AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene026693

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene026693.t1 MTR_1g029100 91.111 90 8 0 46 135 1 90 3.19e-58 176
MS.gene026693.t1 MTR_1g029070 42.254 142 75 2 1 136 1 141 5.57e-30 107
MS.gene026693.t1 MTR_1g039040 37.736 106 56 1 32 137 1 96 4.82e-22 87.4
MS.gene026693.t1 MTR_3g058980 44.048 84 47 0 52 135 32 115 9.87e-22 86.7
MS.gene026693.t1 MTR_1g072790 39.604 101 51 1 52 142 34 134 1.03e-21 86.3
MS.gene026693.t1 MTR_4g133952 40.476 84 50 0 52 135 63 146 1.09e-21 87.8
MS.gene026693.t1 MTR_1g088860 42.857 84 48 0 52 135 41 124 1.35e-21 86.3
MS.gene026693.t1 MTR_4g119500 34.677 124 80 1 29 151 3 126 1.66e-21 84.3
MS.gene026693.t1 MTR_5g095740 44.048 84 47 0 52 135 28 111 2.09e-21 85.9
MS.gene026693.t1 MTR_7g100650 38.462 104 61 1 52 152 31 134 3.12e-21 84.7
MS.gene026693.t1 MTR_7g061270 38.462 104 61 1 52 152 31 134 3.13e-21 84.7
MS.gene026693.t1 MTR_8g091720 44.048 84 47 0 52 135 33 116 4.84e-21 85.1
MS.gene026693.t1 MTR_2g026710 42.857 84 48 0 52 135 22 105 6.97e-21 84.0
MS.gene026693.t1 MTR_4g133938 42.045 88 51 0 48 135 20 107 8.52e-21 82.8
MS.gene026693.t1 MTR_0392s0020 39.286 84 51 0 52 135 23 106 5.28e-20 80.9
MS.gene026693.t1 MTR_8g093920 42.353 85 49 0 52 136 45 129 5.41e-20 82.8
MS.gene026693.t1 MTR_1g083070 36.905 84 53 0 52 135 9 92 2.87e-19 78.6
MS.gene026693.t1 MTR_1g028480 39.286 84 37 1 82 151 24 107 2.16e-15 68.2
MS.gene026693.t1 MTR_5g095900 31.765 85 58 0 52 136 21 105 1.43e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene026693.t1 AT2G38880 42.424 99 54 1 52 147 26 124 8.31e-23 88.2
MS.gene026693.t1 AT3G53340 42.308 104 57 1 52 152 34 137 1.43e-22 88.6
MS.gene026693.t1 AT3G53340 42.308 104 57 1 52 152 34 137 1.43e-22 88.6
MS.gene026693.t1 AT2G38880 41.584 101 54 1 52 147 26 126 1.94e-22 87.0
MS.gene026693.t1 AT2G38880 41.584 101 54 1 52 147 26 126 2.03e-22 87.0
MS.gene026693.t1 AT2G38880 41.584 101 54 1 52 147 26 126 2.03e-22 87.0
MS.gene026693.t1 AT2G38880 41.584 101 54 1 52 147 26 126 2.03e-22 87.0
MS.gene026693.t1 AT2G37060 41.121 107 60 1 52 155 35 141 2.76e-22 87.8
MS.gene026693.t1 AT2G37060 41.121 107 60 1 52 155 35 141 2.76e-22 87.8
MS.gene026693.t1 AT2G37060 41.121 107 60 1 52 155 35 141 2.76e-22 87.8
MS.gene026693.t1 AT4G14540 44.048 84 47 0 52 135 26 109 9.50e-22 85.9
MS.gene026693.t1 AT2G38880 44.048 84 47 0 52 135 26 109 1.28e-21 84.3
MS.gene026693.t1 AT5G47640 43.617 94 50 1 52 142 32 125 3.04e-21 85.5
MS.gene026693.t1 AT2G38880 44.048 84 47 0 52 135 26 109 3.29e-21 84.7
MS.gene026693.t1 AT2G38880 44.048 84 47 0 52 135 26 109 3.29e-21 84.7
MS.gene026693.t1 AT2G38880 44.048 84 47 0 52 135 26 109 1.10e-20 83.2
MS.gene026693.t1 AT2G38880 44.048 84 47 0 52 135 26 109 1.10e-20 83.2
MS.gene026693.t1 AT2G38880 44.048 84 47 0 52 135 26 109 1.10e-20 83.2
MS.gene026693.t1 AT1G21970 33.333 126 82 1 10 135 24 147 1.97e-20 84.3
MS.gene026693.t1 AT2G47810 38.235 102 62 1 35 135 38 139 2.66e-20 82.4
MS.gene026693.t1 AT3G53340 45.238 84 46 0 52 135 34 117 3.16e-20 81.3
MS.gene026693.t1 AT5G47670 38.095 84 52 0 52 135 34 117 1.64e-19 81.3
MS.gene026693.t1 AT5G47670 38.095 84 52 0 52 135 63 146 2.29e-19 81.6
MS.gene026693.t1 AT5G47670 38.095 84 52 0 52 135 63 146 2.29e-19 81.6
MS.gene026693.t1 AT2G13570 42.697 89 50 1 52 140 41 128 4.16e-19 80.5
MS.gene026693.t1 AT3G53340 45.238 84 46 0 52 135 34 117 5.52e-19 78.6
MS.gene026693.t1 AT3G53340 45.238 84 46 0 52 135 34 117 5.52e-19 78.6
MS.gene026693.t1 AT1G09030 34.091 88 58 0 48 135 4 91 6.58e-18 75.5

Find 38 sgRNAs with CRISPR-Local

Find 49 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATGTTCTACATTGGCTTTC+TGG 0.102414 1.2:-15096345 None:intergenic
ATTGTGTGTGTCTAAATTTA+TGG 0.291429 1.2:+15096300 MS.gene026693:CDS
TTTCTGCTGATGATTTACTA+TGG 0.320933 1.2:+15096377 MS.gene026693:CDS
CGCACTTCCTCGCCCATTGC+TGG 0.325679 1.2:-15096190 None:intergenic
GAGGAATTTGTTAGGTCTCT+TGG 0.362755 1.2:+15096421 MS.gene026693:CDS
ATTTACTATGGACGATGAAT+AGG 0.363355 1.2:+15096389 MS.gene026693:CDS
TTAACTTAGGTCATCATCAT+TGG 0.396111 1.2:-15096506 None:intergenic
TGGGCTTTGAGGAATTTGTT+AGG 0.401864 1.2:+15096413 MS.gene026693:CDS
ACTCTTGTCACATGACTGAT+AGG 0.402691 1.2:-15096217 None:intergenic
AGGAATTTGTTAGGTCTCTT+GGG 0.404606 1.2:+15096422 MS.gene026693:CDS
GGCGTTGAATGTTGGTTCTC+AGG 0.412305 1.2:-15096169 None:intergenic
GATGAATAGGTTGGGCTTTG+AGG 0.427694 1.2:+15096402 MS.gene026693:CDS
CTATGGACGATGAATAGGTT+GGG 0.452990 1.2:+15096394 MS.gene026693:CDS
TTCCTTGTGTCGAATTGCTA+TGG 0.461454 1.2:-15095745 None:intergenic
CCATTGCTGGCGTTGAATGT+TGG 0.479555 1.2:-15096177 None:intergenic
ACAGATGGGTTAGGTGCTAC+TGG 0.485763 1.2:+15096472 MS.gene026693:CDS
CAACATTCAACGCCAGCAAT+GGG 0.488805 1.2:+15096178 MS.gene026693:CDS
TCAACACAACCACTTAACTT+AGG 0.497639 1.2:-15096519 None:intergenic
AACTATCGCAACAACACAGA+TGG 0.518608 1.2:+15096457 MS.gene026693:CDS
CGCAACAACACAGATGGGTT+AGG 0.521167 1.2:+15096463 MS.gene026693:CDS
CATTAACTCCTTAGCATCAC+CGG 0.525471 1.2:-15096275 None:intergenic
ACTATGGACGATGAATAGGT+TGG 0.532041 1.2:+15096393 MS.gene026693:CDS
TCACCGGTGATTATTGTGTC+CGG 0.543765 1.2:-15096259 None:intergenic
AATCATTTGATGTTCTACAT+TGG 0.545949 1.2:-15096353 None:intergenic
CCAACATTCAACGCCAGCAA+TGG 0.553260 1.2:+15096177 MS.gene026693:CDS
AATAATCACCGGTGATGCTA+AGG 0.556556 1.2:+15096267 MS.gene026693:CDS
TTCAACGCCAGCAATGGGCG+AGG 0.580192 1.2:+15096183 MS.gene026693:CDS
AATTCGACACAAGGAAACTC+AGG 0.585955 1.2:+15095752 MS.gene026693:CDS
CATGCAGAGTGTTCTTCCAC+CGG 0.588890 1.2:+15096240 MS.gene026693:CDS
ACTATCGCAACAACACAGAT+GGG 0.603988 1.2:+15096458 MS.gene026693:CDS
GAATTGCTATGGTTAGCAGA+GGG 0.608648 1.2:-15095734 None:intergenic
CCGGTGATTATTGTGTCCGG+TGG 0.615417 1.2:-15096256 None:intergenic
AACCATAGCAATTCGACACA+AGG 0.618498 1.2:+15095743 MS.gene026693:CDS
CGAATTGCTATGGTTAGCAG+AGG 0.624127 1.2:-15095735 None:intergenic
CCACCGGACACAATAATCAC+CGG 0.624454 1.2:+15096256 MS.gene026693:CDS
AATTGCTATGGTTAGCAGAG+GGG 0.653798 1.2:-15095733 None:intergenic
TATGGACATAGTCACAAGTG+AGG 0.668100 1.2:+15096318 MS.gene026693:CDS
TTGGTTCTCAGGTCTAACGC+CGG 0.689085 1.2:-15096158 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTAATAATAGATTGTACTAA+AGG + chr1.2:15095919-15095938 MS.gene026693:intron 15.0%
!!! ATGTTTTTGATAGAGATAAA+AGG - chr1.2:15096091-15096110 None:intergenic 20.0%
! AATCATTTGATGTTCTACAT+TGG - chr1.2:15096356-15096375 None:intergenic 25.0%
! ATTAAAAGATTTAGTGCAAG+AGG - chr1.2:15096034-15096053 None:intergenic 25.0%
! ATTGTGTGTGTCTAAATTTA+TGG + chr1.2:15096300-15096319 MS.gene026693:CDS 25.0%
! GATTGATACAAATGAAAAAC+CGG - chr1.2:15095841-15095860 None:intergenic 25.0%
!! ACTCAATCTTTTACAAAGTA+GGG - chr1.2:15095815-15095834 None:intergenic 25.0%
ATTTACTATGGACGATGAAT+AGG + chr1.2:15096389-15096408 MS.gene026693:CDS 30.0%
TTAACTTAGGTCATCATCAT+TGG - chr1.2:15096509-15096528 None:intergenic 30.0%
TTTCTGCTGATGATTTACTA+TGG + chr1.2:15096377-15096396 MS.gene026693:CDS 30.0%
! CACTCAATCTTTTACAAAGT+AGG - chr1.2:15095816-15095835 None:intergenic 30.0%
AACAACAACAACAACATTGC+CGG + chr1.2:15096139-15096158 MS.gene026693:CDS 35.0%
TTGTAAAAGATTGAGTGTGC+CGG + chr1.2:15095819-15095838 MS.gene026693:intron 35.0%
! GTTGTTGTTGTTGTTGTTGT+TGG - chr1.2:15096134-15096153 None:intergenic 35.0%
! TGTTGTTGCGATAGTTTTTG+AGG - chr1.2:15096453-15096472 None:intergenic 35.0%
!! AGGAATTTGTTAGGTCTCTT+GGG + chr1.2:15096422-15096441 MS.gene026693:CDS 35.0%
AACCATAGCAATTCGACACA+AGG + chr1.2:15095743-15095762 MS.gene026693:CDS 40.0%
AACTATCGCAACAACACAGA+TGG + chr1.2:15096457-15096476 MS.gene026693:CDS 40.0%
AATAATCACCGGTGATGCTA+AGG + chr1.2:15096267-15096286 MS.gene026693:CDS 40.0%
AATTCGACACAAGGAAACTC+AGG + chr1.2:15095752-15095771 MS.gene026693:CDS 40.0%
AATTGCTATGGTTAGCAGAG+GGG - chr1.2:15095736-15095755 None:intergenic 40.0%
ACTATCGCAACAACACAGAT+GGG + chr1.2:15096458-15096477 MS.gene026693:CDS 40.0%
ACTATGGACGATGAATAGGT+TGG + chr1.2:15096393-15096412 MS.gene026693:CDS 40.0%
ACTCTTGTCACATGACTGAT+AGG - chr1.2:15096220-15096239 None:intergenic 40.0%
CATTAACTCCTTAGCATCAC+CGG - chr1.2:15096278-15096297 None:intergenic 40.0%
CTATGGACGATGAATAGGTT+GGG + chr1.2:15096394-15096413 MS.gene026693:CDS 40.0%
GAATTGCTATGGTTAGCAGA+GGG - chr1.2:15095737-15095756 None:intergenic 40.0%
TATGGACATAGTCACAAGTG+AGG + chr1.2:15096318-15096337 MS.gene026693:CDS 40.0%
TTCCTTGTGTCGAATTGCTA+TGG - chr1.2:15095748-15095767 None:intergenic 40.0%
! GTTGTTGTTGTTGTTGTTGG+TGG - chr1.2:15096131-15096150 None:intergenic 40.0%
!! GAGGAATTTGTTAGGTCTCT+TGG + chr1.2:15096421-15096440 MS.gene026693:CDS 40.0%
!! GATGTTCTACATTGGCTTTC+TGG - chr1.2:15096348-15096367 None:intergenic 40.0%
!! TGGGCTTTGAGGAATTTGTT+AGG + chr1.2:15096413-15096432 MS.gene026693:CDS 40.0%
CAACATTCAACGCCAGCAAT+GGG + chr1.2:15096178-15096197 MS.gene026693:CDS 45.0%
CGAATTGCTATGGTTAGCAG+AGG - chr1.2:15095738-15095757 None:intergenic 45.0%
TCACCGGTGATTATTGTGTC+CGG - chr1.2:15096262-15096281 None:intergenic 45.0%
! GATGAATAGGTTGGGCTTTG+AGG + chr1.2:15096402-15096421 MS.gene026693:CDS 45.0%
! GTTGTTGTTGTTGTTGGTGG+TGG - chr1.2:15096128-15096147 None:intergenic 45.0%
CCAACATTCAACGCCAGCAA+TGG + chr1.2:15096177-15096196 MS.gene026693:CDS 50.0%
CCACCGGACACAATAATCAC+CGG + chr1.2:15096256-15096275 MS.gene026693:CDS 50.0%
! CATGCAGAGTGTTCTTCCAC+CGG + chr1.2:15096240-15096259 MS.gene026693:CDS 50.0%
! CCATTGCTGGCGTTGAATGT+TGG - chr1.2:15096180-15096199 None:intergenic 50.0%
! CGCAACAACACAGATGGGTT+AGG + chr1.2:15096463-15096482 MS.gene026693:CDS 50.0%
! TTGGTTCTCAGGTCTAACGC+CGG - chr1.2:15096161-15096180 None:intergenic 50.0%
!! ACAGATGGGTTAGGTGCTAC+TGG + chr1.2:15096472-15096491 MS.gene026693:CDS 50.0%
!! GGCGTTGAATGTTGGTTCTC+AGG - chr1.2:15096172-15096191 None:intergenic 50.0%
CCGGTGATTATTGTGTCCGG+TGG - chr1.2:15096259-15096278 None:intergenic 55.0%
TTCAACGCCAGCAATGGGCG+AGG + chr1.2:15096183-15096202 MS.gene026693:CDS 60.0%
CGCACTTCCTCGCCCATTGC+TGG - chr1.2:15096193-15096212 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 15095719 15096528 15095719 ID=MS.gene026693
chr1.2 mRNA 15095719 15096528 15095719 ID=MS.gene026693.t1;Parent=MS.gene026693
chr1.2 exon 15095719 15095773 15095719 ID=MS.gene026693.t1.exon1;Parent=MS.gene026693.t1
chr1.2 CDS 15095719 15095773 15095719 ID=cds.MS.gene026693.t1;Parent=MS.gene026693.t1
chr1.2 exon 15096116 15096528 15096116 ID=MS.gene026693.t1.exon2;Parent=MS.gene026693.t1
chr1.2 CDS 15096116 15096528 15096116 ID=cds.MS.gene026693.t1;Parent=MS.gene026693.t1
Gene Sequence

>MS.gene026693

ATGGAGCATGGAAGCCCCTCTGCTAACCATAGCAATTCGACACAAGGAAACTCAGGTAAGCACTCTAAACAACATTTTTAGATATTCTAACTTCCCTACTTTGTAAAAGATTGAGTGTGCCGGTTTTTCATTTGTATCAATCACATCAAAAGCTGATTTTTATTATCGTGCAAGAAATAAATATTTTCTCAATATTTAATTTAATAATAGATTGTACTAAAGGAAAAAAAAAAAAGCTTGCTAACATATATTTTTATTATCTTATACTAGATTTTTATCTATGAAGTTACTTGAAAAAAAAATAATTAATTTCCTCTTGCACTAAATCTTTTAATTTTGAAGATTTAAATTGATTTGATTTTTTTTTTTCCTTTTATCTCTATCAAAAACATTGTAGCTGAAATAACCACCACCAACAACAACAACAACAACAACATTGCCGGCGTTAGACCTGAGAACCAACATTCAACGCCAGCAATGGGCGAGGAAGTGCGTATGCCTATCAGTCATGTGACAAGAGTCATGCAGAGTGTTCTTCCACCGGACACAATAATCACCGGTGATGCTAAGGAGTTAATGCAATTGTGTGTGTCTAAATTTATGGACATAGTCACAAGTGAGGCTTTCCAGAAAGCCAATGTAGAACATCAAATGATTGTTTCTGCTGATGATTTACTATGGACGATGAATAGGTTGGGCTTTGAGGAATTTGTTAGGTCTCTTGGGAAAGACCTCAAAAACTATCGCAACAACACAGATGGGTTAGGTGCTACTGGCTCAAACAATGCCAATGATGATGACCTAAGTTAA
Protein sequence

>MS.gene026693.t1

MEHGSPSANHSNSTQGNSAEITTTNNNNNNNIAGVRPENQHSTPAMGEEVRMPISHVTRVMQSVLPPDTIITGDAKELMQLCVSKFMDIVTSEAFQKANVEHQMIVSADDLLWTMNRLGFEEFVRSLGKDLKNYRNNTDGLGATGSNNANDDDLS