTTGCTGCCATTTA+CGG 0.330732 7.1:+27130566 MS.gene023784:CDS
AAGATGAGAAAATCCGTAAA+TGG 0.376143 7.1:-27130579 None:intergenic
AAGAACACATCGATCACATT+AGG 0.376838 7.1:+27130168 MS.gene023784:CDS
CGCATCCCCTTGAAGGAAAT+AGG 0.376883 7.1:-27131148 None:intergenic
AGAAGAACTACCTCTTAGTT+TGG 0.384813 7.1:+27130130 MS.gene023784:CDS
TCTCATAGTAAGTAAAATTA+GGG 0.387493 7.1:-27130760 None:intergenic
ATCTTTACCTATTTCCTTCA+AGG 0.391074 7.1:+27131141 MS.gene023784:CDS
AAAACCTCGCATCCCCTTGA+AGG 0.402319 7.1:-27131155 None:intergenic
TGATGTTTATAAATTGGAAA+TGG 0.402361 7.1:+27130910 MS.gene023784:CDS
TTTGAGAGGTGGCAGACTAA+TGG 0.407722 7.1:-27130492 None:intergenic
GGGTTCTACCGCAATTTCAA+TGG 0.408089 7.1:+27131179 MS.gene023784:CDS
AAAAGGATTGACTAGAGTTA+TGG 0.415743 7.1:-27130450 None:intergenic
TTGAGAGGTGGCAGACTAAT+GGG 0.429349 7.1:-27130491 None:intergenic
TATGAAAATTAAATGGTGTA+TGG 0.432693 7.1:+27130385 MS.gene023784:CDS
ATAATTATTTGGGCTTGTAA+TGG 0.437481 7.1:-27130546 None:intergenic
TTAGGTTTGGTGTGGTGTGC+AGG 0.455358 7.1:+27130186 MS.gene023784:CDS
CACATCGATCACATTAGGTT+TGG 0.455542 7.1:+27130173 MS.gene023784:CDS
AAAGCCTTTCATCATAGCAT+TGG 0.456480 7.1:-27130814 None:intergenic
AAGCCTTTCATCATAGCATT+GGG 0.457571 7.1:-27130813 None:intergenic
TGGAGGATTGTTGATCTTGA+AGG 0.459220 7.1:-27130720 None:intergenic
AAGAGGTAGTTCTTCTAAGT+TGG 0.460578 7.1:-27130123 None:intergenic
TGGTGTATGGACTATTCATT+TGG 0.472010 7.1:+27130398 MS.gene023784:CDS
AATGAGGAAGGTAGTAGATT+GGG 0.475711 7.1:+27130100 None:intergenic
GTATGGACTATTCATTTGGT+TGG 0.477972 7.1:+27130402 MS.gene023784:CDS
TAGTTTGGTTCTTGATAAGT+TGG 0.478359 7.1:+27130145 MS.gene023784:CDS
GGTTCTACCGCAATTTCAAT+GGG 0.481590 7.1:+27131180 MS.gene023784:CDS
CTATATGAATCCAAAATGGT+TGG 0.483203 7.1:-27130619 None:intergenic
CAATGAGGAAGGTAGTAGAT+TGG 0.484957 7.1:+27130099 None:intergenic
ATACAAGGATCTCTTCTCGT+TGG 0.507143 7.1:-27130318 None:intergenic
AATCTTTGAATGGAGACATA+TGG 0.507395 7.1:+27130846 MS.gene023784:CDS
GAGATCTATAATGTGAAGGA+TGG 0.509549 7.1:+27131103 MS.gene023784:CDS
CTGCTAATTGCTGATGGCAG+CGG 0.512572 7.1:+27130683 MS.gene023784:CDS
ACCTCTCAAATCTGTTTACA+AGG 0.516115 7.1:+27130505 MS.gene023784:CDS
TTATCAAGAACCAAACTAAG+AGG 0.520565 7.1:-27130140 None:intergenic
TCTTTACCTATTTCCTTCAA+GGG 0.520742 7.1:+27131142 MS.gene023784:CDS
TTGGTGTGGTGTGCAGGAGT+TGG 0.525759 7.1:+27130192 MS.gene023784:CDS
CATCCCAATGCTATGATGAA+AGG 0.550966 7.1:+27130810 MS.gene023784:CDS
TTCTAACTTGGAGAAACAAG+AGG 0.552906 7.1:-27131029 None:intergenic
GTTGATCTTGAAGGATACAA+TGG 0.562836 7.1:-27130711 None:intergenic
TGTAATGGGGTCAGCAGACA+AGG 0.568289 7.1:-27130531 None:intergenic
ATAAATTGGAAATGGATGCC+CGG 0.569260 7.1:+27130918 MS.gene023784:CDS
CTTTACCTATTTCCTTCAAG+GGG 0.577911 7.1:+27131143 MS.gene023784:CDS
AATTATTTGGGCTTGTAATG+GGG 0.583882 7.1:-27130544 None:intergenic
AAAGGTCTGCTAATTGCTGA+TGG 0.586662 7.1:+27130677 MS.gene023784:CDS
GTGACTTAGAATGCTATACA+AGG 0.596070 7.1:-27130333 None:intergenic
GTGAGGATCATGAGCATAGG+TGG 0.597353 7.1:-27130266 None:intergenic
TATCAATCCCATTGAAATTG+CGG 0.597459 7.1:-27131187 None:intergenic
CTTAGGCTTAGCAATGAGGA+AGG 0.598112 7.1:+27130088 None:intergenic
CTTTCATCATAGCATTGGGA+TGG 0.603237 7.1:-27130809 None:intergenic
TTGTAAACAGATTTGAGAGG+TGG 0.604090 7.1:-27130503 None:intergenic
CGATCACATTAGGTTTGGTG+TGG 0.607424 7.1:+27130178 MS.gene023784:CDS
ATTTCCTTCAAGGGGATGCG+AGG 0.609973 7.1:+27131151 MS.gene023784:CDS
GTTAGAGATCTATAATGTGA+AGG 0.621618 7.1:+27131099 MS.gene023784:CDS
GGGTCATATGAGTCAGCACA+TGG 0.622709 7.1:-27130740 None:intergenic
TTCGAGACAGTTCTTCTGTG+AGG 0.625233 7.1:-27130283 None:intergenic
TTGGAAATGGATGCCCGGAG+TGG 0.634177 7.1:+27130923 MS.gene023784:CDS
TCTGTGAGGATCATGAGCAT+AGG 0.639271 7.1:-27130269 None:intergenic
TTTGAATGGAGACATATGGA+TGG 0.693585 7.1:+27130850 MS.gene023784:CDS
GCCTTGTAAACAGATTTGAG+AGG 0.700590 7.1:-27130506 None:intergenic
AGAGGTGGCAGACTAATGGG+AGG 0.724272 7.1:-27130488 None:intergenic
TCATATGAGTCAGCACATGG+AGG 0.731539 7.1:-27130737 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTGATGTTATATTTTATAA+AGG + chr7.1:27130659-27130678 MS.gene023784:CDS 10.0%
!! AAGTCTTGATGTTTATAAAT+TGG + chr7.1:27130904-27130923 MS.gene023784:CDS 20.0%
!! TATCCCATATGAAAATTAAA+TGG + chr7.1:27130378-27130397 MS.gene023784:CDS 20.0%
!! TATGAAAATTAAATGGTGTA+TGG + chr7.1:27130385-27130404 MS.gene023784:CDS 20.0%
!! TCTCATAGTAAGTAAAATTA+GGG - chr7.1:27130763-27130782 None:intergenic 20.0%
!! TGATGTTTATAAATTGGAAA+TGG + chr7.1:27130910-27130929 MS.gene023784:CDS 20.0%
!! TTCTCATAGTAAGTAAAATT+AGG - chr7.1:27130764-27130783 None:intergenic 20.0%
!!! AATTGAATCTTTTTCTAACT+TGG - chr7.1:27131044-27131063 None:intergenic 20.0%
!!! ACACCATTTAATTTTCATAT+GGG - chr7.1:27130384-27130403 None:intergenic 20.0%
!!! TACACCATTTAATTTTCATA+TGG - chr7.1:27130385-27130404 None:intergenic 20.0%
!!! TATTTTGTGAAATCTTTGAA+TGG + chr7.1:27130836-27130855 MS.gene023784:CDS 20.0%
!!! TTTTCTATATGAATCCAAAA+TGG - chr7.1:27130626-27130645 None:intergenic 20.0%
! ACCATCAAAATCATCAATTT+AGG + chr7.1:27130234-27130253 MS.gene023784:CDS 25.0%
! ATAATTATTTGGGCTTGTAA+TGG - chr7.1:27130549-27130568 None:intergenic 25.0%
! ATATGGGATAAAAATGCAAT+AGG - chr7.1:27130368-27130387 None:intergenic 25.0%
! TAATTATTTGGGCTTGTAAT+GGG - chr7.1:27130548-27130567 None:intergenic 25.0%
! TATGGGATAAAAATGCAATA+GGG - chr7.1:27130367-27130386 None:intergenic 25.0%
!!! AAGACAACATTTTATTTGTC+GGG + chr7.1:27130981-27131000 MS.gene023784:CDS 25.0%
!!! GAAGACAACATTTTATTTGT+CGG + chr7.1:27130980-27130999 MS.gene023784:CDS 25.0%
!!! TCCTAAATTGATGATTTTGA+TGG - chr7.1:27130238-27130257 None:intergenic 25.0%
AAAAGGATTGACTAGAGTTA+TGG - chr7.1:27130453-27130472 None:intergenic 30.0%
AAGATGAGAAAATCCGTAAA+TGG - chr7.1:27130582-27130601 None:intergenic 30.0%
AATCTTTGAATGGAGACATA+TGG + chr7.1:27130846-27130865 MS.gene023784:CDS 30.0%
AATGAAAAAGCTTGAGAGTT+TGG + chr7.1:27130958-27130977 MS.gene023784:CDS 30.0%
AATTATTTGGGCTTGTAATG+GGG - chr7.1:27130547-27130566 None:intergenic 30.0%
ATCTTTACCTATTTCCTTCA+AGG + chr7.1:27131141-27131160 MS.gene023784:CDS 30.0%
CAGCAACGACATAATTATTT+GGG - chr7.1:27130559-27130578 None:intergenic 30.0%
CTATATGAATCCAAAATGGT+TGG - chr7.1:27130622-27130641 None:intergenic 30.0%
GGTATACTACTACACTTAAA+AGG - chr7.1:27130470-27130489 None:intergenic 30.0%
GTTAGAGATCTATAATGTGA+AGG + chr7.1:27131099-27131118 MS.gene023784:CDS 30.0%
TCTTTACCTATTTCCTTCAA+GGG + chr7.1:27131142-27131161 MS.gene023784:CDS 30.0%
TTATCAAGAACCAAACTAAG+AGG - chr7.1:27130143-27130162 None:intergenic 30.0%
!! AACATTTTATTTGTCGGGAT+TGG + chr7.1:27130986-27131005 MS.gene023784:CDS 30.0%
!! TAGTTTGGTTCTTGATAAGT+TGG + chr7.1:27130145-27130164 MS.gene023784:CDS 30.0%
!!! ATTTGGTTGGTTTTCATTTG+TGG + chr7.1:27130415-27130434 MS.gene023784:CDS 30.0%
AAAGCCTTTCATCATAGCAT+TGG - chr7.1:27130817-27130836 None:intergenic 35.0%
AAGAACACATCGATCACATT+AGG + chr7.1:27130168-27130187 MS.gene023784:CDS 35.0%
AAGAGGTAGTTCTTCTAAGT+TGG - chr7.1:27130126-27130145 None:intergenic 35.0%
AAGCCTTTCATCATAGCATT+GGG - chr7.1:27130816-27130835 None:intergenic 35.0%
ACCTCTCAAATCTGTTTACA+AGG + chr7.1:27130505-27130524 MS.gene023784:CDS 35.0%
AGAAGAACTACCTCTTAGTT+TGG + chr7.1:27130130-27130149 MS.gene023784:CDS 35.0%
ATAAATTGGAAATGGATGCC+CGG + chr7.1:27130918-27130937 MS.gene023784:CDS 35.0%
CTTTACCTATTTCCTTCAAG+GGG + chr7.1:27131143-27131162 MS.gene023784:CDS 35.0%
GAGATCTATAATGTGAAGGA+TGG + chr7.1:27131103-27131122 MS.gene023784:CDS 35.0%
GCAGCAACGACATAATTATT+TGG - chr7.1:27130560-27130579 None:intergenic 35.0%
GTGACTTAGAATGCTATACA+AGG - chr7.1:27130336-27130355 None:intergenic 35.0%
GTTGATCTTGAAGGATACAA+TGG - chr7.1:27130714-27130733 None:intergenic 35.0%
TTCTAACTTGGAGAAACAAG+AGG - chr7.1:27131032-27131051 None:intergenic 35.0%
TTGTAAACAGATTTGAGAGG+TGG - chr7.1:27130506-27130525 None:intergenic 35.0%
TTTGAATGGAGACATATGGA+TGG + chr7.1:27130850-27130869 MS.gene023784:CDS 35.0%
! GTATGGACTATTCATTTGGT+TGG + chr7.1:27130402-27130421 MS.gene023784:CDS 35.0%
! TGGTGTATGGACTATTCATT+TGG + chr7.1:27130398-27130417 MS.gene023784:CDS 35.0%
!! TTTGTTCAAGTTTTCCACTC+CGG - chr7.1:27130940-27130959 None:intergenic 35.0%
AAAGGTCTGCTAATTGCTGA+TGG + chr7.1:27130677-27130696 MS.gene023784:CDS 40.0%
ATACAAGGATCTCTTCTCGT+TGG - chr7.1:27130321-27130340 None:intergenic 40.0%
CACATCGATCACATTAGGTT+TGG + chr7.1:27130173-27130192 MS.gene023784:CDS 40.0%
CATCCCAATGCTATGATGAA+AGG + chr7.1:27130810-27130829 MS.gene023784:CDS 40.0%
GCCTTGTAAACAGATTTGAG+AGG - chr7.1:27130509-27130528 None:intergenic 40.0%
GGTTCTACCGCAATTTCAAT+GGG + chr7.1:27131180-27131199 MS.gene023784:CDS 40.0%
TGGAGGATTGTTGATCTTGA+AGG - chr7.1:27130723-27130742 None:intergenic 40.0%
! AAAGAGCAAGCCAACCATTT+TGG + chr7.1:27130609-27130628 MS.gene023784:CDS 40.0%
! CTTTCATCATAGCATTGGGA+TGG - chr7.1:27130812-27130831 None:intergenic 40.0%
! TATGTCGTTGCTGCCATTTA+CGG + chr7.1:27130566-27130585 MS.gene023784:CDS 40.0%
!! TTGTTCAAGTTTTCCACTCC+GGG - chr7.1:27130939-27130958 None:intergenic 40.0%
GGGTTCTACCGCAATTTCAA+TGG + chr7.1:27131179-27131198 MS.gene023784:CDS 45.0%
TCATATGAGTCAGCACATGG+AGG - chr7.1:27130740-27130759 None:intergenic 45.0%
TCTGTGAGGATCATGAGCAT+AGG - chr7.1:27130272-27130291 None:intergenic 45.0%
TTCGAGACAGTTCTTCTGTG+AGG - chr7.1:27130286-27130305 None:intergenic 45.0%
TTGAGAGGTGGCAGACTAAT+GGG - chr7.1:27130494-27130513 None:intergenic 45.0%
TTTGAGAGGTGGCAGACTAA+TGG - chr7.1:27130495-27130514 None:intergenic 45.0%
!! CGATCACATTAGGTTTGGTG+TGG + chr7.1:27130178-27130197 MS.gene023784:CDS 45.0%
AAAACCTCGCATCCCCTTGA+AGG - chr7.1:27131158-27131177 None:intergenic 50.0%
ATTTCCTTCAAGGGGATGCG+AGG + chr7.1:27131151-27131170 MS.gene023784:CDS 50.0%
CGCATCCCCTTGAAGGAAAT+AGG - chr7.1:27131151-27131170 None:intergenic 50.0%
CTGCTAATTGCTGATGGCAG+CGG + chr7.1:27130683-27130702 MS.gene023784:CDS 50.0%
GGGTCATATGAGTCAGCACA+TGG - chr7.1:27130743-27130762 None:intergenic 50.0%
GTGAGGATCATGAGCATAGG+TGG - chr7.1:27130269-27130288 None:intergenic 50.0%
! CAAGGGGATGCGAGGTTTTT+GGG + chr7.1:27131159-27131178 MS.gene023784:CDS 50.0%
! TCAAGGGGATGCGAGGTTTT+TGG + chr7.1:27131158-27131177 MS.gene023784:CDS 50.0%
! TGTAATGGGGTCAGCAGACA+AGG - chr7.1:27130534-27130553 None:intergenic 50.0%
!! TTAGGTTTGGTGTGGTGTGC+AGG + chr7.1:27130186-27130205 MS.gene023784:CDS 50.0%
AGAGGTGGCAGACTAATGGG+AGG - chr7.1:27130491-27130510 None:intergenic 55.0%
TTGGAAATGGATGCCCGGAG+TGG + chr7.1:27130923-27130942 MS.gene023784:CDS 55.0%
TTGGTGTGGTGTGCAGGAGT+TGG + chr7.1:27130192-27130211 MS.gene023784:CDS 55.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 27130101 27131207 27130101 ID=MS.gene023784
chr7.1 mRNA 27130101 27131207 27130101 ID=MS.gene023784.t1;Parent=MS.gene023784
chr7.1 exon 27130101 27131207 27130101 ID=MS.gene023784.t1.exon1;Parent=MS.gene023784.t1
chr7.1 CDS 27130101 27131207 27130101 ID=cds.MS.gene023784.t1;Parent=MS.gene023784.t1
Gene Sequence

>MS.gene023784

ATGAGGAAGGTAGTAGATTGGGCCAACTTAGAAGAACTACCTCTTAGTTTGGTTCTTGATAAGTTGGAAGAACACATCGATCACATTAGGTTTGGTGTGGTGTGCAGGAGTTGGCTATCTGTTGCAAAGCTTAACCATCAAAATCATCAATTTAGGATTAGTATACCACCTATGCTCATGATCCTCACAGAAGAACTGTCTCGAAGACGTAAAAAAACCAACGAGAAGAGATCCTTGTATAGCATTCTAAGTCACAAAGAGTACCCTATTGCATTTTTATCCCATATGAAAATTAAATGGTGTATGGACTATTCATTTGGTTGGTTTTCATTTGTGGACAAGAACAATGCCATAACTCTAGTCAATCCTTTTAAGTGTAGTAGTATACCTCCCATTAGTCTGCCACCTCTCAAATCTGTTTACAAGGCTACCTTGTCTGCTGACCCCATTACAAGCCCAAATAATTATGTCGTTGCTGCCATTTACGGATTTTCTCATCTTGCATTCAAAAGAGCAAGCCAACCATTTTGGATTCATATAGAAAATGAATGTGCTATCATTGATGTTATATTTTATAAAGGTCTGCTAATTGCTGATGGCAGCGGAAAAACCATTGTATCCTTCAAGATCAACAATCCTCCATGTGCTGACTCATATGACCCTAATTTTACTTACTATGAGAAGATAGCTAGCACTACATATAGTGTTCCATCCCAATGCTATGATGAAAGGCTTTATTTTGTGAAATCTTTGAATGGAGACATATGGATGGTGAGAAGATATTTAAATATCGTTTTAGATGAAAGTCTTGATGTTTATAAATTGGAAATGGATGCCCGGAGTGGAAAACTTGAACAAATGAAAAAGCTTGAGAGTTTGGAAGACAACATTTTATTTGTCGGGATTGGTGATTCAATTTCTGTGTCAGCCTCTTGTTTCTCCAAGTTAGAAAAAGATTCAATTTATTTTATTTATGACAATGATATGCATGATTTAGCGTTAGAGATCTATAATGTGAAGGATGGAAGCTGTCAGAGACAATCTTTACCTATTTCCTTCAAGGGGATGCGAGGTTTTTGGGTTCTACCGCAATTTCAATGGGATTGA
Protein sequence

>MS.gene023784.t1

MRKVVDWANLEELPLSLVLDKLEEHIDHIRFGVVCRSWLSVAKLNHQNHQFRISIPPMLMILTEELSRRRKKTNEKRSLYSILSHKEYPIAFLSHMKIKWCMDYSFGWFSFVDKNNAITLVNPFKCSSIPPISLPPLKSVYKATLSADPITSPNNYVVAAIYGFSHLAFKRASQPFWIHIENECAIIDVIFYKGLLIADGSGKTIVSFKINNPPCADSYDPNFTYYEKIASTTYSVPSQCYDERLYFVKSLNGDIWMVRRYLNIVLDESLDVYKLEMDARSGKLEQMKKLESLEDNILFVGIGDSISVSASCFSKLEKDSIYFIYDNDMHDLALEIYNVKDGSCQRQSLPISFKGMRGFWVLPQFQWD