AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene36326


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36326.t1 MTR_2g101660 96.491 171 5 1 1 170 1 171 4.47e-124 346
MS.gene36326.t1 MTR_2g101660 98.374 123 2 0 48 170 1 123 6.42e-90 258
MS.gene36326.t1 MTR_4g086330 40.458 131 78 0 32 162 64 194 1.37e-29 107
MS.gene36326.t1 MTR_8g104890 34.911 169 107 1 2 170 4 169 5.01e-28 102
MS.gene36326.t1 MTR_4g086320 42.149 121 66 1 25 141 40 160 1.60e-26 99.0
MS.gene36326.t1 MTR_8g104870 38.938 113 69 0 32 144 52 164 4.71e-26 98.6
MS.gene36326.t1 MTR_1g075550 46.903 113 59 1 32 144 12 123 1.16e-25 95.9
MS.gene36326.t1 MTR_5g017650 37.931 116 69 1 32 144 52 167 1.23e-24 94.7
MS.gene36326.t1 MTR_6g084940 37.795 127 74 2 20 142 2 127 1.52e-22 88.2
MS.gene36326.t1 MTR_8g104830 35.172 145 82 4 25 161 2 142 1.84e-21 85.5
MS.gene36326.t1 MTR_5g008240 28.889 135 77 2 20 137 29 161 4.61e-14 67.0
MS.gene36326.t1 MTR_5g008240 28.889 135 77 2 20 137 95 227 1.54e-13 66.6
MS.gene36326.t1 MTR_5g008240 26.531 147 89 2 8 137 59 203 1.80e-13 66.2
MS.gene36326.t1 MTR_5g022670 30.714 140 74 3 32 168 295 414 5.29e-12 63.2
MS.gene36326.t1 MTR_2g011490 28.571 140 68 6 32 144 76 210 1.37e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene36326.t1 AT1G52200 64.000 150 53 1 21 170 42 190 5.28e-72 215
MS.gene36326.t1 AT1G52200 65.891 129 44 0 21 149 42 170 3.61e-65 198
MS.gene36326.t1 AT1G49030 44.898 147 79 1 22 168 78 222 1.06e-36 126
MS.gene36326.t1 AT3G18470 47.788 113 59 0 32 144 5 117 1.28e-36 123
MS.gene36326.t1 AT3G18460 41.606 137 72 2 32 168 54 182 1.04e-34 120
MS.gene36326.t1 AT3G18450 40.559 143 79 3 26 168 46 182 4.92e-32 113
MS.gene36326.t1 AT1G58320 51.327 113 53 2 32 143 17 128 4.10e-31 110
MS.gene36326.t1 AT1G68630 41.441 111 64 1 32 142 29 138 1.32e-27 101
MS.gene36326.t1 AT5G35525 34.532 139 89 1 32 170 16 152 9.89e-27 99.0
MS.gene36326.t1 AT1G14870 38.843 121 74 0 32 152 16 136 1.38e-26 98.6
MS.gene36326.t1 AT1G14880 38.053 113 70 0 32 144 15 127 8.19e-24 91.7
MS.gene36326.t1 AT1G14870 40.000 110 66 0 32 141 16 125 1.26e-23 90.9
MS.gene36326.t1 AT1G68610 37.324 142 84 3 32 170 19 158 1.28e-20 83.6
MS.gene36326.t1 AT2G40935 32.479 117 62 2 32 132 47 162 1.04e-15 71.6
MS.gene36326.t1 AT2G40935 32.479 117 62 2 32 132 47 162 1.04e-15 71.6
MS.gene36326.t1 AT2G40935 32.479 117 62 2 32 132 47 162 1.04e-15 71.6
MS.gene36326.t1 AT2G40935 32.479 117 62 2 32 132 47 162 1.04e-15 71.6
MS.gene36326.t1 AT2G40935 32.479 117 62 2 32 132 47 162 1.04e-15 71.6
MS.gene36326.t1 AT2G40935 34.694 98 47 2 51 132 55 151 4.27e-12 61.6
MS.gene36326.t1 AT2G40935 34.694 98 47 2 51 132 42 138 1.04e-11 60.5
MS.gene36326.t1 AT2G40935 34.694 98 47 2 51 132 42 138 1.04e-11 60.5
MS.gene36326.t1 AT2G40935 34.694 98 47 2 51 132 42 138 1.04e-11 60.5
MS.gene36326.t1 AT4G35920 30.714 140 74 4 32 168 300 419 4.96e-11 60.5
MS.gene36326.t1 AT4G35920 30.714 140 74 4 32 168 300 419 4.96e-11 60.5
MS.gene36326.t1 AT4G35920 30.714 140 74 4 32 168 300 419 4.96e-11 60.5
MS.gene36326.t1 AT4G35920 30.714 140 74 4 32 168 300 419 4.96e-11 60.5
MS.gene36326.t1 AT4G35920 30.714 140 74 4 32 168 300 419 4.96e-11 60.5

Find 39 sgRNAs with CRISPR-Local

Find 67 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTAAGGAAGAAGTATGATT+TGG 0.371388 2.2:+2012283 MS.gene36326:CDS
TTCAGAGAGCTCAAAATTAG+AGG 0.383494 2.2:+2012371 MS.gene36326:CDS
TTTGTGCACACAATGGATTA+TGG 0.383643 2.2:+2012241 MS.gene36326:CDS
AGTAGATATTACCATTTGTT+TGG 0.383812 2.2:-2011534 None:intergenic
TTGTGCACACAATGGATTAT+GGG 0.412784 2.2:+2012242 MS.gene36326:CDS
ATAATGTAAGGTTGCCATCT+TGG 0.416334 2.2:+2012188 MS.gene36326:intron
GAGGGAGGATTGTTCAATGT+TGG 0.461435 2.2:-2012554 None:intergenic
AGAGGACTTGACCCTGCTCT+TGG 0.473756 2.2:+2012389 MS.gene36326:CDS
CAAAGTATAGAACAAAGTTA+AGG 0.474519 2.2:+2012267 MS.gene36326:CDS
TGGACAGATAGCAGAAGTAT+TGG 0.475164 2.2:+2012073 MS.gene36326:CDS
GTGAATTAAATACCAAGAGC+AGG 0.481342 2.2:-2012401 None:intergenic
GTAGGGAGTCCATGGAGTAC+TGG 0.489984 2.2:+2011490 MS.gene36326:CDS
CTAATACAATTCAGCAAGTA+GGG 0.490574 2.2:+2011473 MS.gene36326:CDS
GCTAATACAATTCAGCAAGT+AGG 0.494698 2.2:+2011472 MS.gene36326:CDS
TTAGACATGAATTGAGTTGA+GGG 0.500404 2.2:-2012572 None:intergenic
AAGGAAGAAGTATGATTTGG+TGG 0.502714 2.2:+2012286 MS.gene36326:CDS
ATCCATTGTGTGCACAAAGC+AGG 0.505668 2.2:-2012236 None:intergenic
CTCTCTGAACTCTTGACATA+GGG 0.516209 2.2:-2012357 None:intergenic
ACAAAGCAGGCATCATTAGC+AGG 0.519823 2.2:-2012223 None:intergenic
TTCAGCAAGTAGGGAGTCCA+TGG 0.521718 2.2:+2011482 MS.gene36326:CDS
TCATACCTTGAGCCAACAGC+AGG 0.522584 2.2:-2011448 None:intergenic
TGTCATGAGAACCAAACAAA+TGG 0.529201 2.2:+2011523 MS.gene36326:CDS
GCTCTCTGAACTCTTGACAT+AGG 0.530518 2.2:-2012358 None:intergenic
CTTAGACATGAATTGAGTTG+AGG 0.545566 2.2:-2012573 None:intergenic
CAGCAGCAGGAACCTGCTGT+TGG 0.559449 2.2:+2011436 MS.gene36326:CDS
GGAGCAGAAGACTCAGCAGC+AGG 0.577516 2.2:+2011423 MS.gene36326:CDS
GGTAAATGAAGCTTCCAAGA+TGG 0.581380 2.2:-2012202 None:intergenic
AGGAACCTGCTGTTGGCTCA+AGG 0.588955 2.2:+2011443 MS.gene36326:CDS
GACATGAATTGAGTTGAGGG+AGG 0.606886 2.2:-2012569 None:intergenic
TCAAATAGTCCAGTACTCCA+TGG 0.612473 2.2:-2011499 None:intergenic
CAGATAGCAGAAGTATTGGA+TGG 0.622869 2.2:+2012077 MS.gene36326:CDS
CTGAGTCTTCTGCTCCTCAG+TGG 0.624099 2.2:-2011416 None:intergenic
TGAATTAAATACCAAGAGCA+GGG 0.629149 2.2:-2012400 None:intergenic
ATCTGTCCAAATGTAACACA+AGG 0.636480 2.2:-2012059 None:intergenic
TGCCTGCTTTGTGCACACAA+TGG 0.656127 2.2:+2012234 MS.gene36326:CDS
TGAGAAATCACATCTGAATG+TGG 0.657682 2.2:-2012314 None:intergenic
ATAGCAGAAGTATTGGATGG+TGG 0.672429 2.2:+2012080 MS.gene36326:CDS
AAGGGAGATGCAGACCACTG+AGG 0.731299 2.2:+2011402 None:intergenic
TCTTGACATAGGGAACAACA+AGG 0.757057 2.2:-2012347 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATCTTATTTAATTAAATACA+TGG - chr2.2:2012139-2012158 None:intergenic 10.0%
!! TTCATTTCTCAAATTATTAT+CGG + chr2.2:2011809-2011828 MS.gene36326:intron 15.0%
!! TTGTTAATTGTAATAATGTA+AGG + chr2.2:2012176-2012195 MS.gene36326:intron 15.0%
!! TTTATTCATCAAATATAAAG+TGG - chr2.2:2012429-2012448 None:intergenic 15.0%
!!! ATATATACCTTCTTTTTATA+TGG + chr2.2:2012009-2012028 MS.gene36326:intron 15.0%
!! AAATAAACAAACTAGTTCAA+TGG - chr2.2:2011571-2011590 None:intergenic 20.0%
!! AGAAAAAACTTGATGAAATT+TGG + chr2.2:2011639-2011658 MS.gene36326:intron 20.0%
!! CAATGAAATAATAATGTGTT+TGG - chr2.2:2011951-2011970 None:intergenic 20.0%
! AACAATTCATAGTTCATAGT+AGG - chr2.2:2011890-2011909 None:intergenic 25.0%
! AATTAAATACATGGTGAGTT+GGG - chr2.2:2012130-2012149 None:intergenic 25.0%
! AATTACTTAAGAACTTCAAC+AGG - chr2.2:2011676-2011695 None:intergenic 25.0%
! ACAATTCATAGTTCATAGTA+GGG - chr2.2:2011889-2011908 None:intergenic 25.0%
! AGTAGATATTACCATTTGTT+TGG - chr2.2:2011537-2011556 None:intergenic 25.0%
! ATTACTTAAGAACTTCAACA+GGG - chr2.2:2011675-2011694 None:intergenic 25.0%
! ATTCATCAAATATAAAGTGG+AGG - chr2.2:2012426-2012445 None:intergenic 25.0%
! CAAAGTATAGAACAAAGTTA+AGG + chr2.2:2012267-2012286 MS.gene36326:CDS 25.0%
! TAATTAAATACATGGTGAGT+TGG - chr2.2:2012131-2012150 None:intergenic 25.0%
! TTGTTAAACTTGTAATATGC+AGG + chr2.2:2011968-2011987 MS.gene36326:intron 25.0%
!!! ATAACAAATTTTTTGAGTGC+AGG + chr2.2:2012485-2012504 MS.gene36326:intron 25.0%
!!! TAACAAATTTTTTGAGTGCA+GGG + chr2.2:2012486-2012505 MS.gene36326:intron 25.0%
ATTAAATACATGGTGAGTTG+GGG - chr2.2:2012129-2012148 None:intergenic 30.0%
CTAATACAATTCAGCAAGTA+GGG + chr2.2:2011473-2011492 MS.gene36326:CDS 30.0%
CTGCAAACCATATAAAAAGA+AGG - chr2.2:2012019-2012038 None:intergenic 30.0%
TGAATTAAATACCAAGAGCA+GGG - chr2.2:2012403-2012422 None:intergenic 30.0%
TTAAGTAATTCTTGAGCACA+TGG + chr2.2:2011686-2011705 MS.gene36326:intron 30.0%
! ACACTTTCAATTTGAAGTGT+CGG - chr2.2:2011734-2011753 None:intergenic 30.0%
! GTTAAGGAAGAAGTATGATT+TGG + chr2.2:2012283-2012302 MS.gene36326:CDS 30.0%
! TTTTTGCCTTGTGTTACATT+TGG + chr2.2:2012053-2012072 MS.gene36326:CDS 30.0%
!! TTAGACATGAATTGAGTTGA+GGG - chr2.2:2012575-2012594 None:intergenic 30.0%
ATAATGTAAGGTTGCCATCT+TGG + chr2.2:2012188-2012207 MS.gene36326:intron 35.0%
ATCTGTCCAAATGTAACACA+AGG - chr2.2:2012062-2012081 None:intergenic 35.0%
GCTAATACAATTCAGCAAGT+AGG + chr2.2:2011472-2011491 MS.gene36326:CDS 35.0%
GTGAATTAAATACCAAGAGC+AGG - chr2.2:2012404-2012423 None:intergenic 35.0%
TGAGAAATCACATCTGAATG+TGG - chr2.2:2012317-2012336 None:intergenic 35.0%
TGTCATGAGAACCAAACAAA+TGG + chr2.2:2011523-2011542 MS.gene36326:CDS 35.0%
TTCAGAGAGCTCAAAATTAG+AGG + chr2.2:2012371-2012390 MS.gene36326:CDS 35.0%
! AAGGAAGAAGTATGATTTGG+TGG + chr2.2:2012286-2012305 MS.gene36326:CDS 35.0%
! CTTAGACATGAATTGAGTTG+AGG - chr2.2:2012576-2012595 None:intergenic 35.0%
! GGTGCTACATATATTTGTGA+CGG - chr2.2:2011713-2011732 None:intergenic 35.0%
! TTAAATACATGGTGAGTTGG+GGG - chr2.2:2012128-2012147 None:intergenic 35.0%
!! TTGTGCACACAATGGATTAT+GGG + chr2.2:2012242-2012261 MS.gene36326:CDS 35.0%
!! TTTGTGCACACAATGGATTA+TGG + chr2.2:2012241-2012260 MS.gene36326:CDS 35.0%
CTCTCTGAACTCTTGACATA+GGG - chr2.2:2012360-2012379 None:intergenic 40.0%
GGTAAATGAAGCTTCCAAGA+TGG - chr2.2:2012205-2012224 None:intergenic 40.0%
TCAAATAGTCCAGTACTCCA+TGG - chr2.2:2011502-2011521 None:intergenic 40.0%
TCTTGACATAGGGAACAACA+AGG - chr2.2:2012350-2012369 None:intergenic 40.0%
! TGGACAGATAGCAGAAGTAT+TGG + chr2.2:2012073-2012092 MS.gene36326:CDS 40.0%
!! ATAGCAGAAGTATTGGATGG+TGG + chr2.2:2012080-2012099 MS.gene36326:CDS 40.0%
!! CAGATAGCAGAAGTATTGGA+TGG + chr2.2:2012077-2012096 MS.gene36326:CDS 40.0%
!!! CAAATTTTTTGAGTGCAGGG+TGG + chr2.2:2012489-2012508 MS.gene36326:intron 40.0%
ACAAAGCAGGCATCATTAGC+AGG - chr2.2:2012226-2012245 None:intergenic 45.0%
ATCCATTGTGTGCACAAAGC+AGG - chr2.2:2012239-2012258 None:intergenic 45.0%
CAGACACAGATGACATGTGT+TGG - chr2.2:2011759-2011778 None:intergenic 45.0%
GAGGGAGGATTGTTCAATGT+TGG - chr2.2:2012557-2012576 None:intergenic 45.0%
GCTCTCTGAACTCTTGACAT+AGG - chr2.2:2012361-2012380 None:intergenic 45.0%
!! GACATGAATTGAGTTGAGGG+AGG - chr2.2:2012572-2012591 None:intergenic 45.0%
!!! TTTTTGAGTGCAGGGTGGAA+TGG + chr2.2:2012494-2012513 MS.gene36326:intron 45.0%
TCATACCTTGAGCCAACAGC+AGG - chr2.2:2011451-2011470 None:intergenic 50.0%
TGCCTGCTTTGTGCACACAA+TGG + chr2.2:2012234-2012253 MS.gene36326:CDS 50.0%
TTCAGCAAGTAGGGAGTCCA+TGG + chr2.2:2011482-2011501 MS.gene36326:CDS 50.0%
AGAGGACTTGACCCTGCTCT+TGG + chr2.2:2012389-2012408 MS.gene36326:CDS 55.0%
CTGAGTCTTCTGCTCCTCAG+TGG - chr2.2:2011419-2011438 None:intergenic 55.0%
GTAGGGAGTCCATGGAGTAC+TGG + chr2.2:2011490-2011509 MS.gene36326:CDS 55.0%
! CATGGTGAGTTGGGGGTTAG+AGG - chr2.2:2012121-2012140 None:intergenic 55.0%
!! AGGAACCTGCTGTTGGCTCA+AGG + chr2.2:2011443-2011462 MS.gene36326:CDS 55.0%
CAGCAGCAGGAACCTGCTGT+TGG + chr2.2:2011436-2011455 MS.gene36326:CDS 60.0%
GGAGCAGAAGACTCAGCAGC+AGG + chr2.2:2011423-2011442 MS.gene36326:CDS 60.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 2011409 2012598 2011409 ID=MS.gene36326
chr2.2 mRNA 2011409 2012598 2011409 ID=MS.gene36326.t1;Parent=MS.gene36326
chr2.2 exon 2011409 2011544 2011409 ID=MS.gene36326.t1.exon1;Parent=MS.gene36326.t1
chr2.2 CDS 2011409 2011544 2011409 ID=cds.MS.gene36326.t1;Parent=MS.gene36326.t1
chr2.2 exon 2012039 2012110 2012039 ID=MS.gene36326.t1.exon2;Parent=MS.gene36326.t1
chr2.2 CDS 2012039 2012110 2012039 ID=cds.MS.gene36326.t1;Parent=MS.gene36326.t1
chr2.2 exon 2012198 2012410 2012198 ID=MS.gene36326.t1.exon3;Parent=MS.gene36326.t1
chr2.2 CDS 2012198 2012410 2012198 ID=cds.MS.gene36326.t1;Parent=MS.gene36326.t1
chr2.2 exon 2012507 2012598 2012507 ID=MS.gene36326.t1.exon4;Parent=MS.gene36326.t1
chr2.2 CDS 2012507 2012598 2012507 ID=cds.MS.gene36326.t1;Parent=MS.gene36326.t1
Gene Sequence

>MS.gene36326

ATGCAGACCACTGAGGAGCAGAAGACTCAGCAGCAGGAACCTGCTGTTGGCTCAAGGTATGAAGCTAATACAATTCAGCAAGTAGGGAGTCCATGGAGTACTGGACTATTTGACTGTCATGAGAACCAAACAAATGGTAATATCTACTCAACTTTAATTCCATTGAACTAGTTTGTTTATTTATAATAGCTAGTTTATTTATCTGTTTCAACTTTTGTTAAAAATTGTAAAGAAAAAACTTGATGAAATTTGGTAATATCTAACCCTGTTGAAGTTCTTAAGTAATTCTTGAGCACATGGACCGTCACAAATATATGTAGCACCGACACTTCAAATTGAAAGTGTATCCAACACATGTCATCTGTGTCTGACATCAACACGTATAGATACATTCAATTATTTCATTTCTCAAATTATTATCGGCGTCGACGTGTCATCTGTGTTCATGTCAATAGCACATGACTTCTTTGTTTTTATCCCTACTATGAACTATGAATTGTTTGAATTCTTTAGAGTTGAAAGAAGCAAATTTTTGCTTGCCAAACACATTATTATTTCATTGTTAAACTTGTAATATGCAGGAATAGTTTATCTGATTATATATATACCTTCTTTTTATATGGTTTGCAGCTATTATGACAGCATTTTTGCCTTGTGTTACATTTGGACAGATAGCAGAAGTATTGGATGGTGGAGAACTTAGTAAGTACCTCTAACCCCCAACTCACCATGTATTTAATTAAATAAGATGAAAATACTCTAATTAATTGTTAATTGTAATAATGTAAGGTTGCCATCTTGGAAGCTTCATTTACCTGCTAATGATGCCTGCTTTGTGCACACAATGGATTATGGGTTCAAAGTATAGAACAAAGTTAAGGAAGAAGTATGATTTGGTGGAAGCTCCACATTCAGATGTGATTTCTCACATCTTTTGTCCTTGTTGTTCCCTATGTCAAGAGTTCAGAGAGCTCAAAATTAGAGGACTTGACCCTGCTCTTGGTATTTAATTCACCTCCACTTTATATTTGATGAATAAAAATGTTCATTTATAAAGTGACTCAAAGTTGACAACTATAACAAATTTTTTGAGTGCAGGGTGGAATGGTATTCTTGCACTACAGCATTCAAAACAGCAAAGTGATCCAACATTGAACAATCCTCCCTCAACTCAATTCATGTCTAAGTGA

Protein sequence

>MS.gene36326.t1

MQTTEEQKTQQQEPAVGSRYEANTIQQVGSPWSTGLFDCHENQTNAIMTAFLPCVTFGQIAEVLDGGELSCHLGSFIYLLMMPALCTQWIMGSKYRTKLRKKYDLVEAPHSDVISHIFCPCCSLCQEFRELKIRGLDPALGWNGILALQHSKQQSDPTLNNPPSTQFMSK