AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene032522

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene032522.t1 MTR_7g023810 96.175 183 7 0 1 183 1 183 5.15e-131 365
MS.gene032522.t1 MTR_1g115315 60.215 186 52 5 1 165 5 189 1.59e-66 204
MS.gene032522.t1 MTR_1g115315 60.215 186 52 5 1 165 5 189 1.62e-66 204
MS.gene032522.t1 MTR_3g115620 44.503 191 80 4 9 176 7 194 4.18e-45 148
MS.gene032522.t1 MTR_4g084550 33.071 127 73 3 36 150 25 151 1.43e-13 65.9
MS.gene032522.t1 MTR_8g107210 48.387 62 32 0 68 129 96 157 5.47e-13 66.2
MS.gene032522.t1 MTR_2g015000 41.935 62 36 0 66 127 53 114 1.67e-11 62.4
MS.gene032522.t1 MTR_4g088080 43.333 60 34 0 66 125 38 97 5.17e-11 60.5
MS.gene032522.t1 MTR_4g063735 45.161 62 34 0 68 129 25 86 9.56e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene032522.t1 AT4G35550 56.579 152 46 2 17 148 33 184 1.41e-46 154
MS.gene032522.t1 AT1G20700 46.667 150 57 4 15 141 24 173 1.38e-35 124
MS.gene032522.t1 AT1G20700 46.667 150 57 4 15 141 24 173 1.72e-35 124
MS.gene032522.t1 AT1G20710 47.244 127 47 2 21 128 14 139 6.80e-26 98.6
MS.gene032522.t1 AT1G20700 54.321 81 32 1 66 141 31 111 7.09e-23 89.7
MS.gene032522.t1 AT3G18010 37.500 104 58 3 68 164 76 179 4.80e-12 63.5
MS.gene032522.t1 AT2G33880 41.935 62 36 0 66 127 53 114 2.32e-11 61.6
MS.gene032522.t1 AT2G33880 41.935 62 36 0 66 127 53 114 2.45e-11 61.6
MS.gene032522.t1 AT5G45980 41.935 62 36 0 66 127 53 114 6.21e-11 60.5

Find 35 sgRNAs with CRISPR-Local

Find 52 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGAGACCAGTGTGTATAAT+TGG 0.216618 7.2:+75653307 MS.gene032522:CDS
TACTTGCATCATTCCAATAT+TGG 0.240745 7.2:-75652830 None:intergenic
TTTAATCAGAACGCCAATAT+TGG 0.268262 7.2:+75652817 MS.gene032522:CDS
ACCTGTGCAACTGCAAAGTT+TGG 0.336692 7.2:+75653197 MS.gene032522:CDS
TGTATAATTGGTTTCAGAAT+AGG 0.361284 7.2:+75653319 MS.gene032522:CDS
GAGATCTTGTTGAGAAGATA+AGG 0.380614 7.2:-75652944 None:intergenic
TCCTAGTAAGGAAAAGATAA+AGG 0.397905 7.2:+75653248 MS.gene032522:CDS
TACACACTGGTCTCTGAAAT+CGG 0.399480 7.2:-75653300 None:intergenic
TTTGTGCAGCCAGTACTTAG+AGG 0.411680 7.2:+75653464 MS.gene032522:CDS
CTCTGAAATCGGCCCGTGCT+TGG 0.426359 7.2:-75653289 None:intergenic
TCAACCTCAGTCTCTACTTC+CGG 0.438371 7.2:-75653387 None:intergenic
AAATAATGTTAATGATGAAC+CGG 0.459463 7.2:+75653368 MS.gene032522:CDS
GACTGAGATGCAACGATCTC+CGG 0.461176 7.2:-75653432 None:intergenic
CGAATATTTGAAGCTGAGAC+GGG 0.462716 7.2:+75653222 MS.gene032522:CDS
ATGAACAAGTCGAAACTCTT+CGG 0.463263 7.2:+75652866 MS.gene032522:CDS
TCGTAAACTGTCATCTGATT+CGG 0.469903 7.2:-75653496 None:intergenic
TCCAAACTTTGCAGTTGCAC+AGG 0.484501 7.2:-75653198 None:intergenic
CTACTAGGCTGAGGCAGCGT+TGG 0.489931 7.2:+75653166 MS.gene032522:CDS
CAATGATAAGAAAACTGAAC+CGG 0.495461 7.2:+75653413 MS.gene032522:CDS
AAGAGTTTCGACTTGTTCAT+CGG 0.503160 7.2:-75652863 None:intergenic
GGTTTCAGAATAGGCGTGCT+AGG 0.518890 7.2:+75653328 MS.gene032522:CDS
AATTCAAGTCCTCTAAGTAC+TGG 0.519200 7.2:-75653473 None:intergenic
GCGAATATTTGAAGCTGAGA+CGG 0.525730 7.2:+75653221 MS.gene032522:CDS
TGAGACGGGGACTCCTAGTA+AGG 0.526200 7.2:+75653236 MS.gene032522:CDS
CTTTGCAGTTGCACAGGTGT+TGG 0.529341 7.2:-75653192 None:intergenic
GAATAGGCGTGCTAGGTCAA+AGG 0.534265 7.2:+75653335 MS.gene032522:CDS
AATAGGCGTGCTAGGTCAAA+GGG 0.534387 7.2:+75653336 MS.gene032522:CDS
CAACAAGATCTCACTCTCAC+TGG 0.535564 7.2:+75652955 MS.gene032522:CDS
ACCGCTGATTTAACCAAGCA+CGG 0.547494 7.2:+75653276 MS.gene032522:CDS
CCCGTGCTTGGTTAAATCAG+CGG 0.597671 7.2:-75653277 None:intergenic
GAGATGGAGTGGCAGAAGAA+CGG 0.607848 7.2:+75652793 None:intergenic
CCGCTGATTTAACCAAGCAC+GGG 0.638814 7.2:+75653277 MS.gene032522:CDS
CTGAAACCAATTATACACAC+TGG 0.642488 7.2:-75653313 None:intergenic
GAATATTTGAAGCTGAGACG+GGG 0.658394 7.2:+75653223 MS.gene032522:CDS
TGAACCGGAAGTAGAGACTG+AGG 0.698771 7.2:+75653383 MS.gene032522:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AACATTTAATGATGATTTTT+AGG + chr7.2:75653141-75653160 MS.gene032522:intron 15.0%
!!! ACATTTAATGATGATTTTTA+GGG + chr7.2:75653142-75653161 MS.gene032522:intron 15.0%
!! AAATAATGTTAATGATGAAC+CGG + chr7.2:75653368-75653387 MS.gene032522:CDS 20.0%
!! TGTATAATTGGTTTCAGAAT+AGG + chr7.2:75653319-75653338 MS.gene032522:CDS 25.0%
CAATGATAAGAAAACTGAAC+CGG + chr7.2:75653413-75653432 MS.gene032522:CDS 30.0%
TACTTGCATCATTCCAATAT+TGG - chr7.2:75652833-75652852 None:intergenic 30.0%
TCCTAGTAAGGAAAAGATAA+AGG + chr7.2:75653248-75653267 MS.gene032522:CDS 30.0%
TTTAATCAGAACGCCAATAT+TGG + chr7.2:75652817-75652836 MS.gene032522:CDS 30.0%
! TCCTTTATCTTTTCCTTACT+AGG - chr7.2:75653252-75653271 None:intergenic 30.0%
AATTCAAGTCCTCTAAGTAC+TGG - chr7.2:75653476-75653495 None:intergenic 35.0%
ATGAACAAGTCGAAACTCTT+CGG + chr7.2:75652866-75652885 MS.gene032522:CDS 35.0%
CTGAAACCAATTATACACAC+TGG - chr7.2:75653316-75653335 None:intergenic 35.0%
CTTCAGTTACTCATTCTCAA+CGG + chr7.2:75652999-75653018 MS.gene032522:intron 35.0%
GAGATCTTGTTGAGAAGATA+AGG - chr7.2:75652947-75652966 None:intergenic 35.0%
TAATGAACCGGTCTTTAGTA+CGG + chr7.2:75653056-75653075 MS.gene032522:intron 35.0%
TCGTAAACTGTCATCTGATT+CGG - chr7.2:75653499-75653518 None:intergenic 35.0%
! AAGAGTTTCGACTTGTTCAT+CGG - chr7.2:75652866-75652885 None:intergenic 35.0%
! ACCGGTTCATTATATTGAAC+CGG - chr7.2:75653048-75653067 None:intergenic 35.0%
! CGGTTCAGTTTTCTTATCAT+TGG - chr7.2:75653415-75653434 None:intergenic 35.0%
!!! GATGATTTTTAGGGTCTACT+AGG + chr7.2:75653151-75653170 MS.gene032522:intron 35.0%
AACCAAACCGTACTAAAGAC+CGG - chr7.2:75653066-75653085 None:intergenic 40.0%
CAGAGACCAGTGTGTATAAT+TGG + chr7.2:75653307-75653326 MS.gene032522:CDS 40.0%
CCCGGTTCAATATAATGAAC+CGG + chr7.2:75653044-75653063 MS.gene032522:intron 40.0%
CCGGTTCATTATATTGAACC+GGG - chr7.2:75653047-75653066 None:intergenic 40.0%
TCAACGGTATCACAGTTAAC+CGG + chr7.2:75653015-75653034 MS.gene032522:intron 40.0%
! CGAATATTTGAAGCTGAGAC+GGG + chr7.2:75653222-75653241 MS.gene032522:CDS 40.0%
! GAATATTTGAAGCTGAGACG+GGG + chr7.2:75653223-75653242 MS.gene032522:CDS 40.0%
! GCGAATATTTGAAGCTGAGA+CGG + chr7.2:75653221-75653240 MS.gene032522:CDS 40.0%
!! TACACACTGGTCTCTGAAAT+CGG - chr7.2:75653303-75653322 None:intergenic 40.0%
AACCGGTCTTTAGTACGGTT+TGG + chr7.2:75653061-75653080 MS.gene032522:intron 45.0%
AATAGGCGTGCTAGGTCAAA+GGG + chr7.2:75653336-75653355 MS.gene032522:CDS 45.0%
ACCTGTGCAACTGCAAAGTT+TGG + chr7.2:75653197-75653216 MS.gene032522:CDS 45.0%
CAACAAGATCTCACTCTCAC+TGG + chr7.2:75652955-75652974 MS.gene032522:CDS 45.0%
CAACGGTATCACAGTTAACC+GGG + chr7.2:75653016-75653035 MS.gene032522:intron 45.0%
TCAACCTCAGTCTCTACTTC+CGG - chr7.2:75653390-75653409 None:intergenic 45.0%
TCCAAACTTTGCAGTTGCAC+AGG - chr7.2:75653201-75653220 None:intergenic 45.0%
TTTGTGCAGCCAGTACTTAG+AGG + chr7.2:75653464-75653483 MS.gene032522:CDS 45.0%
!! ACCGCTGATTTAACCAAGCA+CGG + chr7.2:75653276-75653295 MS.gene032522:CDS 45.0%
!!! TTTTAGGGTCTACTAGGCTG+AGG + chr7.2:75653157-75653176 MS.gene032522:intron 45.0%
CCCGTGCTTGGTTAAATCAG+CGG - chr7.2:75653280-75653299 None:intergenic 50.0%
CTTTGCAGTTGCACAGGTGT+TGG - chr7.2:75653195-75653214 None:intergenic 50.0%
GAATAGGCGTGCTAGGTCAA+AGG + chr7.2:75653335-75653354 MS.gene032522:CDS 50.0%
GACTGAGATGCAACGATCTC+CGG - chr7.2:75653435-75653454 None:intergenic 50.0%
GGTTTCAGAATAGGCGTGCT+AGG + chr7.2:75653328-75653347 MS.gene032522:CDS 50.0%
TGAACCGGAAGTAGAGACTG+AGG + chr7.2:75653383-75653402 MS.gene032522:CDS 50.0%
!! CCGCTGATTTAACCAAGCAC+GGG + chr7.2:75653277-75653296 MS.gene032522:CDS 50.0%
ATATTGAACCGGGCTCCACC+CGG - chr7.2:75653037-75653056 None:intergenic 55.0%
CGGTATCACAGTTAACCGGG+TGG + chr7.2:75653019-75653038 MS.gene032522:intron 55.0%
TGAGACGGGGACTCCTAGTA+AGG + chr7.2:75653236-75653255 MS.gene032522:CDS 55.0%
ACAGTTAACCGGGTGGAGCC+CGG + chr7.2:75653026-75653045 MS.gene032522:intron 60.0%
CTACTAGGCTGAGGCAGCGT+TGG + chr7.2:75653166-75653185 MS.gene032522:CDS 60.0%
!! CTCTGAAATCGGCCCGTGCT+TGG - chr7.2:75653292-75653311 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 75652796 75653533 75652796 ID=MS.gene032522
chr7.2 mRNA 75652796 75653533 75652796 ID=MS.gene032522.t1;Parent=MS.gene032522
chr7.2 exon 75652796 75652976 75652796 ID=MS.gene032522.t1.exon1;Parent=MS.gene032522.t1
chr7.2 CDS 75652796 75652976 75652796 ID=cds.MS.gene032522.t1;Parent=MS.gene032522.t1
chr7.2 exon 75653163 75653533 75653163 ID=MS.gene032522.t1.exon2;Parent=MS.gene032522.t1
chr7.2 CDS 75653163 75653533 75653163 ID=cds.MS.gene032522.t1;Parent=MS.gene032522.t1
Gene Sequence

>MS.gene032522

ATGGAGTGGCAGAAGAACGGTTTTAATCAGAACGCCAATATTGGAATGATGCAAGTAAATGTGATGACCGATGAACAAGTCGAAACTCTTCGGAAACAAATCGCAGTTTATTCTGTACTCTCTGAACAACTCATTCAAACGCATAAAACCTTATCTTCTCAACAAGATCTCACTCTCACTGGTAAATTTGTTACAGTTTCGTACTTCAGTTACTCATTCTCAACGGTATCACAGTTAACCGGGTGGAGCCCGGTTCAATATAATGAACCGGTCTTTAGTACGGTTTGGTTATTACGAATTTATTTTAGTTGAATATTATTAAAATAGATTAAATAAATTGTAATCAACATTTAATGATGATTTTTAGGGTCTACTAGGCTGAGGCAGCGTTGGACACCAACACCTGTGCAACTGCAAAGTTTGGAGCGAATATTTGAAGCTGAGACGGGGACTCCTAGTAAGGAAAAGATAAAGGAGATAACCGCTGATTTAACCAAGCACGGGCCGATTTCAGAGACCAGTGTGTATAATTGGTTTCAGAATAGGCGTGCTAGGTCAAAGGGAAAGCAGCAAAATAATGTTAATGATGAACCGGAAGTAGAGACTGAGGTTGATTCCAATGATAAGAAAACTGAACCGGAGATCGTTGCATCTCAGTCTGCTCAAAATTTGTGCAGCCAGTACTTAGAGGACTTGAATTCCGAATCAGATGACAGTTTACGACGCTCTAGAAACTGA
Protein sequence

>MS.gene032522.t1

MEWQKNGFNQNANIGMMQVNVMTDEQVETLRKQIAVYSVLSEQLIQTHKTLSSQQDLTLTGSTRLRQRWTPTPVQLQSLERIFEAETGTPSKEKIKEITADLTKHGPISETSVYNWFQNRRARSKGKQQNNVNDEPEVETEVDSNDKKTEPEIVASQSAQNLCSQYLEDLNSESDDSLRRSRN