AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene85123

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene85123.t1 MTR_2g101660 96.951 164 4 1 1 163 1 164 6.81e-120 336
MS.gene85123.t1 MTR_2g101660 98.276 116 2 0 48 163 1 116 5.71e-85 246
MS.gene85123.t1 MTR_4g086330 40.458 131 78 0 32 162 64 194 3.59e-29 107
MS.gene85123.t1 MTR_8g104890 35.669 157 101 0 2 158 4 160 8.48e-27 100
MS.gene85123.t1 MTR_4g086320 42.149 121 66 1 25 141 40 160 2.25e-26 99.0
MS.gene85123.t1 MTR_8g104870 38.938 113 69 0 32 144 52 164 9.11e-26 98.2
MS.gene85123.t1 MTR_1g075550 46.903 113 59 1 32 144 12 123 1.54e-25 95.9
MS.gene85123.t1 MTR_5g017650 37.931 116 69 1 32 144 52 167 2.46e-24 94.4
MS.gene85123.t1 MTR_6g084940 37.795 127 74 2 20 142 2 127 2.23e-22 88.2
MS.gene85123.t1 MTR_8g104830 35.172 145 82 4 25 161 2 142 3.70e-21 85.1
MS.gene85123.t1 MTR_5g008240 28.889 135 77 2 20 137 29 161 5.01e-14 67.4
MS.gene85123.t1 MTR_5g008240 28.889 135 77 2 20 137 95 227 1.56e-13 67.0
MS.gene85123.t1 MTR_5g008240 28.889 135 77 2 20 137 71 203 2.33e-13 66.2
MS.gene85123.t1 MTR_2g011490 28.571 140 68 6 32 144 76 210 1.96e-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.gene85123.t1 AT1G52200 70.079 127 38 0 21 147 42 168 3.73e-70 211
MS.gene85123.t1 AT1G52200 65.891 129 44 0 21 149 42 170 3.22e-65 198
MS.gene85123.t1 AT3G18470 47.788 113 59 0 32 144 5 117 2.03e-36 123
MS.gene85123.t1 AT1G49030 45.926 135 73 0 22 156 78 212 3.94e-36 125
MS.gene85123.t1 AT3G18460 44.538 119 65 1 32 150 54 171 1.80e-34 120
MS.gene85123.t1 AT3G18450 41.860 129 72 2 26 154 46 171 4.23e-31 111
MS.gene85123.t1 AT1G58320 51.327 113 53 2 32 143 17 128 5.03e-31 110
MS.gene85123.t1 AT1G68630 41.441 111 64 1 32 142 29 138 1.96e-27 101
MS.gene85123.t1 AT1G14870 38.211 123 76 0 30 152 14 136 2.35e-26 98.6
MS.gene85123.t1 AT5G35525 36.585 123 78 0 30 152 14 136 6.14e-26 97.4
MS.gene85123.t1 AT1G14880 38.053 113 70 0 32 144 15 127 1.51e-23 91.3
MS.gene85123.t1 AT1G14870 40.000 110 66 0 32 141 16 125 2.14e-23 90.5
MS.gene85123.t1 AT1G68610 37.778 135 79 3 32 163 19 151 5.87e-20 82.4
MS.gene85123.t1 AT2G40935 32.479 117 62 2 32 132 47 162 1.48e-15 71.2
MS.gene85123.t1 AT2G40935 32.479 117 62 2 32 132 47 162 1.48e-15 71.2
MS.gene85123.t1 AT2G40935 32.479 117 62 2 32 132 47 162 1.48e-15 71.2
MS.gene85123.t1 AT2G40935 32.479 117 62 2 32 132 47 162 1.48e-15 71.2
MS.gene85123.t1 AT2G40935 32.479 117 62 2 32 132 47 162 1.48e-15 71.2
MS.gene85123.t1 AT2G40935 34.694 98 47 2 51 132 55 151 5.15e-12 61.6
MS.gene85123.t1 AT2G40935 34.694 98 47 2 51 132 42 138 1.07e-11 60.5
MS.gene85123.t1 AT2G40935 34.694 98 47 2 51 132 42 138 1.07e-11 60.5
MS.gene85123.t1 AT2G40935 34.694 98 47 2 51 132 42 138 1.07e-11 60.5

Find 39 sgRNAs with CRISPR-Local

Find 65 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATCACTACAGCATTCTTGC+AGG 0.359170 2.4:-3155594 None:intergenic
AGAAGATATTACCATTTGTT+TGG 0.364288 2.4:-3154531 None:intergenic
GTTAAGGAAGAAGTATGATT+TGG 0.371388 2.4:+3155305 MS.gene85123:CDS
TTCAGAGAGCTCAAAATTAG+AGG 0.383494 2.4:+3155393 MS.gene85123:CDS
TTTGTGCACACAATGGATTA+TGG 0.383643 2.4:+3155263 MS.gene85123:CDS
TTGTGCACACAATGGATTAT+GGG 0.412784 2.4:+3155264 MS.gene85123:CDS
ATAATGTAAGGTTGCCATCT+TGG 0.416334 2.4:+3155210 MS.gene85123:intron
CAGGGTGGATTGTTCAATGT+TGG 0.433746 2.4:-3155575 None:intergenic
TCATACCTTGAGCCAACAAC+AGG 0.458603 2.4:-3154445 None:intergenic
AGAGGACTTGACCCTGCTCT+TGG 0.473756 2.4:+3155411 MS.gene85123:CDS
CAAAGTATAGAACAAAGTTA+AGG 0.474519 2.4:+3155289 MS.gene85123:CDS
TGGACAGATAGCAGAAGTAT+TGG 0.475164 2.4:+3155093 MS.gene85123:CDS
CAACAGCAGGAACCTGTTGT+TGG 0.477266 2.4:+3154433 MS.gene85123:CDS
GTGAATTAAATACCAAGAGC+AGG 0.481342 2.4:-3155423 None:intergenic
CTAATACAATTCAGCAAGTA+GGG 0.490574 2.4:+3154470 MS.gene85123:CDS
GCTAATACAATTCAGCAAGT+AGG 0.494698 2.4:+3154469 MS.gene85123:CDS
GTAGGGAGTCCATGGAGTAC+TGG 0.501789 2.4:+3154487 MS.gene85123:CDS
AAGGAAGAAGTATGATTTGG+TGG 0.502714 2.4:+3155308 MS.gene85123:CDS
ATCCATTGTGTGCACAAAGC+AGG 0.505668 2.4:-3155258 None:intergenic
CTCTCTGAACTCTTGACATA+GGG 0.516209 2.4:-3155379 None:intergenic
ACAAAGCAGGCATCATTAGC+AGG 0.519823 2.4:-3155245 None:intergenic
TTCAGCAAGTAGGGAGTCCA+TGG 0.521718 2.4:+3154479 MS.gene85123:CDS
TGTCATGAGAACCAAACAAA+TGG 0.529201 2.4:+3154520 MS.gene85123:CDS
GCTCTCTGAACTCTTGACAT+AGG 0.530518 2.4:-3155380 None:intergenic
AGGAACCTGTTGTTGGCTCA+AGG 0.566558 2.4:+3154440 MS.gene85123:CDS
TCAAATAATCCAGTACTCCA+TGG 0.579513 2.4:-3154496 None:intergenic
GGTAAATGAAGCTTCCAAGA+TGG 0.581380 2.4:-3155224 None:intergenic
GGAGCAGAAGACTCAACAGC+AGG 0.615251 2.4:+3154420 MS.gene85123:CDS
CAGATAGCAGAAGTATTGGA+TGG 0.622869 2.4:+3155097 MS.gene85123:CDS
ATCACTACAGCATTCTTGCA+GGG 0.623086 2.4:-3155593 None:intergenic
TTGAGTCTTCTGCTCCTCAG+TGG 0.624600 2.4:-3154413 None:intergenic
TGAATTAAATACCAAGAGCA+GGG 0.629149 2.4:-3155422 None:intergenic
ATCTGTCCAAATGTTACACA+AGG 0.643300 2.4:-3155079 None:intergenic
TGCCTGCTTTGTGCACACAA+TGG 0.656127 2.4:+3155256 MS.gene85123:CDS
TGAGAAATCACATCTGAATG+TGG 0.657682 2.4:-3155336 None:intergenic
ATAGCAGAAGTATTGGATGG+TGG 0.672429 2.4:+3155100 MS.gene85123:CDS
ACTACAGCATTCTTGCAGGG+TGG 0.681939 2.4:-3155590 None:intergenic
AAGGGAGATGCAGACCACTG+AGG 0.731299 2.4:+3154399 None:intergenic
TCTTGACATAGGGAACAACA+AGG 0.757057 2.4:-3155369 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTTTATTTAATCAAATACA+TGG - chr2.4:3155161-3155180 None:intergenic 10.0%
!!! TATATATACCTTTTTTTATA+TGG + chr2.4:3155029-3155048 MS.gene85123:intron 10.0%
!! TTGTTAATTGTAATAATGTA+AGG + chr2.4:3155198-3155217 MS.gene85123:intron 15.0%
!! TTTATTCATCAAATATAAAG+TGG - chr2.4:3155451-3155470 None:intergenic 15.0%
!!! TCATTTTCTCAAATTATTAT+CGG + chr2.4:3154809-3154828 MS.gene85123:intron 15.0%
!! AGAAAAAACTTGATGAAATT+TGG + chr2.4:3154640-3154659 MS.gene85123:intron 20.0%
!! CAATGAAATAAAAATGTGTT+TGG - chr2.4:3154970-3154989 None:intergenic 20.0%
! AAACAAACTAAGTAGTTCAA+TGG - chr2.4:3154568-3154587 None:intergenic 25.0%
! AACAATTCATAGTTCATAGT+AGG - chr2.4:3154909-3154928 None:intergenic 25.0%
! AATCAAATACATGGTGATTT+GGG - chr2.4:3155152-3155171 None:intergenic 25.0%
! ACAATTCATAGTTCATAGTA+GGG - chr2.4:3154908-3154927 None:intergenic 25.0%
! AGAAGATATTACCATTTGTT+TGG - chr2.4:3154534-3154553 None:intergenic 25.0%
! ATTACTTAAGAACTTCAACA+AGG - chr2.4:3154676-3154695 None:intergenic 25.0%
! ATTCATCAAATATAAAGTGG+AGG - chr2.4:3155448-3155467 None:intergenic 25.0%
! CAAAGTATAGAACAAAGTTA+AGG + chr2.4:3155289-3155308 MS.gene85123:CDS 25.0%
! TAATCAAATACATGGTGATT+TGG - chr2.4:3155153-3155172 None:intergenic 25.0%
! TTGTTAAACTTGTAATATGC+AGG + chr2.4:3154987-3155006 MS.gene85123:intron 25.0%
!!! ATAACAAATTTTTGAGTGCA+GGG + chr2.4:3155507-3155526 MS.gene85123:intron 25.0%
!!! TATAACAAATTTTTGAGTGC+AGG + chr2.4:3155506-3155525 MS.gene85123:intron 25.0%
CTAATACAATTCAGCAAGTA+GGG + chr2.4:3154470-3154489 MS.gene85123:CDS 30.0%
GCTGCAAACCATATAAAAAA+AGG - chr2.4:3155040-3155059 None:intergenic 30.0%
TGAATTAAATACCAAGAGCA+GGG - chr2.4:3155425-3155444 None:intergenic 30.0%
TTAAGTAATTCTTGAGCACA+TGG + chr2.4:3154687-3154706 MS.gene85123:intron 30.0%
! ACACTTTCAATTTGAAGTGT+CGG - chr2.4:3154735-3154754 None:intergenic 30.0%
! GTTAAGGAAGAAGTATGATT+TGG + chr2.4:3155305-3155324 MS.gene85123:CDS 30.0%
! TTTTTGCCTTGTGTAACATT+TGG + chr2.4:3155073-3155092 MS.gene85123:CDS 30.0%
ATAATGTAAGGTTGCCATCT+TGG + chr2.4:3155210-3155229 MS.gene85123:intron 35.0%
ATCTGTCCAAATGTTACACA+AGG - chr2.4:3155082-3155101 None:intergenic 35.0%
GCTAATACAATTCAGCAAGT+AGG + chr2.4:3154469-3154488 MS.gene85123:CDS 35.0%
GTGAATTAAATACCAAGAGC+AGG - chr2.4:3155426-3155445 None:intergenic 35.0%
TCAAATAATCCAGTACTCCA+TGG - chr2.4:3154499-3154518 None:intergenic 35.0%
TGAGAAATCACATCTGAATG+TGG - chr2.4:3155339-3155358 None:intergenic 35.0%
TGTCATGAGAACCAAACAAA+TGG + chr2.4:3154520-3154539 MS.gene85123:CDS 35.0%
TGTTCATGTCATGTCTGTAT+TGG + chr2.4:3154849-3154868 MS.gene85123:intron 35.0%
TTCAGAGAGCTCAAAATTAG+AGG + chr2.4:3155393-3155412 MS.gene85123:CDS 35.0%
! AAGGAAGAAGTATGATTTGG+TGG + chr2.4:3155308-3155327 MS.gene85123:CDS 35.0%
! GGTGCTACATATATTTGTGA+CGG - chr2.4:3154714-3154733 None:intergenic 35.0%
!! TTGTGCACACAATGGATTAT+GGG + chr2.4:3155264-3155283 MS.gene85123:CDS 35.0%
!! TTTGTGCACACAATGGATTA+TGG + chr2.4:3155263-3155282 MS.gene85123:CDS 35.0%
ATCACTACAGCATTCTTGCA+GGG - chr2.4:3155596-3155615 None:intergenic 40.0%
CTCTCTGAACTCTTGACATA+GGG - chr2.4:3155382-3155401 None:intergenic 40.0%
GGTAAATGAAGCTTCCAAGA+TGG - chr2.4:3155227-3155246 None:intergenic 40.0%
TCTTGACATAGGGAACAACA+AGG - chr2.4:3155372-3155391 None:intergenic 40.0%
! TGGACAGATAGCAGAAGTAT+TGG + chr2.4:3155093-3155112 MS.gene85123:CDS 40.0%
!! ATAGCAGAAGTATTGGATGG+TGG + chr2.4:3155100-3155119 MS.gene85123:CDS 40.0%
!! CAGATAGCAGAAGTATTGGA+TGG + chr2.4:3155097-3155116 MS.gene85123:CDS 40.0%
!!! ACAAATTTTTGAGTGCAGGG+TGG + chr2.4:3155510-3155529 MS.gene85123:intron 40.0%
ACAAAGCAGGCATCATTAGC+AGG - chr2.4:3155248-3155267 None:intergenic 45.0%
ATCCATTGTGTGCACAAAGC+AGG - chr2.4:3155261-3155280 None:intergenic 45.0%
GATCACTACAGCATTCTTGC+AGG - chr2.4:3155597-3155616 None:intergenic 45.0%
GCTCTCTGAACTCTTGACAT+AGG - chr2.4:3155383-3155402 None:intergenic 45.0%
TCATACCTTGAGCCAACAAC+AGG - chr2.4:3154448-3154467 None:intergenic 45.0%
! TGGTGATTTGGGAGTTAGAG+AGG - chr2.4:3155141-3155160 None:intergenic 45.0%
!! CAGGGTGGATTGTTCAATGT+TGG - chr2.4:3155578-3155597 None:intergenic 45.0%
!!! TTTTTGAGTGCAGGGTGGAA+TGG + chr2.4:3155515-3155534 MS.gene85123:intron 45.0%
ACTACAGCATTCTTGCAGGG+TGG - chr2.4:3155593-3155612 None:intergenic 50.0%
CAACAGCAGGAACCTGTTGT+TGG + chr2.4:3154433-3154452 MS.gene85123:CDS 50.0%
GTCAGACACAGATGACGTGT+TGG - chr2.4:3154760-3154779 None:intergenic 50.0%
TGCCTGCTTTGTGCACACAA+TGG + chr2.4:3155256-3155275 MS.gene85123:CDS 50.0%
TTCAGCAAGTAGGGAGTCCA+TGG + chr2.4:3154479-3154498 MS.gene85123:CDS 50.0%
TTGAGTCTTCTGCTCCTCAG+TGG - chr2.4:3154416-3154435 None:intergenic 50.0%
!! AGGAACCTGTTGTTGGCTCA+AGG + chr2.4:3154440-3154459 MS.gene85123:CDS 50.0%
AGAGGACTTGACCCTGCTCT+TGG + chr2.4:3155411-3155430 MS.gene85123:CDS 55.0%
GGAGCAGAAGACTCAACAGC+AGG + chr2.4:3154420-3154439 MS.gene85123:CDS 55.0%
GTAGGGAGTCCATGGAGTAC+TGG + chr2.4:3154487-3154506 MS.gene85123:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 3154406 3155655 3154406 ID=MS.gene85123
chr2.4 mRNA 3154406 3155655 3154406 ID=MS.gene85123.t1;Parent=MS.gene85123
chr2.4 exon 3154406 3154541 3154406 ID=MS.gene85123.t1.exon1;Parent=MS.gene85123.t1
chr2.4 CDS 3154406 3154541 3154406 ID=cds.MS.gene85123.t1;Parent=MS.gene85123.t1
chr2.4 exon 3155059 3155130 3155059 ID=MS.gene85123.t1.exon2;Parent=MS.gene85123.t1
chr2.4 CDS 3155059 3155130 3155059 ID=cds.MS.gene85123.t1;Parent=MS.gene85123.t1
chr2.4 exon 3155220 3155432 3155220 ID=MS.gene85123.t1.exon3;Parent=MS.gene85123.t1
chr2.4 CDS 3155220 3155432 3155220 ID=cds.MS.gene85123.t1;Parent=MS.gene85123.t1
chr2.4 exon 3155528 3155655 3155528 ID=MS.gene85123.t1.exon4;Parent=MS.gene85123.t1
chr2.4 CDS 3155528 3155655 3155528 ID=cds.MS.gene85123.t1;Parent=MS.gene85123.t1
Gene Sequence

>MS.gene85123

ATGCAGACCACTGAGGAGCAGAAGACTCAACAGCAGGAACCTGTTGTTGGCTCAAGGTATGAAGCTAATACAATTCAGCAAGTAGGGAGTCCATGGAGTACTGGATTATTTGACTGTCATGAGAACCAAACAAATGGTAATATCTTCTCAACTTTAATTCCATTGAACTACTTAGTTTGTTTATTTATAATAGCTAGTTTATTTATCTGTTTCAACTTTTGTTAAAAATTGTAAAGAAAAAACTTGATGAAATTTGGTAATATCTAACCTTGTTGAAGTTCTTAAGTAATTCTTGAGCACATGGACCGTCACAAATATATGTAGCACCGACACTTCAAATTGAAAGTGTATCCAACACGTCATCTGTGTCTGACATCAACACGTATAGATACATTCAATTATTTCATTTTCTCAAATTATTATCGGCGTCGACGTGTCATCTGTGTTCATGTCATGTCTGTATTGGCACTTCATAGCACATGACTTCTTTGTTTTTTATCCCTACTATGAACTATGAATTGTTTGAATTCTTTAGAGTTGAAAGAAGCAAATTTTTGCTTGCCAAACACATTTTTATTTCATTGTTAAACTTGTAATATGCAGGAATAGTTTATCTGATTATATATATATACCTTTTTTTATATGGTTTGCAGCTATTATGACAGCATTTTTGCCTTGTGTAACATTTGGACAGATAGCAGAAGTATTGGATGGTGGAGAACTTAGTAAGCACCTCTCTAACTCCCAAATCACCATGTATTTGATTAAATAAAATGAAAATGCTCTAATTAATTGTTAATTGTAATAATGTAAGGTTGCCATCTTGGAAGCTTCATTTACCTGCTAATGATGCCTGCTTTGTGCACACAATGGATTATGGGTTCAAAGTATAGAACAAAGTTAAGGAAGAAGTATGATTTGGTGGAAGCTCCACATTCAGATGTGATTTCTCACATCTTTTGTCCTTGTTGTTCCCTATGTCAAGAGTTCAGAGAGCTCAAAATTAGAGGACTTGACCCTGCTCTTGGTATTTAATTCACCTCCACTTTATATTTGATGAATAAAAATGTTCATTTATAAAGTGACTCAGAGTTGACAACTATAACAAATTTTTGAGTGCAGGGTGGAATGGTATTCTTGCACTACAGCATTCAAAACAGCAAAGTGATCCAACATTGAACAATCCACCCTGCAAGAATGCTGTAGTGATCACAGCATTCACAGCTATTTCATCAGTTCTTTCAAAATGA
Protein sequence

>MS.gene85123.t1

MQTTEEQKTQQQEPVVGSRYEANTIQQVGSPWSTGLFDCHENQTNAIMTAFLPCVTFGQIAEVLDGGELSCHLGSFIYLLMMPALCTQWIMGSKYRTKLRKKYDLVEAPHSDVISHIFCPCCSLCQEFRELKIRGLDPALGWNGILALQHSKQQSDPTLNNPPCKNAVVITAFTAISSVLSK