AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene045634

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene045634.t1 MTR_5g041630 93.500 200 12 1 1 200 106 304 2.47e-129 366
MS.gene045634.t1 MTR_2g049780 49.189 185 94 0 3 187 120 304 1.67e-56 181
MS.gene045634.t1 MTR_2g067230 40.838 191 104 3 3 191 120 303 8.63e-43 146
MS.gene045634.t1 MTR_7g081270 37.113 194 111 4 8 191 91 283 3.32e-30 112
MS.gene045634.t1 MTR_2g034600 33.862 189 119 5 1 188 361 544 1.66e-23 97.4
MS.gene045634.t1 MTR_2g034600 33.862 189 119 5 1 188 300 483 1.68e-23 97.4
MS.gene045634.t1 MTR_2g034600 33.862 189 119 5 1 188 365 548 2.32e-23 97.1
MS.gene045634.t1 MTR_5g094610 30.636 173 117 1 1 170 279 451 2.92e-20 88.2
MS.gene045634.t1 MTR_6g003960 28.125 192 134 3 3 192 403 592 1.08e-17 80.9
MS.gene045634.t1 MTR_4g084630 27.513 189 135 1 1 187 130 318 5.98e-16 75.1
MS.gene045634.t1 MTR_4g070060 26.904 197 139 3 1 194 398 592 1.10e-14 72.0
MS.gene045634.t1 MTR_1g115415 37.838 111 64 2 83 191 347 454 2.63e-14 70.9
MS.gene045634.t1 MTR_5g068860 32.787 122 77 2 83 200 379 499 1.46e-12 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene045634.t1 AT2G03050 62.687 201 74 1 1 200 81 281 2.55e-83 248
MS.gene045634.t1 AT2G03050 62.687 201 74 1 1 200 82 282 2.87e-83 248
MS.gene045634.t1 AT2G34620 45.078 193 106 0 1 193 104 296 3.33e-54 175
MS.gene045634.t1 AT2G36000 40.526 190 108 2 3 191 126 311 1.02e-40 140
MS.gene045634.t1 AT2G36000 40.526 190 108 2 3 191 126 311 1.41e-40 140
MS.gene045634.t1 AT3G18870 36.458 192 116 3 3 191 84 272 6.02e-31 114
MS.gene045634.t1 AT1G78930 34.343 198 122 3 1 194 388 581 2.39e-27 108
MS.gene045634.t1 AT4G14605 31.217 189 124 5 1 188 285 468 2.42e-21 91.3
MS.gene045634.t1 AT4G14605 31.217 189 124 5 1 188 285 468 2.42e-21 91.3
MS.gene045634.t1 AT5G55580 30.857 175 114 3 1 170 166 338 7.70e-20 86.7
MS.gene045634.t1 AT5G55580 30.857 175 114 3 1 170 272 444 2.63e-19 85.5
MS.gene045634.t1 AT2G21710 30.102 196 132 3 1 193 405 598 1.79e-18 83.2
MS.gene045634.t1 AT4G38160 28.025 157 110 1 38 191 168 324 2.15e-14 70.9
MS.gene045634.t1 AT4G38160 28.025 157 110 1 38 191 168 324 2.15e-14 70.9
MS.gene045634.t1 AT4G38160 28.025 157 110 1 38 191 168 324 2.27e-14 70.9
MS.gene045634.t1 AT4G38160 28.025 157 110 1 38 191 168 324 2.49e-14 70.9
MS.gene045634.t1 AT2G44020 36.937 111 65 2 83 191 352 459 7.17e-14 69.7
MS.gene045634.t1 AT5G55580 29.114 158 100 5 24 172 223 377 5.82e-11 61.2

Find 39 sgRNAs with CRISPR-Local

Find 64 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTGCTTGATTTGCGGTTAA+AGG 0.233881 5.3:-29172790 MS.gene045634:CDS
ACGTGTGGAGGTTTCGAATA+TGG 0.257392 5.3:-29173048 MS.gene045634:CDS
AAGGAACTTGAGGGAATATA+AGG 0.334661 5.3:-29172771 None:intergenic
GTGCCAGACGACATTGCTTT+TGG 0.336067 5.3:-29173132 MS.gene045634:CDS
TTGAGGGAATTAGGGTTTGT+TGG 0.348767 5.3:-29173170 MS.gene045634:CDS
TGAGGGAATTAGGGTTTGTT+GGG 0.358434 5.3:-29173169 MS.gene045634:CDS
GGTTCACACGTGAGAAGTTC+AGG 0.376179 5.3:+29173335 None:intergenic
AATATGGTTGTGAGGTCACC+TGG 0.384205 5.3:-29173032 MS.gene045634:CDS
TCCTTTGCAAGAGATGTTGC+AGG 0.404002 5.3:-29172838 MS.gene045634:CDS
AAAACTCAACTTTAGGCAAA+AGG 0.404268 5.3:+29173090 None:intergenic
CACGCGATGTTGGTTCGGCT+TGG 0.408581 5.3:-29172870 MS.gene045634:CDS
CTTGCGGTGTCCTAGATTGT+TGG 0.417943 5.3:-29173234 MS.gene045634:CDS
GGAGGCACGCGATGTTGGTT+CGG 0.447113 5.3:-29172875 MS.gene045634:CDS
ATTCTAGGTTGCTTGATTTG+CGG 0.448500 5.3:-29172797 MS.gene045634:CDS
ACACTACTAACCAACAATCT+AGG 0.454380 5.3:+29173224 None:intergenic
AAACCAAAAGCAATGTCGTC+TGG 0.503937 5.3:+29173129 None:intergenic
GGGTTTGGGGTTCACACGTG+TGG 0.504748 5.3:-29173063 MS.gene045634:CDS
AAACTCAACTTTAGGCAAAA+GGG 0.506451 5.3:+29173091 None:intergenic
ATGTTGCAGGTTAGTGATGG+TGG 0.519665 5.3:-29172825 MS.gene045634:CDS
TTGCGGTTAAAGGAACTTGA+GGG 0.543536 5.3:-29172780 MS.gene045634:CDS
ATTGAGAAGAAAATCAAGAA+GGG 0.544003 5.3:+29173295 None:intergenic
CGTCTGGCACGTGAGAGAGT+GGG 0.547888 5.3:+29173145 None:intergenic
TAAGCGGAGGCACGCGATGT+TGG 0.548999 5.3:-29172880 MS.gene045634:CDS
TTTGGGGTTCACACGTGTGG+AGG 0.549501 5.3:-29173060 MS.gene045634:CDS
TCGTCTGGCACGTGAGAGAG+TGG 0.562386 5.3:+29173144 None:intergenic
CATTGAGAAGAAAATCAAGA+AGG 0.567057 5.3:+29173294 None:intergenic
GTCTGGCACGTGAGAGAGTG+GGG 0.572333 5.3:+29173146 None:intergenic
ACCTGCAACATCTCTTGCAA+AGG 0.590277 5.3:+29172837 None:intergenic
TTTGCGGTTAAAGGAACTTG+AGG 0.597296 5.3:-29172781 MS.gene045634:CDS
GCTTGGAAGGGAGGATTAAG+CGG 0.607101 5.3:-29172896 MS.gene045634:CDS
TTGAGAAGAAAATCAAGAAG+GGG 0.620983 5.3:+29173296 None:intergenic
GTGATGTTGCTGAGTTGAAG+AGG 0.653205 5.3:-29172941 MS.gene045634:CDS
GAGATGTTGCAGGTTAGTGA+TGG 0.656683 5.3:-29172828 MS.gene045634:CDS
AGGTTTCGAATATGGTTGTG+AGG 0.659704 5.3:-29173040 MS.gene045634:CDS
AAGCTAAAAGAGAAATACTG+AGG 0.664066 5.3:+29172915 None:intergenic
TGAGAAGAAAATCAAGAAGG+GGG 0.672373 5.3:+29173297 None:intergenic
TGGAAGGGAGGATTAAGCGG+AGG 0.683228 5.3:-29172893 MS.gene045634:CDS
ACACTAAAAGTCAATAACCC+AGG 0.692067 5.3:+29173014 None:intergenic
ATATGGTTGTGAGGTCACCT+GGG 0.703831 5.3:-29173031 MS.gene045634:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATGTTGAAAAATCAATCTTG+CGG - chr5.3:29172882-29172901 MS.gene045634:CDS 25.0%
! ATTGAGAAGAAAATCAAGAA+GGG + chr5.3:29172840-29172859 None:intergenic 25.0%
! TTCACGAAAAACTCAAATTT+AGG + chr5.3:29173160-29173179 None:intergenic 25.0%
!! TTTTAGTGTGGATAAGAATT+TGG - chr5.3:29173132-29173151 MS.gene045634:CDS 25.0%
!!! AGATTGATTTTTCAACATCA+TGG + chr5.3:29172880-29172899 None:intergenic 25.0%
AAAACTCAACTTTAGGCAAA+AGG + chr5.3:29173045-29173064 None:intergenic 30.0%
AAACTCAACTTTAGGCAAAA+GGG + chr5.3:29173044-29173063 None:intergenic 30.0%
AAGCTAAAAGAGAAATACTG+AGG + chr5.3:29173220-29173239 None:intergenic 30.0%
CATTGAGAAGAAAATCAAGA+AGG + chr5.3:29172841-29172860 None:intergenic 30.0%
TTGAGAAGAAAATCAAGAAG+GGG + chr5.3:29172839-29172858 None:intergenic 30.0%
! CCTAAAGTTGAGTTTTTGAT+GGG - chr5.3:29173049-29173068 MS.gene045634:CDS 30.0%
! TCTTGATTTTCTTCTCAATG+AGG - chr5.3:29172841-29172860 MS.gene045634:CDS 30.0%
! TTTTTCGTGAAAGAGATGAA+TGG - chr5.3:29173169-29173188 MS.gene045634:CDS 30.0%
!! GATTTTTCAACATCATGGTA+AGG + chr5.3:29172875-29172894 None:intergenic 30.0%
!! TCAGTATTTCTCTTTTAGCT+TGG - chr5.3:29173219-29173238 MS.gene045634:CDS 30.0%
!!! ATTTCTCTTTTAGCTTGGAA+GGG - chr5.3:29173224-29173243 MS.gene045634:CDS 30.0%
!!! TATTTCTCTTTTAGCTTGGA+AGG - chr5.3:29173223-29173242 MS.gene045634:CDS 30.0%
!!! TGTGTTTTTTGAGGGAATTA+GGG - chr5.3:29172954-29172973 MS.gene045634:CDS 30.0%
ACACTAAAAGTCAATAACCC+AGG + chr5.3:29173121-29173140 None:intergenic 35.0%
ACACTACTAACCAACAATCT+AGG + chr5.3:29172911-29172930 None:intergenic 35.0%
CCCATCAAAAACTCAACTTT+AGG + chr5.3:29173052-29173071 None:intergenic 35.0%
TGAGAAGAAAATCAAGAAGG+GGG + chr5.3:29172838-29172857 None:intergenic 35.0%
! ATTCTAGGTTGCTTGATTTG+CGG - chr5.3:29173335-29173354 MS.gene045634:CDS 35.0%
! GCCTAAAGTTGAGTTTTTGA+TGG - chr5.3:29173048-29173067 MS.gene045634:CDS 35.0%
!!! AGTTGAGTTTTTGATGGGTT+TGG - chr5.3:29173054-29173073 MS.gene045634:CDS 35.0%
!!! CTGTGTTTTTTGAGGGAATT+AGG - chr5.3:29172953-29172972 MS.gene045634:CDS 35.0%
!!! GTTGAGTTTTTGATGGGTTT+GGG - chr5.3:29173055-29173074 MS.gene045634:CDS 35.0%
!!! TGGGTTATTGACTTTTAGTG+TGG - chr5.3:29173120-29173139 MS.gene045634:CDS 35.0%
!!! TTGAGTTTTTGATGGGTTTG+GGG - chr5.3:29173056-29173075 MS.gene045634:CDS 35.0%
AAACCAAAAGCAATGTCGTC+TGG + chr5.3:29173006-29173025 None:intergenic 40.0%
AGGTTTCGAATATGGTTGTG+AGG - chr5.3:29173092-29173111 MS.gene045634:CDS 40.0%
TTGAGGGAATTAGGGTTTGT+TGG - chr5.3:29172962-29172981 MS.gene045634:CDS 40.0%
TTGCGGTTAAAGGAACTTGA+GGG - chr5.3:29173352-29173371 MS.gene045634:CDS 40.0%
TTTGCGGTTAAAGGAACTTG+AGG - chr5.3:29173351-29173370 MS.gene045634:CDS 40.0%
! TGAGGGAATTAGGGTTTGTT+GGG - chr5.3:29172963-29172982 MS.gene045634:CDS 40.0%
!! GTTGCTTGATTTGCGGTTAA+AGG - chr5.3:29173342-29173361 MS.gene045634:CDS 40.0%
!!! ACCTGCTCTGTGTTTTTTGA+GGG - chr5.3:29172946-29172965 MS.gene045634:CDS 40.0%
!!! GTGATGGTGGTTTTGATTCT+AGG - chr5.3:29173320-29173339 MS.gene045634:CDS 40.0%
AATATGGTTGTGAGGTCACC+TGG - chr5.3:29173100-29173119 MS.gene045634:CDS 45.0%
ACCTGCAACATCTCTTGCAA+AGG + chr5.3:29173298-29173317 None:intergenic 45.0%
ACGTGTGGAGGTTTCGAATA+TGG - chr5.3:29173084-29173103 MS.gene045634:CDS 45.0%
AGGGGGTAAATATCACTGTG+TGG + chr5.3:29172821-29172840 None:intergenic 45.0%
ATATGGTTGTGAGGTCACCT+GGG - chr5.3:29173101-29173120 MS.gene045634:CDS 45.0%
ATGTTGCAGGTTAGTGATGG+TGG - chr5.3:29173307-29173326 MS.gene045634:CDS 45.0%
GAGATGTTGCAGGTTAGTGA+TGG - chr5.3:29173304-29173323 MS.gene045634:CDS 45.0%
TCCCTCAAAAAACACAGAGC+AGG + chr5.3:29172950-29172969 None:intergenic 45.0%
TCCTTTGCAAGAGATGTTGC+AGG - chr5.3:29173294-29173313 MS.gene045634:CDS 45.0%
! GTGATGTTGCTGAGTTGAAG+AGG - chr5.3:29173191-29173210 MS.gene045634:CDS 45.0%
!!! GACCTGCTCTGTGTTTTTTG+AGG - chr5.3:29172945-29172964 MS.gene045634:CDS 45.0%
!!! GCTTTTGGTTTCGAGTGTTG+AGG - chr5.3:29173015-29173034 MS.gene045634:CDS 45.0%
!!! TCTCTTTTAGCTTGGAAGGG+AGG - chr5.3:29173227-29173246 MS.gene045634:CDS 45.0%
CTTGCGGTGTCCTAGATTGT+TGG - chr5.3:29172898-29172917 MS.gene045634:CDS 50.0%
GCTTGGAAGGGAGGATTAAG+CGG - chr5.3:29173236-29173255 MS.gene045634:CDS 50.0%
GGTTCACACGTGAGAAGTTC+AGG + chr5.3:29172800-29172819 None:intergenic 50.0%
! GTGCCAGACGACATTGCTTT+TGG - chr5.3:29173000-29173019 MS.gene045634:CDS 50.0%
TGGAAGGGAGGATTAAGCGG+AGG - chr5.3:29173239-29173258 MS.gene045634:CDS 55.0%
! TTTGGGGTTCACACGTGTGG+AGG - chr5.3:29173072-29173091 MS.gene045634:CDS 55.0%
CGTCTGGCACGTGAGAGAGT+GGG + chr5.3:29172990-29173009 None:intergenic 60.0%
GTCTGGCACGTGAGAGAGTG+GGG + chr5.3:29172989-29173008 None:intergenic 60.0%
TCGTCTGGCACGTGAGAGAG+TGG + chr5.3:29172991-29173010 None:intergenic 60.0%
! GGAGGCACGCGATGTTGGTT+CGG - chr5.3:29173257-29173276 MS.gene045634:CDS 60.0%
! GGGTTTGGGGTTCACACGTG+TGG - chr5.3:29173069-29173088 MS.gene045634:CDS 60.0%
! TAAGCGGAGGCACGCGATGT+TGG - chr5.3:29173252-29173271 MS.gene045634:CDS 60.0%
!! CACGCGATGTTGGTTCGGCT+TGG - chr5.3:29173262-29173281 MS.gene045634:CDS 60.0%


Chromosome Type Strat End Strand Name
chr5.3 gene 29172773 29173381 29172773 ID=MS.gene045634
chr5.3 mRNA 29172773 29173381 29172773 ID=MS.gene045634.t1;Parent=MS.gene045634
chr5.3 exon 29172773 29173381 29172773 ID=MS.gene045634.t1.exon1;Parent=MS.gene045634.t1
chr5.3 CDS 29172773 29173381 29172773 ID=cds.MS.gene045634.t1;Parent=MS.gene045634.t1
Gene Sequence

>MS.gene045634

ATGGGTCGAATTCTTGATATGCTTCCTGAACTTCTCACGTGTGAACCACACAGTGATATTTACCCCCTTCTTGATTTTCTTCTCAATGAGGTTGAAATTCCTTACCATGATGTTGAAAAATCAATCTTGCGGTGTCCTAGATTGTTGGTTAGTAGTGTAGAGAATCGATTGAGACCTGCTCTGTGTTTTTTGAGGGAATTAGGGTTTGTTGGGCCCCACTCTCTCACGTGCCAGACGACATTGCTTTTGGTTTCGAGTGTTGAGGATACCCTTTTGCCTAAAGTTGAGTTTTTGATGGGTTTGGGGTTCACACGTGTGGAGGTTTCGAATATGGTTGTGAGGTCACCTGGGTTATTGACTTTTAGTGTGGATAAGAATTTGGCTCCTAAATTTGAGTTTTTCGTGAAAGAGATGAATGGTGATGTTGCTGAGTTGAAGAGGTATCCTCAGTATTTCTCTTTTAGCTTGGAAGGGAGGATTAAGCGGAGGCACGCGATGTTGGTTCGGCTTGGATTGTCGCTTCCTTTGCAAGAGATGTTGCAGGTTAGTGATGGTGGTTTTGATTCTAGGTTGCTTGATTTGCGGTTAAAGGAACTTGAGGGAATATAA
Protein sequence

>MS.gene045634.t1

MGRILDMLPELLTCEPHSDIYPLLDFLLNEVEIPYHDVEKSILRCPRLLVSSVENRLRPALCFLRELGFVGPHSLTCQTTLLLVSSVEDTLLPKVEFLMGLGFTRVEVSNMVVRSPGLLTFSVDKNLAPKFEFFVKEMNGDVAELKRYPQYFSFSLEGRIKRRHAMLVRLGLSLPLQEMLQVSDGGFDSRLLDLRLKELEGI