AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene62130

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene62130.t1 MTR_0009s0230 93.782 193 11 1 2 194 117 308 1.66e-134 379
MS.gene62130.t1 MTR_0009s0230 95.699 186 8 0 9 194 122 307 1.58e-133 376
MS.gene62130.t1 MTR_8g066040 67.805 205 49 1 7 194 125 329 2.58e-105 306
MS.gene62130.t1 MTR_4g007070 51.323 189 86 1 3 185 136 324 7.18e-73 224
MS.gene62130.t1 MTR_4g130880 52.809 178 84 0 11 188 161 338 8.02e-72 222
MS.gene62130.t1 MTR_2g063510 49.171 181 90 1 7 187 210 388 2.07e-66 208
MS.gene62130.t1 MTR_3g111690 46.629 178 94 1 7 183 137 314 1.82e-61 194
MS.gene62130.t1 MTR_8g447000 44.199 181 99 1 7 187 204 382 3.56e-61 195
MS.gene62130.t1 MTR_4g130880 45.161 93 51 0 11 103 161 253 1.86e-25 99.4
MS.gene62130.t1 MTR_2g063510 41.121 107 60 2 7 113 210 313 2.17e-21 89.7
MS.gene62130.t1 MTR_8g447000 38.776 98 58 1 7 104 204 299 4.89e-19 83.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene62130.t1 AT1G13635 65.426 188 65 0 7 194 124 311 3.63e-97 284
MS.gene62130.t1 AT1G13635 65.426 188 65 0 7 194 124 311 3.63e-97 284
MS.gene62130.t1 AT5G57970 49.727 183 92 0 7 189 163 345 6.26e-71 219
MS.gene62130.t1 AT5G57970 49.727 183 92 0 7 189 163 345 6.26e-71 219
MS.gene62130.t1 AT1G75090 48.387 186 96 0 7 192 128 313 4.32e-68 211
MS.gene62130.t1 AT1G15970 50.000 182 91 0 7 188 154 335 3.97e-67 209
MS.gene62130.t1 AT1G15970 50.000 182 91 0 7 188 154 335 3.97e-67 209
MS.gene62130.t1 AT1G80850 49.457 184 89 2 7 188 143 324 6.57e-65 203
MS.gene62130.t1 AT5G44680 44.505 182 99 1 6 187 172 351 9.64e-62 196
MS.gene62130.t1 AT3G12710 43.784 185 102 1 6 190 130 312 1.05e-59 189

Find 34 sgRNAs with CRISPR-Local

Find 65 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGCGCGGCTTTAGATATT+TGG 0.131071 5.2:-40858325 MS.gene62130:CDS
GACTTCCTTCTCCTCCATTT+TGG 0.156245 5.2:+40858971 None:intergenic
TCCTTACATTGTTTCCAAAA+TGG 0.227659 5.2:-40858985 MS.gene62130:CDS
TTGCTTATGGCATCTGCTTT+TGG 0.249904 5.2:+40858357 None:intergenic
CTTTAATAAGTCCTTGCTTA+TGG 0.266645 5.2:+40858344 None:intergenic
CTACAGATTAGGAGGGAATA+TGG 0.275504 5.2:-40858468 MS.gene62130:intron
ATCATCTTGTTGGTTGTTAT+AGG 0.295068 5.2:-40858254 MS.gene62130:CDS
ATTCAAGAGATGTTCCATTA+AGG 0.327044 5.2:-40858383 MS.gene62130:CDS
GATCATTCAGTAGCTATATA+TGG 0.347532 5.2:-40858446 MS.gene62130:CDS
AGAATTTCATGACGAGTGTT+GGG 0.361762 5.2:-40859530 MS.gene62130:CDS
GTTCGAGCTGCTTGCATTGT+CGG 0.373218 5.2:-40859178 MS.gene62130:CDS
TTCGAGCTGCTTGCATTGTC+GGG 0.378913 5.2:-40859177 MS.gene62130:CDS
ACTTACCTTCATCATGCATT+TGG 0.389358 5.2:+40858881 None:intergenic
AAGCGCGGCTTTAGATATTT+GGG 0.391567 5.2:-40858324 MS.gene62130:CDS
TTGACTATTGATCATCTTGT+TGG 0.439859 5.2:-40858264 MS.gene62130:CDS
GATTGCTGATAGATTACAAC+TGG 0.448023 5.2:-40859155 MS.gene62130:CDS
TATCTGTATTTGTTAATCAC+TGG 0.455747 5.2:+40858405 None:intergenic
TAGAATTTCATGACGAGTGT+TGG 0.462863 5.2:-40859531 MS.gene62130:CDS
AGAAGTAAGAAATGATAAAG+AGG 0.476321 5.2:-40859576 None:intergenic
GTCAATTAAATATGTTTCCA+AGG 0.488711 5.2:+40858201 None:intergenic
TCTTACTTGTCATCATAAGC+TGG 0.505298 5.2:+40859502 None:intergenic
AAAGAGGTATTGTGCAGATA+AGG 0.507731 5.2:-40859560 MS.gene62130:CDS
GTTTCCAAGGTCTTTCTGCT+AGG 0.511031 5.2:+40858214 None:intergenic
TGTTTCCAAAATGGAGGAGA+AGG 0.517813 5.2:-40858976 MS.gene62130:CDS
TATACCTAGCAGAAAGACCT+TGG 0.535586 5.2:-40858218 MS.gene62130:CDS
ATAAAAGAGTAAACAATCAC+TGG 0.557073 5.2:+40858300 None:intergenic
TTACATTGTTTCCAAAATGG+AGG 0.563021 5.2:-40858982 MS.gene62130:CDS
AATGGAGGAGAAGGAAGTCA+TGG 0.577176 5.2:-40858967 MS.gene62130:CDS
GAATTTCATGACGAGTGTTG+GGG 0.593604 5.2:-40859529 MS.gene62130:CDS
TTCAGCTAAAACAAGTTCTG+TGG 0.614788 5.2:+40858932 None:intergenic
ATGCAGAGTTCAGTGCATAG+TGG 0.617607 5.2:-40858910 MS.gene62130:CDS
AGCAAGGACTTATTAAAGCG+CGG 0.619308 5.2:-40858339 MS.gene62130:CDS
CAATGCCAAATGCATGATGA+AGG 0.621689 5.2:-40858886 MS.gene62130:intron
AAAAGCAGATGCCATAAGCA+AGG 0.629423 5.2:-40858355 MS.gene62130:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATTAAGTCAACAAAAATG+TGG + chr5.2:40858944-40858963 None:intergenic 20.0%
!! AAGAAAATAAATCGTCAATA+AGG + chr5.2:40859280-40859299 None:intergenic 20.0%
!! AATGATAACAAAGATAACAA+CGG + chr5.2:40858981-40859000 None:intergenic 20.0%
!! AGAAAATAAATCGTCAATAA+GGG + chr5.2:40859279-40859298 None:intergenic 20.0%
!!! ATTTTCTTTTTCTACAGATT+AGG - chr5.2:40859292-40859311 MS.gene62130:intron 20.0%
!!! CAAATAAATGTTGTTTTTGA+AGG + chr5.2:40858327-40858346 None:intergenic 20.0%
!!! TTTTGTTGACTTAATTTCTT+TGG - chr5.2:40858947-40858966 MS.gene62130:CDS 20.0%
! ATAAAAGAGTAAACAATCAC+TGG + chr5.2:40859474-40859493 None:intergenic 25.0%
! GTGATAGAAAGAATATTCAA+GGG + chr5.2:40859165-40859184 None:intergenic 25.0%
! TAAAAAGAAAGGAAGTTCTA+AGG - chr5.2:40858649-40858668 MS.gene62130:intron 25.0%
! TGTGATAGAAAGAATATTCA+AGG + chr5.2:40859166-40859185 None:intergenic 25.0%
!! AAACAATGACAACAATCTTT+TGG + chr5.2:40859113-40859132 None:intergenic 25.0%
!! GACAGAAATTCTAAAAAGAA+AGG - chr5.2:40858638-40858657 MS.gene62130:intron 25.0%
!! TATCTGTATTTGTTAATCAC+TGG + chr5.2:40859369-40859388 None:intergenic 25.0%
!!! ATGTTGTTTTTGAAGGAAAA+AGG + chr5.2:40858320-40858339 None:intergenic 25.0%
!!! GACGGTTCATATTTTAAATT+CGG - chr5.2:40858396-40858415 MS.gene62130:CDS 25.0%
ACAGTTGGATAAAAATGAGA+CGG - chr5.2:40858378-40858397 MS.gene62130:CDS 30.0%
AGAAAGAATATTCAAGGGAA+GGG + chr5.2:40859160-40859179 None:intergenic 30.0%
ATTCAAGAGATGTTCCATTA+AGG - chr5.2:40859388-40859407 MS.gene62130:intron 30.0%
CTTTAATAAGTCCTTGCTTA+TGG + chr5.2:40859430-40859449 None:intergenic 30.0%
GAAATTACTCTATAGTGACT+TGG - chr5.2:40858484-40858503 MS.gene62130:intron 30.0%
GATCATTCAGTAGCTATATA+TGG - chr5.2:40859325-40859344 MS.gene62130:intron 30.0%
TAGAAAGAATATTCAAGGGA+AGG + chr5.2:40859161-40859180 None:intergenic 30.0%
TCCTTACATTGTTTCCAAAA+TGG - chr5.2:40858786-40858805 MS.gene62130:intron 30.0%
TTACATTGTTTCCAAAATGG+AGG - chr5.2:40858789-40858808 MS.gene62130:intron 30.0%
TTGACTATTGATCATCTTGT+TGG - chr5.2:40859507-40859526 MS.gene62130:intron 30.0%
! ATCATCTTGTTGGTTGTTAT+AGG - chr5.2:40859517-40859536 MS.gene62130:CDS 30.0%
! TCTTTTTCTACAGATTAGGA+GGG - chr5.2:40859296-40859315 MS.gene62130:intron 30.0%
! TTCTTTTTCTACAGATTAGG+AGG - chr5.2:40859295-40859314 MS.gene62130:intron 30.0%
!! GTTCAAGAAATTTAGCTTGT+TGG + chr5.2:40858557-40858576 None:intergenic 30.0%
!! TCCATTTTGGAAACAATGTA+AGG + chr5.2:40858790-40858809 None:intergenic 30.0%
ACTTACCTTCATCATGCATT+TGG + chr5.2:40858893-40858912 None:intergenic 35.0%
AGAATTTCATGACGAGTGTT+GGG - chr5.2:40858241-40858260 MS.gene62130:CDS 35.0%
GATTGCTGATAGATTACAAC+TGG - chr5.2:40858616-40858635 MS.gene62130:intron 35.0%
GGAAAATGCATACGAACATA+TGG + chr5.2:40858536-40858555 None:intergenic 35.0%
GTAATTTCTATCAGAGCTGT+TGG + chr5.2:40858472-40858491 None:intergenic 35.0%
TAGAATTTCATGACGAGTGT+TGG - chr5.2:40858240-40858259 MS.gene62130:CDS 35.0%
TCTTACTTGTCATCATAAGC+TGG + chr5.2:40858272-40858291 None:intergenic 35.0%
TGCATACGAACATATGGAAA+TGG + chr5.2:40858530-40858549 None:intergenic 35.0%
TTCAGCTAAAACAAGTTCTG+TGG + chr5.2:40858842-40858861 None:intergenic 35.0%
!! AAAGAGGTATTGTGCAGATA+AGG - chr5.2:40858211-40858230 MS.gene62130:CDS 35.0%
!!! TAGTGACTTGGTATTTTGAC+CGG - chr5.2:40858496-40858515 MS.gene62130:intron 35.0%
AAAAGCAGATGCCATAAGCA+AGG - chr5.2:40859416-40859435 MS.gene62130:intron 40.0%
AGCAAGGACTTATTAAAGCG+CGG - chr5.2:40859432-40859451 MS.gene62130:intron 40.0%
AGTCAATATGTCAGCACAGT+TGG - chr5.2:40858363-40858382 MS.gene62130:CDS 40.0%
CAATGCCAAATGCATGATGA+AGG - chr5.2:40858885-40858904 MS.gene62130:intron 40.0%
CTACAGATTAGGAGGGAATA+TGG - chr5.2:40859303-40859322 MS.gene62130:intron 40.0%
TATACCTAGCAGAAAGACCT+TGG - chr5.2:40859553-40859572 MS.gene62130:CDS 40.0%
TATTCAAGGGAAGGGAGATT+AGG + chr5.2:40859152-40859171 None:intergenic 40.0%
TGTTTCCAAAATGGAGGAGA+AGG - chr5.2:40858795-40858814 MS.gene62130:intron 40.0%
! GAATTTCATGACGAGTGTTG+GGG - chr5.2:40858242-40858261 MS.gene62130:CDS 40.0%
! TACTCTTTTATGCAAGCTGC+AGG - chr5.2:40859483-40859502 MS.gene62130:intron 40.0%
! TATGGAAATGGATTCCGTTC+CGG + chr5.2:40858518-40858537 None:intergenic 40.0%
! TTGCTTATGGCATCTGCTTT+TGG + chr5.2:40859417-40859436 None:intergenic 40.0%
!! AAAGCGCGGCTTTAGATATT+TGG - chr5.2:40859446-40859465 MS.gene62130:intron 40.0%
!! AAGCGCGGCTTTAGATATTT+GGG - chr5.2:40859447-40859466 MS.gene62130:intron 40.0%
!!! ACTTGGTATTTTGACCGGAA+CGG - chr5.2:40858501-40858520 MS.gene62130:intron 40.0%
!!! TCTGCTTTTGGTGTCCTTAA+TGG + chr5.2:40859405-40859424 None:intergenic 40.0%
AATGGAGGAGAAGGAAGTCA+TGG - chr5.2:40858804-40858823 MS.gene62130:intron 45.0%
ATGCAGAGTTCAGTGCATAG+TGG - chr5.2:40858861-40858880 MS.gene62130:intron 45.0%
GTTTCCAAGGTCTTTCTGCT+AGG + chr5.2:40859560-40859579 None:intergenic 45.0%
! GACTTCCTTCTCCTCCATTT+TGG + chr5.2:40858803-40858822 None:intergenic 45.0%
! TGACGCAGACAAGTTTTTGC+TGG - chr5.2:40858757-40858776 MS.gene62130:intron 45.0%
GTTCGAGCTGCTTGCATTGT+CGG - chr5.2:40858593-40858612 MS.gene62130:intron 50.0%
TTCGAGCTGCTTGCATTGTC+GGG - chr5.2:40858594-40858613 MS.gene62130:intron 50.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 40858206 40859587 40858206 ID=MS.gene62130
chr5.2 mRNA 40858206 40859587 40858206 ID=MS.gene62130.t1;Parent=MS.gene62130
chr5.2 exon 40859508 40859587 40859508 ID=MS.gene62130.t1.exon1;Parent=MS.gene62130.t1
chr5.2 CDS 40859508 40859587 40859508 ID=cds.MS.gene62130.t1;Parent=MS.gene62130.t1
chr5.2 exon 40859123 40859206 40859123 ID=MS.gene62130.t1.exon2;Parent=MS.gene62130.t1
chr5.2 CDS 40859123 40859206 40859123 ID=cds.MS.gene62130.t1;Parent=MS.gene62130.t1
chr5.2 exon 40858887 40859028 40858887 ID=MS.gene62130.t1.exon3;Parent=MS.gene62130.t1
chr5.2 CDS 40858887 40859028 40858887 ID=cds.MS.gene62130.t1;Parent=MS.gene62130.t1
chr5.2 exon 40858206 40858484 40858206 ID=MS.gene62130.t1.exon4;Parent=MS.gene62130.t1
chr5.2 CDS 40858206 40858484 40858206 ID=cds.MS.gene62130.t1;Parent=MS.gene62130.t1
Gene Sequence

>MS.gene62130

ATGATAAAGAGGTATTGTGCAGATAAGGCATACATAGAATTTCATGACGAGTGTTGGGGAGTTCCAGCTTATGATGACAAGTAAGAATTGTTCAATATGTTACAGTTTTCTCCTTTTTCCTTCAAAAACAACATTTATTTGCATGTGCATTCACTATAGTCAATATGTCAGCACAGTTGGATAAAAATGAGACGGTTCATATTTTAAATTCGGTAAACTAGATTTAGAAAGCAACTTGAAATGTGAGATACTCAATCTTTTATCCAACAGCTCTGATAGAAATTACTCTATAGTGACTTGGTATTTTGACCGGAACGGAATCCATTTCCATATGTTCGTATGCATTTTCCAACAAGCTAAATTTCTTGAACACTGAGACAGAAAACTGTTCGAGCTGCTTGCATTGTCGGGATTGCTGATAGATTACAACTGGACAGAAATTCTAAAAAGAAAGGAAGTTCTAAGGTAAAATTCGTTATGCTGCAAAAAAATTCTATATGCATGTTTGTTTCGTTCGAAATTACATTAACATGTTTTTATAATTTTGTTCTTGACGCAGACAAGTTTTTGCTGGATTTGATCCTTACATTGTTTCCAAAATGGAGGAGAAGGAAGTCATGGAGATAGCATCAACCACAGAACTTGTTTTAGCTGAATGCAGAGTTCAGTGCATAGTGGACAATGCCAAATGCATGATGAAGGTAAGTACAGAACATATATTTAATGTTTATATATCCACATTTTTGTTGACTTAATTTCTTTGGATAAAGAACCGTTGTTATCTTTGTTATCATTTTCAACTCAAGAAATAATCATAAGAAAACATATATATCAAATATTTTTACACTATTTTCTTTTACAATTTTCAAAAATAGATTTGACATTTTCAGAAATTCTGAAAATACCAAAAGATTGTTGTCATTGTTTCTAAATATGTATTCTTCCTAATCTCCCTTCCCTTGAATATTCTTTCTATCACAATTTTTCGCTACACGAGTCAACTATCTTCTTATTAACAATTTAGAACGAACACAAATTTTAGAAAATGAAAACTGAAAACGCTTTTAGAACCCTTATTGACGATTTATTTTCTTTTTCTACAGATTAGGAGGGAATATGGATCATTCAGTAGCTATATATGGAGTTACGTGAATCACAAACCAGTGATTAACAAATACAGATATTCAAGAGATGTTCCATTAAGGACACCAAAAGCAGATGCCATAAGCAAGGACTTATTAAAGCGCGGCTTTAGATATTTGGGTCCAGTGATTGTTTACTCTTTTATGCAAGCTGCAGGATTGACTATTGATCATCTTGTTGGTTGTTATAGGCACAAAGAATGTGTATACCTAGCAGAAAGACCTTGGAAACATATTTAA
Protein sequence

>MS.gene62130.t1

MIKRYCADKAYIEFHDECWGVPAYDDKKLFELLALSGLLIDYNWTEILKRKEVLRQVFAGFDPYIVSKMEEKEVMEIASTTELVLAECRVQCIVDNAKCMMKIRREYGSFSSYIWSYVNHKPVINKYRYSRDVPLRTPKADAISKDLLKRGFRYLGPVIVYSFMQAAGLTIDHLVGCYRHKECVYLAERPWKHI