AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene76507

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76507.t1 MTR_2g101660 97.076 171 4 1 1 170 1 171 1.23e-124 347
MS.gene76507.t1 MTR_2g101660 98.374 123 2 0 48 170 1 123 7.08e-90 258
MS.gene76507.t1 MTR_4g086330 40.458 131 78 0 32 162 64 194 1.44e-29 107
MS.gene76507.t1 MTR_8g104890 34.320 169 108 1 2 170 4 169 1.79e-27 101
MS.gene76507.t1 MTR_4g086320 42.149 121 66 1 25 141 40 160 1.52e-26 99.0
MS.gene76507.t1 MTR_8g104870 38.938 113 69 0 32 144 52 164 4.81e-26 98.6
MS.gene76507.t1 MTR_1g075550 46.903 113 59 1 32 144 12 123 1.04e-25 95.9
MS.gene76507.t1 MTR_5g017650 37.931 116 69 1 32 144 52 167 1.30e-24 94.7
MS.gene76507.t1 MTR_6g084940 37.795 127 74 2 20 142 2 127 1.62e-22 88.2
MS.gene76507.t1 MTR_8g104830 35.172 145 82 4 25 161 2 142 1.90e-21 85.5
MS.gene76507.t1 MTR_5g008240 28.889 135 77 2 20 137 29 161 4.24e-14 67.0
MS.gene76507.t1 MTR_5g008240 28.889 135 77 2 20 137 95 227 1.45e-13 66.6
MS.gene76507.t1 MTR_5g008240 28.889 135 77 2 20 137 71 203 1.91e-13 66.2
MS.gene76507.t1 MTR_5g022670 27.528 178 99 5 1 168 257 414 4.99e-12 63.2
MS.gene76507.t1 MTR_2g011490 28.571 140 68 6 32 144 76 210 1.35e-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.gene76507.t1 AT1G52200 63.576 151 52 2 21 170 42 190 6.43e-72 215
MS.gene76507.t1 AT1G52200 65.891 129 44 0 21 149 42 170 3.65e-65 197
MS.gene76507.t1 AT1G49030 44.898 147 79 1 22 168 78 222 1.04e-36 126
MS.gene76507.t1 AT3G18470 47.788 113 59 0 32 144 5 117 1.37e-36 123
MS.gene76507.t1 AT3G18460 41.606 137 72 2 32 168 54 182 9.92e-35 120
MS.gene76507.t1 AT3G18450 40.559 143 79 3 26 168 46 182 4.82e-32 113
MS.gene76507.t1 AT1G58320 51.327 113 53 2 32 143 17 128 3.72e-31 110
MS.gene76507.t1 AT1G68630 41.441 111 64 1 32 142 29 138 1.28e-27 101
MS.gene76507.t1 AT5G35525 35.252 139 88 1 32 170 16 152 9.27e-27 99.4
MS.gene76507.t1 AT1G14870 38.843 121 74 0 32 152 16 136 1.38e-26 98.6
MS.gene76507.t1 AT1G14880 38.053 113 70 0 32 144 15 127 8.64e-24 91.7
MS.gene76507.t1 AT1G14870 40.000 110 66 0 32 141 16 125 1.26e-23 90.9
MS.gene76507.t1 AT1G68610 37.324 142 84 3 32 170 19 158 1.15e-20 83.6
MS.gene76507.t1 AT2G40935 32.479 117 62 2 32 132 47 162 1.05e-15 71.6
MS.gene76507.t1 AT2G40935 32.479 117 62 2 32 132 47 162 1.05e-15 71.6
MS.gene76507.t1 AT2G40935 32.479 117 62 2 32 132 47 162 1.05e-15 71.6
MS.gene76507.t1 AT2G40935 32.479 117 62 2 32 132 47 162 1.05e-15 71.6
MS.gene76507.t1 AT2G40935 32.479 117 62 2 32 132 47 162 1.05e-15 71.6
MS.gene76507.t1 AT2G40935 34.694 98 47 2 51 132 55 151 3.77e-12 61.6
MS.gene76507.t1 AT2G40935 34.694 98 47 2 51 132 42 138 9.25e-12 60.5
MS.gene76507.t1 AT2G40935 34.694 98 47 2 51 132 42 138 9.25e-12 60.5
MS.gene76507.t1 AT2G40935 34.694 98 47 2 51 132 42 138 9.25e-12 60.5
MS.gene76507.t1 AT4G35920 30.714 140 74 4 32 168 300 419 5.06e-11 60.5
MS.gene76507.t1 AT4G35920 30.714 140 74 4 32 168 300 419 5.06e-11 60.5
MS.gene76507.t1 AT4G35920 30.714 140 74 4 32 168 300 419 5.06e-11 60.5
MS.gene76507.t1 AT4G35920 30.714 140 74 4 32 168 300 419 5.06e-11 60.5
MS.gene76507.t1 AT4G35920 30.714 140 74 4 32 168 300 419 5.06e-11 60.5

Find 41 sgRNAs with CRISPR-Local

Find 68 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAAGATATTACCATTTGTT+TGG 0.364288 2.3:-2440776 None:intergenic
TTTGTGCACACAATGGATTA+TGG 0.366920 2.3:+2441503 MS.gene76507:CDS
GTTAAGGAAGAAGTATGATT+TGG 0.371388 2.3:+2441545 MS.gene76507:CDS
TTCAGAGAGCTCAAAATTAG+AGG 0.383494 2.3:+2441633 MS.gene76507:CDS
TTGTGCACACAATGGATTAT+GGG 0.420002 2.3:+2441504 MS.gene76507:CDS
TCATACCTTGAGCCAACAAC+AGG 0.458603 2.3:-2440690 None:intergenic
GAGGGAGGATTGTTCAATGT+TGG 0.461435 2.3:-2441816 None:intergenic
CGAAGTATAGAACAAAGTTA+AGG 0.465009 2.3:+2441529 MS.gene76507:CDS
AGAGGACTTGACCCTGCTCT+TGG 0.473756 2.3:+2441651 MS.gene76507:CDS
TGGACAGATAGCAGAAGTAT+TGG 0.475164 2.3:+2441340 MS.gene76507:CDS
CAACAGCAGGAACCTGTTGT+TGG 0.477266 2.3:+2440678 MS.gene76507:CDS
GTGAATTAAATACCAAGAGC+AGG 0.481342 2.3:-2441663 None:intergenic
CTAATACAATTCAGCAAGTA+GGG 0.490574 2.3:+2440715 MS.gene76507:CDS
GCTAATACAATTCAGCAAGT+AGG 0.494698 2.3:+2440714 MS.gene76507:CDS
TTAGACATGAATTGAGTTGA+GGG 0.500404 2.3:-2441834 None:intergenic
GTAGGGAGTCCATGGAGTAC+TGG 0.501789 2.3:+2440732 MS.gene76507:CDS
AAGGAAGAAGTATGATTTGG+TGG 0.502714 2.3:+2441548 MS.gene76507:CDS
ATCCATTGTGTGCACAAAGC+AGG 0.505668 2.3:-2441498 None:intergenic
ATAATGTAAGGTTGCCACCT+TGG 0.507167 2.3:+2441450 MS.gene76507:intron
CTCTCTGAACTCTTGACATA+GGG 0.516209 2.3:-2441619 None:intergenic
ACAAAGCAGGCATCATTAGC+AGG 0.519823 2.3:-2441485 None:intergenic
TTCAGCAAGTAGGGAGTCCA+TGG 0.521718 2.3:+2440724 MS.gene76507:CDS
TGTCATGAGAACCAAACAAA+TGG 0.529201 2.3:+2440765 MS.gene76507:CDS
GCTCTCTGAACTCTTGACAT+AGG 0.530518 2.3:-2441620 None:intergenic
CTTAGACATGAATTGAGTTG+AGG 0.545566 2.3:-2441835 None:intergenic
AGGAACCTGTTGTTGGCTCA+AGG 0.566558 2.3:+2440685 MS.gene76507:CDS
GCAGGTAAATGAAGCTTCCA+AGG 0.571017 2.3:-2441467 None:intergenic
TCAAATAATCCAGTACTCCA+TGG 0.579513 2.3:-2440741 None:intergenic
GACATGAATTGAGTTGAGGG+AGG 0.606886 2.3:-2441831 None:intergenic
GGAGCAGAAGACTCAACAGC+AGG 0.615251 2.3:+2440665 MS.gene76507:CDS
CAGATAGCAGAAGTATTGGA+TGG 0.622869 2.3:+2441344 MS.gene76507:CDS
TTGAGTCTTCTGCTCCTCAG+TGG 0.624600 2.3:-2440658 None:intergenic
TGAATTAAATACCAAGAGCA+GGG 0.629149 2.3:-2441662 None:intergenic
TGTGCACACAATGGATTATG+GGG 0.633195 2.3:+2441505 MS.gene76507:CDS
ATCTGTCCAAATGTTACACA+AGG 0.643300 2.3:-2441326 None:intergenic
TGCCTGCTTTGTGCACACAA+TGG 0.656127 2.3:+2441496 MS.gene76507:CDS
TGAGAAATCACATCTGAATG+TGG 0.657682 2.3:-2441576 None:intergenic
ATAGCAGAAGTATTGGATGG+TGG 0.672429 2.3:+2441347 MS.gene76507:CDS
GGTAAATGAAGCTTCCAAGG+TGG 0.699590 2.3:-2441464 None:intergenic
AAGGGAGATGCAGACCACTG+AGG 0.731299 2.3:+2440644 None:intergenic
TCTTGACATAGGGAACAACA+AGG 0.757057 2.3:-2441609 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATCTTATTTAATTAAATACA+TGG - chr2.3:2441401-2441420 None:intergenic 10.0%
!!! TATATATACCTTTTTTTATA+TGG + chr2.3:2441276-2441295 MS.gene76507:intron 10.0%
!! TTGTTAATTGTAATAATGTA+AGG + chr2.3:2441438-2441457 MS.gene76507:intron 15.0%
!! TTTATTCATCAAATATAAAG+TGG - chr2.3:2441691-2441710 None:intergenic 15.0%
!!! TCATTTTCTCAAATTATTAT+CGG + chr2.3:2441056-2441075 MS.gene76507:intron 15.0%
!! AGAAAAAACTTGATGAAATT+TGG + chr2.3:2440885-2440904 MS.gene76507:intron 20.0%
!! ATTACTTAAGAAATTCAACA+AGG - chr2.3:2440921-2440940 None:intergenic 20.0%
!! CAATGAAATAAAAATGTGTT+TGG - chr2.3:2441217-2441236 None:intergenic 20.0%
! AAACAAACTAAGTAGTTCAA+TGG - chr2.3:2440813-2440832 None:intergenic 25.0%
! AACAATTCATAGTTCATAGT+AGG - chr2.3:2441156-2441175 None:intergenic 25.0%
! AATTAAATACATGGTGAGTT+GGG - chr2.3:2441392-2441411 None:intergenic 25.0%
! ACAATTCATAGTTCATAGTA+GGG - chr2.3:2441155-2441174 None:intergenic 25.0%
! AGAAGATATTACCATTTGTT+TGG - chr2.3:2440779-2440798 None:intergenic 25.0%
! ATTCATCAAATATAAAGTGG+AGG - chr2.3:2441688-2441707 None:intergenic 25.0%
! TAATTAAATACATGGTGAGT+TGG - chr2.3:2441393-2441412 None:intergenic 25.0%
! TTGTTAAACTTGTAATATGC+AGG + chr2.3:2441234-2441253 MS.gene76507:intron 25.0%
!!! ATAACAAATTTTTTGAGTGC+AGG + chr2.3:2441747-2441766 MS.gene76507:intron 25.0%
!!! TAACAAATTTTTTGAGTGCA+GGG + chr2.3:2441748-2441767 MS.gene76507:intron 25.0%
ATTAAATACATGGTGAGTTG+GGG - chr2.3:2441391-2441410 None:intergenic 30.0%
CGAAGTATAGAACAAAGTTA+AGG + chr2.3:2441529-2441548 MS.gene76507:CDS 30.0%
CTAATACAATTCAGCAAGTA+GGG + chr2.3:2440715-2440734 MS.gene76507:CDS 30.0%
GCTGCAAACCATATAAAAAA+AGG - chr2.3:2441287-2441306 None:intergenic 30.0%
TGAATTAAATACCAAGAGCA+GGG - chr2.3:2441665-2441684 None:intergenic 30.0%
TTAAGTAATTCTTGAGCACA+TGG + chr2.3:2440932-2440951 MS.gene76507:intron 30.0%
! ACACTTTCAATTTGAAGTGT+CGG - chr2.3:2440980-2440999 None:intergenic 30.0%
! GTTAAGGAAGAAGTATGATT+TGG + chr2.3:2441545-2441564 MS.gene76507:CDS 30.0%
! TTTTTGCCTTGTGTAACATT+TGG + chr2.3:2441320-2441339 MS.gene76507:CDS 30.0%
!! TTAGACATGAATTGAGTTGA+GGG - chr2.3:2441837-2441856 None:intergenic 30.0%
ATCTGTCCAAATGTTACACA+AGG - chr2.3:2441329-2441348 None:intergenic 35.0%
GCTAATACAATTCAGCAAGT+AGG + chr2.3:2440714-2440733 MS.gene76507:CDS 35.0%
GTGAATTAAATACCAAGAGC+AGG - chr2.3:2441666-2441685 None:intergenic 35.0%
TCAAATAATCCAGTACTCCA+TGG - chr2.3:2440744-2440763 None:intergenic 35.0%
TGAGAAATCACATCTGAATG+TGG - chr2.3:2441579-2441598 None:intergenic 35.0%
TGTCATGAGAACCAAACAAA+TGG + chr2.3:2440765-2440784 MS.gene76507:CDS 35.0%
TGTTCATGTCATGTCTGTAT+TGG + chr2.3:2441096-2441115 MS.gene76507:intron 35.0%
TTCAGAGAGCTCAAAATTAG+AGG + chr2.3:2441633-2441652 MS.gene76507:CDS 35.0%
! AAGGAAGAAGTATGATTTGG+TGG + chr2.3:2441548-2441567 MS.gene76507:CDS 35.0%
! CTTAGACATGAATTGAGTTG+AGG - chr2.3:2441838-2441857 None:intergenic 35.0%
! GGTGCTACATATATTTGTGA+CGG - chr2.3:2440959-2440978 None:intergenic 35.0%
!! TTGTGCACACAATGGATTAT+GGG + chr2.3:2441504-2441523 MS.gene76507:CDS 35.0%
!! TTTGTGCACACAATGGATTA+TGG + chr2.3:2441503-2441522 MS.gene76507:CDS 35.0%
ATAATGTAAGGTTGCCACCT+TGG + chr2.3:2441450-2441469 MS.gene76507:intron 40.0%
CTCTCTGAACTCTTGACATA+GGG - chr2.3:2441622-2441641 None:intergenic 40.0%
TCTTGACATAGGGAACAACA+AGG - chr2.3:2441612-2441631 None:intergenic 40.0%
! TGGACAGATAGCAGAAGTAT+TGG + chr2.3:2441340-2441359 MS.gene76507:CDS 40.0%
!! ATAGCAGAAGTATTGGATGG+TGG + chr2.3:2441347-2441366 MS.gene76507:CDS 40.0%
!! CAGATAGCAGAAGTATTGGA+TGG + chr2.3:2441344-2441363 MS.gene76507:CDS 40.0%
!! TGTGCACACAATGGATTATG+GGG + chr2.3:2441505-2441524 MS.gene76507:CDS 40.0%
!!! CAAATTTTTTGAGTGCAGGG+TGG + chr2.3:2441751-2441770 MS.gene76507:intron 40.0%
ACAAAGCAGGCATCATTAGC+AGG - chr2.3:2441488-2441507 None:intergenic 45.0%
ATCCATTGTGTGCACAAAGC+AGG - chr2.3:2441501-2441520 None:intergenic 45.0%
CAGACACAGATGACATGTGT+TGG - chr2.3:2441005-2441024 None:intergenic 45.0%
GAGGGAGGATTGTTCAATGT+TGG - chr2.3:2441819-2441838 None:intergenic 45.0%
GCAGGTAAATGAAGCTTCCA+AGG - chr2.3:2441470-2441489 None:intergenic 45.0%
GCTCTCTGAACTCTTGACAT+AGG - chr2.3:2441623-2441642 None:intergenic 45.0%
GGTAAATGAAGCTTCCAAGG+TGG - chr2.3:2441467-2441486 None:intergenic 45.0%
TCATACCTTGAGCCAACAAC+AGG - chr2.3:2440693-2440712 None:intergenic 45.0%
! AAATACATGGTGAGTTGGGG+AGG - chr2.3:2441388-2441407 None:intergenic 45.0%
!! GACATGAATTGAGTTGAGGG+AGG - chr2.3:2441834-2441853 None:intergenic 45.0%
!!! TTTTTGAGTGCAGGGTGGAA+TGG + chr2.3:2441756-2441775 MS.gene76507:intron 45.0%
CAACAGCAGGAACCTGTTGT+TGG + chr2.3:2440678-2440697 MS.gene76507:CDS 50.0%
TGCCTGCTTTGTGCACACAA+TGG + chr2.3:2441496-2441515 MS.gene76507:CDS 50.0%
TTCAGCAAGTAGGGAGTCCA+TGG + chr2.3:2440724-2440743 MS.gene76507:CDS 50.0%
TTGAGTCTTCTGCTCCTCAG+TGG - chr2.3:2440661-2440680 None:intergenic 50.0%
!! AGGAACCTGTTGTTGGCTCA+AGG + chr2.3:2440685-2440704 MS.gene76507:CDS 50.0%
AGAGGACTTGACCCTGCTCT+TGG + chr2.3:2441651-2441670 MS.gene76507:CDS 55.0%
GGAGCAGAAGACTCAACAGC+AGG + chr2.3:2440665-2440684 MS.gene76507:CDS 55.0%
GTAGGGAGTCCATGGAGTAC+TGG + chr2.3:2440732-2440751 MS.gene76507:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 2440651 2441860 2440651 ID=MS.gene76507
chr2.3 mRNA 2440651 2441860 2440651 ID=MS.gene76507.t1;Parent=MS.gene76507
chr2.3 exon 2440651 2440786 2440651 ID=MS.gene76507.t1.exon1;Parent=MS.gene76507.t1
chr2.3 CDS 2440651 2440786 2440651 ID=cds.MS.gene76507.t1;Parent=MS.gene76507.t1
chr2.3 exon 2441306 2441377 2441306 ID=MS.gene76507.t1.exon2;Parent=MS.gene76507.t1
chr2.3 CDS 2441306 2441377 2441306 ID=cds.MS.gene76507.t1;Parent=MS.gene76507.t1
chr2.3 exon 2441460 2441672 2441460 ID=MS.gene76507.t1.exon3;Parent=MS.gene76507.t1
chr2.3 CDS 2441460 2441672 2441460 ID=cds.MS.gene76507.t1;Parent=MS.gene76507.t1
chr2.3 exon 2441769 2441860 2441769 ID=MS.gene76507.t1.exon4;Parent=MS.gene76507.t1
chr2.3 CDS 2441769 2441860 2441769 ID=cds.MS.gene76507.t1;Parent=MS.gene76507.t1
Gene Sequence

>MS.gene76507

ATGCAGACCACTGAGGAGCAGAAGACTCAACAGCAGGAACCTGTTGTTGGCTCAAGGTATGAAGCTAATACAATTCAGCAAGTAGGGAGTCCATGGAGTACTGGATTATTTGACTGTCATGAGAACCAAACAAATGGTAATATCTTCTCAACTTTAATTCCATTGAACTACTTAGTTTGTTTATTTATAATAGCTAGTTTATTTATCTGTTTCAACTTTTGTTAAAAATTGTAAAGAAAAAACTTGATGAAATTTGGTAATATCTAACCTTGTTGAATTTCTTAAGTAATTCTTGAGCACATGGACCGTCACAAATATATGTAGCACCGACACTTCAAATTGAAAGTGTATCCAACACATGTCATCTGTGTCTGACATCAACACGTATAGATACATTCAATTATTTCATTTTCTCAAATTATTATCGGCGTCGACGTGTCATCTGTGTTCATGTCATGTCTGTATTGGCACTTCATAGCACATGACTTCTTTGTTTTTTATCCCTACTATGAACTATGAATTGTTTGAATTCTTTAGAGTTGAAAGAAGCAAATTTTTGCTTGCCAAACACATTTTTATTTCATTGTTAAACTTGTAATATGCAGGAATAGTTTATCTGATTATATATATATACCTTTTTTTATATGGTTTGCAGCTATTATGACAGCATTTTTGCCTTGTGTAACATTTGGACAGATAGCAGAAGTATTGGATGGTGGAGAACTTAGTAAGTACCTCCCCAACTCACCATGTATTTAATTAAATAAGATGAAAATACTCTAATTAATTGTTAATTGTAATAATGTAAGGTTGCCACCTTGGAAGCTTCATTTACCTGCTAATGATGCCTGCTTTGTGCACACAATGGATTATGGGGTCGAAGTATAGAACAAAGTTAAGGAAGAAGTATGATTTGGTGGAAGCTCCACATTCAGATGTGATTTCTCACATCTTTTGTCCTTGTTGTTCCCTATGTCAAGAGTTCAGAGAGCTCAAAATTAGAGGACTTGACCCTGCTCTTGGTATTTAATTCACCTCCACTTTATATTTGATGAATAAAAATGTTCATTTATAAAGTGACTCAAAGTTGACAACTATAACAAATTTTTTGAGTGCAGGGTGGAATGGTATTCTTGCACTACAGCATTCAAAACAGCAAAGTGATCCAACATTGAACAATCCTCCCTCAACTCAATTCATGTCTAAGTGA
Protein sequence

>MS.gene76507.t1

MQTTEEQKTQQQEPVVGSRYEANTIQQVGSPWSTGLFDCHENQTNAIMTAFLPCVTFGQIAEVLDGGELSCHLGSFIYLLMMPALCTQWIMGSKYRTKLRKKYDLVEAPHSDVISHIFCPCCSLCQEFRELKIRGLDPALGWNGILALQHSKQQSDPTLNNPPSTQFMSK