AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene76618

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76618.t1 MTR_5g041630 93.500 200 12 1 1 200 106 304 2.24e-129 366
MS.gene76618.t1 MTR_2g049780 49.189 185 94 0 3 187 120 304 9.81e-57 182
MS.gene76618.t1 MTR_2g067230 40.838 191 104 3 3 191 120 303 8.18e-43 146
MS.gene76618.t1 MTR_7g081270 37.113 194 111 4 8 191 91 283 2.69e-30 112
MS.gene76618.t1 MTR_2g034600 33.862 189 119 5 1 188 300 483 1.20e-23 97.8
MS.gene76618.t1 MTR_2g034600 33.862 189 119 5 1 188 361 544 1.74e-23 97.4
MS.gene76618.t1 MTR_2g034600 33.862 189 119 5 1 188 365 548 1.95e-23 97.4
MS.gene76618.t1 MTR_5g094610 30.636 173 117 1 1 170 279 451 1.89e-20 88.6
MS.gene76618.t1 MTR_6g003960 28.125 192 134 3 3 192 403 592 1.20e-17 80.9
MS.gene76618.t1 MTR_4g084630 27.513 189 135 1 1 187 130 318 4.58e-16 75.5
MS.gene76618.t1 MTR_4g070060 26.904 197 139 3 1 194 398 592 9.66e-15 72.4
MS.gene76618.t1 MTR_1g115415 37.838 111 64 2 83 191 347 454 3.06e-14 70.9
MS.gene76618.t1 MTR_5g068860 32.787 122 77 2 83 200 379 499 1.25e-12 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76618.t1 AT2G03050 62.562 203 75 1 1 202 82 284 6.52e-84 250
MS.gene76618.t1 AT2G03050 62.562 203 75 1 1 202 81 283 8.03e-84 250
MS.gene76618.t1 AT2G34620 45.078 193 106 0 1 193 104 296 1.96e-54 176
MS.gene76618.t1 AT2G36000 40.526 190 108 2 3 191 126 311 7.73e-41 141
MS.gene76618.t1 AT2G36000 40.860 186 105 2 3 187 126 307 1.24e-40 141
MS.gene76618.t1 AT3G18870 36.458 192 116 3 3 191 84 272 4.25e-31 114
MS.gene76618.t1 AT1G78930 34.343 198 122 3 1 194 388 581 2.36e-27 108
MS.gene76618.t1 AT4G14605 31.217 189 124 5 1 188 285 468 2.09e-21 91.7
MS.gene76618.t1 AT4G14605 31.217 189 124 5 1 188 285 468 2.09e-21 91.7
MS.gene76618.t1 AT5G55580 30.857 175 114 3 1 170 166 338 7.18e-20 86.7
MS.gene76618.t1 AT5G55580 30.857 175 114 3 1 170 272 444 2.15e-19 85.9
MS.gene76618.t1 AT2G21710 30.102 196 132 3 1 193 405 598 1.49e-18 83.6
MS.gene76618.t1 AT4G38160 28.025 157 110 1 38 191 168 324 2.15e-14 70.9
MS.gene76618.t1 AT4G38160 28.025 157 110 1 38 191 168 324 2.15e-14 70.9
MS.gene76618.t1 AT4G38160 28.025 157 110 1 38 191 168 324 2.43e-14 70.9
MS.gene76618.t1 AT4G38160 28.025 157 110 1 38 191 168 324 2.64e-14 70.9
MS.gene76618.t1 AT2G44020 36.937 111 65 2 83 191 352 459 8.67e-14 69.7
MS.gene76618.t1 AT5G55580 29.114 158 100 5 24 172 223 377 4.95e-11 61.2

Find 40 sgRNAs with CRISPR-Local

Find 65 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTGCTTGATTTGCGGTTAA+AGG 0.233881 5.1:-31380903 MS.gene76618:CDS
ACGTGTGGAGGTTTCGAATA+TGG 0.257392 5.1:-31381161 MS.gene76618:CDS
GGTTCACACGTGAGAAGTTC+TGG 0.320919 5.1:+31381448 None:intergenic
GTGCCAGACGACATTGCTTT+TGG 0.336067 5.1:-31381245 MS.gene76618:CDS
TTGAGGGAATTAGGGTTTGT+TGG 0.348767 5.1:-31381283 MS.gene76618:CDS
TGAGGGAATTAGGGTTTGTT+GGG 0.358434 5.1:-31381282 MS.gene76618:CDS
AATATGGTTGTGAGGTCACC+TGG 0.384205 5.1:-31381145 MS.gene76618:CDS
TCCTTTGCAAGAGATGTTGC+AGG 0.404002 5.1:-31380951 MS.gene76618:CDS
AAAACTCAACTTTAGGCAAA+AGG 0.404268 5.1:+31381203 None:intergenic
CACGCGATGTTGGTTCGGCT+TGG 0.408581 5.1:-31380983 MS.gene76618:CDS
CTTGCGGTGTCCTAGATTGT+TGG 0.417943 5.1:-31381347 MS.gene76618:CDS
GGAGGCACGCGATGTTGGTT+CGG 0.447113 5.1:-31380988 MS.gene76618:CDS
ATTCTAGGTTGCTTGATTTG+CGG 0.448500 5.1:-31380910 MS.gene76618:CDS
ACACTACTAACCAACAATCT+AGG 0.454380 5.1:+31381337 None:intergenic
AAGGAACTTGAGGGAAGATA+AGG 0.475839 5.1:-31380884 None:intergenic
AGGAACTTGAGGGAAGATAA+GGG 0.503033 5.1:-31380883 None:intergenic
AAACCAAAAGCAATGTCGTC+TGG 0.503937 5.1:+31381242 None:intergenic
GGGTTTGGGGTTCACACGTG+TGG 0.504748 5.1:-31381176 MS.gene76618:CDS
AAACTCAACTTTAGGCAAAA+GGG 0.506451 5.1:+31381204 None:intergenic
ATGTTGCAGGTTAGTGATGG+TGG 0.519665 5.1:-31380938 MS.gene76618:CDS
ATTGAGAAGAAAATCAAGAA+GGG 0.544003 5.1:+31381408 None:intergenic
CGTCTGGCACGTGAGAGAGT+GGG 0.547888 5.1:+31381258 None:intergenic
TAAGCGGAGGCACGCGATGT+TGG 0.548999 5.1:-31380993 MS.gene76618:CDS
TTTGGGGTTCACACGTGTGG+AGG 0.549501 5.1:-31381173 MS.gene76618:CDS
TCGTCTGGCACGTGAGAGAG+TGG 0.562386 5.1:+31381257 None:intergenic
CATTGAGAAGAAAATCAAGA+AGG 0.567057 5.1:+31381407 None:intergenic
TTGCGGTTAAAGGAACTTGA+GGG 0.570571 5.1:-31380893 MS.gene76618:CDS
GTCTGGCACGTGAGAGAGTG+GGG 0.572333 5.1:+31381259 None:intergenic
ACCTGCAACATCTCTTGCAA+AGG 0.590277 5.1:+31380950 None:intergenic
TTTGCGGTTAAAGGAACTTG+AGG 0.597296 5.1:-31380894 MS.gene76618:CDS
GCTTGGAAGGGAGGATTAAG+CGG 0.607101 5.1:-31381009 MS.gene76618:CDS
TTGAGAAGAAAATCAAGAAG+GGG 0.620983 5.1:+31381409 None:intergenic
GTGATGTTGCTGAGTTGAAG+AGG 0.653205 5.1:-31381054 MS.gene76618:CDS
GAGATGTTGCAGGTTAGTGA+TGG 0.656683 5.1:-31380941 MS.gene76618:CDS
AGGTTTCGAATATGGTTGTG+AGG 0.659704 5.1:-31381153 MS.gene76618:CDS
AAGCTAAAAGAGAAATACTG+AGG 0.664066 5.1:+31381028 None:intergenic
TGAGAAGAAAATCAAGAAGG+GGG 0.672373 5.1:+31381410 None:intergenic
TGGAAGGGAGGATTAAGCGG+AGG 0.683228 5.1:-31381006 MS.gene76618:CDS
ACACTAAAAGTCAATAACCC+AGG 0.692067 5.1:+31381127 None:intergenic
ATATGGTTGTGAGGTCACCT+GGG 0.703831 5.1:-31381144 MS.gene76618:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATGTTCAAAAATCAATCTTG+CGG - chr5.1:31380995-31381014 MS.gene76618:CDS 25.0%
! ATTGAGAAGAAAATCAAGAA+GGG + chr5.1:31380953-31380972 None:intergenic 25.0%
! TTCACGAAAAACTCAAATTT+AGG + chr5.1:31381273-31381292 None:intergenic 25.0%
!! TTTTAGTGTGGATAAGAATT+TGG - chr5.1:31381245-31381264 MS.gene76618:CDS 25.0%
!!! AGATTGATTTTTGAACATCA+TGG + chr5.1:31380993-31381012 None:intergenic 25.0%
!!! TAAATTTGAGTTTTTCGTGA+AGG - chr5.1:31381272-31381291 MS.gene76618:CDS 25.0%
AAAACTCAACTTTAGGCAAA+AGG + chr5.1:31381158-31381177 None:intergenic 30.0%
AAACTCAACTTTAGGCAAAA+GGG + chr5.1:31381157-31381176 None:intergenic 30.0%
AAGCTAAAAGAGAAATACTG+AGG + chr5.1:31381333-31381352 None:intergenic 30.0%
CATTGAGAAGAAAATCAAGA+AGG + chr5.1:31380954-31380973 None:intergenic 30.0%
TTGAGAAGAAAATCAAGAAG+GGG + chr5.1:31380952-31380971 None:intergenic 30.0%
! CCTAAAGTTGAGTTTTTGAT+GGG - chr5.1:31381162-31381181 MS.gene76618:CDS 30.0%
! GATTTTTGAACATCATGGTA+AGG + chr5.1:31380988-31381007 None:intergenic 30.0%
! TCTTGATTTTCTTCTCAATG+AGG - chr5.1:31380954-31380973 MS.gene76618:CDS 30.0%
!! TCAGTATTTCTCTTTTAGCT+TGG - chr5.1:31381332-31381351 MS.gene76618:CDS 30.0%
!!! ATTTCTCTTTTAGCTTGGAA+GGG - chr5.1:31381337-31381356 MS.gene76618:CDS 30.0%
!!! TATTTCTCTTTTAGCTTGGA+AGG - chr5.1:31381336-31381355 MS.gene76618:CDS 30.0%
!!! TGTGTTTTTTGAGGGAATTA+GGG - chr5.1:31381067-31381086 MS.gene76618:CDS 30.0%
ACACTAAAAGTCAATAACCC+AGG + chr5.1:31381234-31381253 None:intergenic 35.0%
ACACTACTAACCAACAATCT+AGG + chr5.1:31381024-31381043 None:intergenic 35.0%
CCCATCAAAAACTCAACTTT+AGG + chr5.1:31381165-31381184 None:intergenic 35.0%
TGAGAAGAAAATCAAGAAGG+GGG + chr5.1:31380951-31380970 None:intergenic 35.0%
! ATTCTAGGTTGCTTGATTTG+CGG - chr5.1:31381448-31381467 MS.gene76618:CDS 35.0%
! GCCTAAAGTTGAGTTTTTGA+TGG - chr5.1:31381161-31381180 MS.gene76618:CDS 35.0%
! TTTTTCGTGAAGGAGATGAA+TGG - chr5.1:31381282-31381301 MS.gene76618:CDS 35.0%
!!! AGTTGAGTTTTTGATGGGTT+TGG - chr5.1:31381167-31381186 MS.gene76618:CDS 35.0%
!!! CTGTGTTTTTTGAGGGAATT+AGG - chr5.1:31381066-31381085 MS.gene76618:CDS 35.0%
!!! GTTGAGTTTTTGATGGGTTT+GGG - chr5.1:31381168-31381187 MS.gene76618:CDS 35.0%
!!! TGGGTTATTGACTTTTAGTG+TGG - chr5.1:31381233-31381252 MS.gene76618:CDS 35.0%
!!! TTGAGTTTTTGATGGGTTTG+GGG - chr5.1:31381169-31381188 MS.gene76618:CDS 35.0%
AAACCAAAAGCAATGTCGTC+TGG + chr5.1:31381119-31381138 None:intergenic 40.0%
AGGTTTCGAATATGGTTGTG+AGG - chr5.1:31381205-31381224 MS.gene76618:CDS 40.0%
TTGAGGGAATTAGGGTTTGT+TGG - chr5.1:31381075-31381094 MS.gene76618:CDS 40.0%
TTGCGGTTAAAGGAACTTGA+GGG - chr5.1:31381465-31381484 MS.gene76618:CDS 40.0%
TTTGCGGTTAAAGGAACTTG+AGG - chr5.1:31381464-31381483 MS.gene76618:CDS 40.0%
! TGAGGGAATTAGGGTTTGTT+GGG - chr5.1:31381076-31381095 MS.gene76618:CDS 40.0%
!! GTTGCTTGATTTGCGGTTAA+AGG - chr5.1:31381455-31381474 MS.gene76618:CDS 40.0%
!!! ACCTGCTCTGTGTTTTTTGA+GGG - chr5.1:31381059-31381078 MS.gene76618:CDS 40.0%
!!! GTGATGGTGGTTTTGATTCT+AGG - chr5.1:31381433-31381452 MS.gene76618:CDS 40.0%
AATATGGTTGTGAGGTCACC+TGG - chr5.1:31381213-31381232 MS.gene76618:CDS 45.0%
ACCTGCAACATCTCTTGCAA+AGG + chr5.1:31381411-31381430 None:intergenic 45.0%
ACGTGTGGAGGTTTCGAATA+TGG - chr5.1:31381197-31381216 MS.gene76618:CDS 45.0%
AGGGGGTAAATATCACTGTG+TGG + chr5.1:31380934-31380953 None:intergenic 45.0%
ATATGGTTGTGAGGTCACCT+GGG - chr5.1:31381214-31381233 MS.gene76618:CDS 45.0%
ATGTTGCAGGTTAGTGATGG+TGG - chr5.1:31381420-31381439 MS.gene76618:CDS 45.0%
GAGATGTTGCAGGTTAGTGA+TGG - chr5.1:31381417-31381436 MS.gene76618:CDS 45.0%
TCCCTCAAAAAACACAGAGC+AGG + chr5.1:31381063-31381082 None:intergenic 45.0%
TCCTTTGCAAGAGATGTTGC+AGG - chr5.1:31381407-31381426 MS.gene76618:CDS 45.0%
! GTGATGTTGCTGAGTTGAAG+AGG - chr5.1:31381304-31381323 MS.gene76618:CDS 45.0%
!!! GACCTGCTCTGTGTTTTTTG+AGG - chr5.1:31381058-31381077 MS.gene76618:CDS 45.0%
!!! GCTTTTGGTTTCGAGTGTTG+AGG - chr5.1:31381128-31381147 MS.gene76618:CDS 45.0%
!!! TCTCTTTTAGCTTGGAAGGG+AGG - chr5.1:31381340-31381359 MS.gene76618:CDS 45.0%
CTTGCGGTGTCCTAGATTGT+TGG - chr5.1:31381011-31381030 MS.gene76618:CDS 50.0%
GCTTGGAAGGGAGGATTAAG+CGG - chr5.1:31381349-31381368 MS.gene76618:CDS 50.0%
GGTTCACACGTGAGAAGTTC+TGG + chr5.1:31380913-31380932 None:intergenic 50.0%
! GTGCCAGACGACATTGCTTT+TGG - chr5.1:31381113-31381132 MS.gene76618:CDS 50.0%
TGGAAGGGAGGATTAAGCGG+AGG - chr5.1:31381352-31381371 MS.gene76618:CDS 55.0%
! TTTGGGGTTCACACGTGTGG+AGG - chr5.1:31381185-31381204 MS.gene76618:CDS 55.0%
CGTCTGGCACGTGAGAGAGT+GGG + chr5.1:31381103-31381122 None:intergenic 60.0%
GTCTGGCACGTGAGAGAGTG+GGG + chr5.1:31381102-31381121 None:intergenic 60.0%
TCGTCTGGCACGTGAGAGAG+TGG + chr5.1:31381104-31381123 None:intergenic 60.0%
! GGAGGCACGCGATGTTGGTT+CGG - chr5.1:31381370-31381389 MS.gene76618:CDS 60.0%
! GGGTTTGGGGTTCACACGTG+TGG - chr5.1:31381182-31381201 MS.gene76618:CDS 60.0%
! TAAGCGGAGGCACGCGATGT+TGG - chr5.1:31381365-31381384 MS.gene76618:CDS 60.0%
!! CACGCGATGTTGGTTCGGCT+TGG - chr5.1:31381375-31381394 MS.gene76618:CDS 60.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 31380886 31381494 31380886 ID=MS.gene76618
chr5.1 mRNA 31380886 31381494 31380886 ID=MS.gene76618.t1;Parent=MS.gene76618
chr5.1 exon 31380886 31381494 31380886 ID=MS.gene76618.t1.exon1;Parent=MS.gene76618.t1
chr5.1 CDS 31380886 31381494 31380886 ID=cds.MS.gene76618.t1;Parent=MS.gene76618.t1
Gene Sequence

>MS.gene76618

ATGGGTCGAATTCTTGATATGCTTCCAGAACTTCTCACGTGTGAACCACACAGTGATATTTACCCCCTTCTTGATTTTCTTCTCAATGAGGTTGAAATTCCTTACCATGATGTTCAAAAATCAATCTTGCGGTGTCCTAGATTGTTGGTTAGTAGTGTAGAGAATCGATTGAGACCTGCTCTGTGTTTTTTGAGGGAATTAGGGTTTGTTGGGCCCCACTCTCTCACGTGCCAGACGACATTGCTTTTGGTTTCGAGTGTTGAGGATACCCTTTTGCCTAAAGTTGAGTTTTTGATGGGTTTGGGGTTCACACGTGTGGAGGTTTCGAATATGGTTGTGAGGTCACCTGGGTTATTGACTTTTAGTGTGGATAAGAATTTGGCTCCTAAATTTGAGTTTTTCGTGAAGGAGATGAATGGTGATGTTGCTGAGTTGAAGAGGTATCCTCAGTATTTCTCTTTTAGCTTGGAAGGGAGGATTAAGCGGAGGCACGCGATGTTGGTTCGGCTTGGATTGTCGCTTCCTTTGCAAGAGATGTTGCAGGTTAGTGATGGTGGTTTTGATTCTAGGTTGCTTGATTTGCGGTTAAAGGAACTTGAGGGAAGATAA
Protein sequence

>MS.gene76618.t1

MGRILDMLPELLTCEPHSDIYPLLDFLLNEVEIPYHDVQKSILRCPRLLVSSVENRLRPALCFLRELGFVGPHSLTCQTTLLLVSSVEDTLLPKVEFLMGLGFTRVEVSNMVVRSPGLLTFSVDKNLAPKFEFFVKEMNGDVAELKRYPQYFSFSLEGRIKRRHAMLVRLGLSLPLQEMLQVSDGGFDSRLLDLRLKELEGR