AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene04918


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene04918.t1 MTR_3g067585 98.425 127 2 0 2 128 37 163 1.11e-92 265
MS.gene04918.t1 MTR_2g011590 82.677 127 22 0 2 128 36 162 1.58e-78 229
MS.gene04918.t1 MTR_8g107340 66.929 127 42 0 2 128 53 179 1.85e-63 191
MS.gene04918.t1 MTR_6g069470 63.780 127 46 0 2 128 49 175 5.74e-59 180
MS.gene04918.t1 MTR_1g031650 62.500 128 48 0 1 128 1 128 5.60e-58 176
MS.gene04918.t1 MTR_1g031650 62.205 127 48 0 2 128 39 165 1.57e-56 174
MS.gene04918.t1 MTR_4g084280 57.480 127 54 0 2 128 37 163 4.79e-50 157
MS.gene04918.t1 MTR_2g027100 40.496 121 70 1 2 120 37 157 3.42e-26 96.7
MS.gene04918.t1 MTR_8g038400 45.082 122 66 1 2 122 242 363 6.65e-26 100
MS.gene04918.t1 MTR_8g088320 39.516 124 74 1 2 124 197 320 8.88e-25 96.3
MS.gene04918.t1 MTR_2g030230 39.516 124 74 1 2 124 204 327 1.50e-24 95.9
MS.gene04918.t1 MTR_3g017500 42.857 126 63 2 2 122 245 366 1.43e-23 94.0
MS.gene04918.t1 MTR_3g017500 42.857 126 63 2 2 122 275 396 2.25e-23 93.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene04918.t1 AT3G17980 65.354 127 44 0 2 128 49 175 4.52e-61 185
MS.gene04918.t1 AT1G48590 68.000 125 40 0 2 126 42 166 5.55e-61 185
MS.gene04918.t1 AT1G48590 68.000 125 40 0 2 126 42 166 5.55e-61 185
MS.gene04918.t1 AT1G48590 68.000 125 40 0 2 126 73 197 1.11e-60 185
MS.gene04918.t1 AT5G37740 63.846 130 44 1 2 128 37 166 2.63e-58 178
MS.gene04918.t1 AT5G37740 63.077 130 45 1 2 128 47 176 2.98e-57 176
MS.gene04918.t1 AT1G66360 60.938 128 48 1 2 127 37 164 3.19e-56 173
MS.gene04918.t1 AT1G73580 59.055 127 52 0 2 128 40 166 1.33e-55 171
MS.gene04918.t1 AT1G70810 62.992 127 47 0 2 128 37 163 2.24e-55 170
MS.gene04918.t1 AT1G70790 62.016 129 47 1 2 128 38 166 2.36e-52 163
MS.gene04918.t1 AT1G70790 62.016 129 47 1 2 128 38 166 2.36e-52 163
MS.gene04918.t1 AT1G70790 62.016 129 47 1 2 128 38 166 2.36e-52 163
MS.gene04918.t1 AT1G70790 61.719 128 47 1 3 128 2 129 6.83e-52 161
MS.gene04918.t1 AT2G01540 57.364 129 53 1 2 128 38 166 7.80e-50 157
MS.gene04918.t1 AT1G23140 55.906 127 56 0 2 128 37 163 6.45e-48 151
MS.gene04918.t1 AT1G70800 55.556 126 56 0 2 127 46 171 6.45e-48 152
MS.gene04918.t1 AT1G48590 61.682 107 38 1 23 126 59 165 1.76e-43 140
MS.gene04918.t1 AT3G07940 47.059 119 62 1 2 119 260 378 2.27e-27 104
MS.gene04918.t1 AT5G47710 37.500 128 78 1 2 127 37 164 1.08e-26 97.8
MS.gene04918.t1 AT5G47710 37.500 128 78 1 2 127 37 164 1.08e-26 97.8
MS.gene04918.t1 AT5G47710 37.500 128 78 1 2 127 37 164 1.08e-26 97.8
MS.gene04918.t1 AT5G47710 37.500 128 78 1 2 127 37 164 1.08e-26 97.8
MS.gene04918.t1 AT4G05330 40.164 122 72 1 2 122 176 297 2.99e-23 92.0
MS.gene04918.t1 AT4G05330 40.164 122 72 1 2 122 211 332 5.28e-23 92.0
MS.gene04918.t1 AT4G05330 40.164 122 72 1 2 122 211 332 5.28e-23 92.0
MS.gene04918.t1 AT4G21160 40.984 122 71 1 2 122 212 333 8.07e-23 91.3
MS.gene04918.t1 AT4G21160 40.984 122 71 1 2 122 212 333 8.07e-23 91.3
MS.gene04918.t1 AT4G21160 40.984 122 71 1 2 122 212 333 8.07e-23 91.3
MS.gene04918.t1 AT4G21160 40.984 122 71 1 2 122 212 333 8.07e-23 91.3

Find 37 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTCAGCTTGGACGACAAAA+TGG 0.224120 3.4:-68016300 MS.gene04918:CDS
TTGCACTGGGTTGACATTCC+TGG 0.251961 3.4:-68016068 MS.gene04918:CDS
CAGAAGAGAGTCACATTGTT+TGG 0.286449 3.4:-68016163 MS.gene04918:CDS
TTAGTCTAAGAACCATGTTT+TGG 0.329440 3.4:+68016123 None:intergenic
CTTGTAACTATAGCCTCGTT+TGG 0.351980 3.4:+68016215 None:intergenic
GAATGTCAACCCAGTGCAAC+TGG 0.390071 3.4:+68016072 None:intergenic
AGTCACATTGTTTGGAAAGA+TGG 0.406065 3.4:-68016155 MS.gene04918:CDS
TTCAGCTTGGACGACAAAAT+GGG 0.451366 3.4:-68016299 MS.gene04918:CDS
TGGAGTATGAGGATCTGAAA+TGG 0.452578 3.4:+68016946 None:intergenic
AAGTGGAACTCCAGTTGCAC+TGG 0.453056 3.4:-68016082 MS.gene04918:CDS
TTGTAACTATAGCCTCGTTT+GGG 0.469930 3.4:+68016216 None:intergenic
GGTTGACATTCCTGGTTCAA+AGG 0.472769 3.4:-68016060 MS.gene04918:CDS
GCAGTAAAGATGCGGTTGGC+AGG 0.486595 3.4:-68016242 MS.gene04918:CDS
AAGTTACTTACTAGATGGAT+TGG 0.500412 3.4:+68016926 None:intergenic
GACTAAGAAATGTTGAATGT+GGG 0.501409 3.4:-68016106 MS.gene04918:CDS
GTTGACATTCCTGGTTCAAA+GGG 0.509321 3.4:-68016059 None:intergenic
CAAACGAGGCTATAGTTACA+AGG 0.509760 3.4:-68016214 MS.gene04918:CDS
ACTAGATGGATTGGAGTATG+AGG 0.510431 3.4:+68016935 None:intergenic
AAATGTTGAATGTGGGGAAG+TGG 0.522688 3.4:-68016099 MS.gene04918:CDS
AGACTAAGAAATGTTGAATG+TGG 0.533532 3.4:-68016107 MS.gene04918:CDS
AATGCAGTTTGTGTATGATA+AGG 0.538833 3.4:-68016327 MS.gene04918:intron
TGATGCAGAAGCTGAAGACC+AGG 0.545692 3.4:-68017018 MS.gene04918:CDS
GTCAAGTCCTCGTCCCACTC+AGG 0.564180 3.4:+68016974 None:intergenic
ACCTACATACCCTTTGAACC+AGG 0.570746 3.4:+68016050 None:intergenic
TGATAAGGACACATTCAGCT+TGG 0.578342 3.4:-68016312 MS.gene04918:CDS
TCTAAATCCTGAGTGGGACG+AGG 0.583435 3.4:-68016981 MS.gene04918:CDS
TGAAGCAGTAAAGATGCGGT+TGG 0.586646 3.4:-68016246 MS.gene04918:CDS
TCAGCTTGGACGACAAAATG+GGG 0.593533 3.4:-68016298 MS.gene04918:CDS
AAAGAATCTAAATCCTGAGT+GGG 0.594479 3.4:-68016987 MS.gene04918:CDS
AGTGGAACTCCAGTTGCACT+GGG 0.596489 3.4:-68016081 MS.gene04918:CDS
ACTAAGAAATGTTGAATGTG+GGG 0.600301 3.4:-68016105 MS.gene04918:CDS
AAAAGAATCTAAATCCTGAG+TGG 0.649840 3.4:-68016988 MS.gene04918:CDS
GTTGGCAGGTCTCCCAAACG+AGG 0.664369 3.4:-68016228 MS.gene04918:CDS
GGGGACGCTGAGTTTGACAT+CGG 0.670252 3.4:-68016278 MS.gene04918:CDS
AAACGAGGCTATAGTTACAA+GGG 0.687881 3.4:-68016213 MS.gene04918:CDS
GATGCAGAAGCTGAAGACCA+GGG 0.702840 3.4:-68017017 MS.gene04918:CDS
CAGCTTGGACGACAAAATGG+GGG 0.704105 3.4:-68016297 MS.gene04918:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAGATAAATGAAAAATTT+AGG - chr3.4:68016213-68016232 MS.gene04918:CDS 10.0%
!! ACTATCTGAATATTAAAAAA+TGG - chr3.4:68016689-68016708 MS.gene04918:intron 15.0%
!!! CGAAAATAAGTTATATTTTA+GGG - chr3.4:68016412-68016431 MS.gene04918:intron 15.0%
!! ATCATGAACATTATCAAATA+TGG - chr3.4:68016437-68016456 MS.gene04918:intron 20.0%
!! TCATGAACATTATCAAATAT+GGG - chr3.4:68016438-68016457 MS.gene04918:intron 20.0%
!! TGCTTATTGTAATATGAATT+TGG - chr3.4:68016594-68016613 MS.gene04918:intron 20.0%
!! TTATTGTAATATGAATTTGG+TGG - chr3.4:68016597-68016616 MS.gene04918:intron 20.0%
!!! GCGAAAATAAGTTATATTTT+AGG - chr3.4:68016411-68016430 MS.gene04918:intron 20.0%
!!! TATAACTTATTTTCGCTATA+AGG + chr3.4:68016407-68016426 None:intergenic 20.0%
!!! TGTGTTTCAAATCAAAATTT+TGG - chr3.4:68016187-68016206 MS.gene04918:CDS 20.0%
! AAGAAAAGTTACTTACTAGA+TGG + chr3.4:68016158-68016177 None:intergenic 25.0%
! ATCTTTACTGCTTCAAAAAA+TGG + chr3.4:68016825-68016844 None:intergenic 25.0%
! CATGAACATTATCAAATATG+GGG - chr3.4:68016439-68016458 MS.gene04918:intron 25.0%
! TCTTTACTGCTTCAAAAAAT+GGG + chr3.4:68016824-68016843 None:intergenic 25.0%
!! AATTAGTTCAAGTTCTTACT+TGG - chr3.4:68016476-68016495 MS.gene04918:intron 25.0%
!! ACATGATAAGACTTTTCAAT+TGG - chr3.4:68016329-68016348 MS.gene04918:intron 25.0%
!! TGGTAAAATTTTCCAAAACA+TGG - chr3.4:68016941-68016960 MS.gene04918:CDS 25.0%
AAAAGAATCTAAATCCTGAG+TGG - chr3.4:68016088-68016107 MS.gene04918:CDS 30.0%
AAAGAATCTAAATCCTGAGT+GGG - chr3.4:68016089-68016108 MS.gene04918:CDS 30.0%
AAGTTACTTACTAGATGGAT+TGG + chr3.4:68016153-68016172 None:intergenic 30.0%
AATGCAGTTTGTGTATGATA+AGG - chr3.4:68016749-68016768 MS.gene04918:intron 30.0%
ACTAAGAAATGTTGAATGTG+GGG - chr3.4:68016971-68016990 MS.gene04918:CDS 30.0%
AGACTAAGAAATGTTGAATG+TGG - chr3.4:68016969-68016988 MS.gene04918:CDS 30.0%
GACTAAGAAATGTTGAATGT+GGG - chr3.4:68016970-68016989 MS.gene04918:CDS 30.0%
! GATATGAAATTTTCTCGCTT+TGG - chr3.4:68016245-68016264 MS.gene04918:CDS 30.0%
! TGTAATATGAATTTGGTGGA+AGG - chr3.4:68016601-68016620 MS.gene04918:intron 30.0%
! TTAGTCTAAGAACCATGTTT+TGG + chr3.4:68016956-68016975 None:intergenic 30.0%
!!! TTTTTGAAGCAGTAAAGATG+CGG - chr3.4:68016826-68016845 MS.gene04918:intron 30.0%
AAACGAGGCTATAGTTACAA+GGG - chr3.4:68016863-68016882 MS.gene04918:intron 35.0%
AGTCACATTGTTTGGAAAGA+TGG - chr3.4:68016921-68016940 MS.gene04918:intron 35.0%
TCTCATATTATCCGCTGTTA+AGG - chr3.4:68016503-68016522 MS.gene04918:intron 35.0%
TTGTAACTATAGCCTCGTTT+GGG + chr3.4:68016863-68016882 None:intergenic 35.0%
! CGTGTATTTTACCTTAACAG+CGG + chr3.4:68016517-68016536 None:intergenic 35.0%
! GAAATTTTCTCGCTTTGGTT+TGG - chr3.4:68016250-68016269 MS.gene04918:CDS 35.0%
!! TAGATTCTTTTTCACTACCC+TGG + chr3.4:68016079-68016098 None:intergenic 35.0%
AAATGTTGAATGTGGGGAAG+TGG - chr3.4:68016977-68016996 MS.gene04918:CDS 40.0%
ATTCAGCTTGGACGACAAAA+TGG - chr3.4:68016776-68016795 MS.gene04918:intron 40.0%
CAAACGAGGCTATAGTTACA+AGG - chr3.4:68016862-68016881 MS.gene04918:intron 40.0%
CAGAAGAGAGTCACATTGTT+TGG - chr3.4:68016913-68016932 MS.gene04918:intron 40.0%
CATACACAAACTGCATTGCA+AGG + chr3.4:68016746-68016765 None:intergenic 40.0%
CTTGTAACTATAGCCTCGTT+TGG + chr3.4:68016864-68016883 None:intergenic 40.0%
TGATAAGGACACATTCAGCT+TGG - chr3.4:68016764-68016783 MS.gene04918:intron 40.0%
TGGAGTATGAGGATCTGAAA+TGG + chr3.4:68016133-68016152 None:intergenic 40.0%
TTCAGCTTGGACGACAAAAT+GGG - chr3.4:68016777-68016796 MS.gene04918:intron 40.0%
! GCTAAGCAATTTTGTCTGCT+AGG + chr3.4:68016894-68016913 None:intergenic 40.0%
!! ACTAGATGGATTGGAGTATG+AGG + chr3.4:68016144-68016163 None:intergenic 40.0%
GGTTGACATTCCTGGTTCAA+AGG - chr3.4:68017016-68017035 MS.gene04918:CDS 45.0%
TCAGCTTGGACGACAAAATG+GGG - chr3.4:68016778-68016797 MS.gene04918:intron 45.0%
TGAAGCAGTAAAGATGCGGT+TGG - chr3.4:68016830-68016849 MS.gene04918:intron 45.0%
AAGTGGAACTCCAGTTGCAC+TGG - chr3.4:68016994-68017013 MS.gene04918:CDS 50.0%
AGTGGAACTCCAGTTGCACT+GGG - chr3.4:68016995-68017014 MS.gene04918:CDS 50.0%
CAGCTTGGACGACAAAATGG+GGG - chr3.4:68016779-68016798 MS.gene04918:intron 50.0%
GAATGTCAACCCAGTGCAAC+TGG + chr3.4:68017007-68017026 None:intergenic 50.0%
TCTAAATCCTGAGTGGGACG+AGG - chr3.4:68016095-68016114 MS.gene04918:CDS 50.0%
! TTGCACTGGGTTGACATTCC+TGG - chr3.4:68017008-68017027 MS.gene04918:CDS 50.0%
GCAGTAAAGATGCGGTTGGC+AGG - chr3.4:68016834-68016853 MS.gene04918:intron 55.0%
GGGGACGCTGAGTTTGACAT+CGG - chr3.4:68016798-68016817 MS.gene04918:intron 55.0%
GTCAAGTCCTCGTCCCACTC+AGG + chr3.4:68016105-68016124 None:intergenic 60.0%
GTTGGCAGGTCTCCCAAACG+AGG - chr3.4:68016848-68016867 MS.gene04918:intron 60.0%


Chromosome Type Strat End Strand Name
chr3.4 gene 68016060 68017038 68016060 ID=MS.gene04918
chr3.4 mRNA 68016060 68017038 68016060 ID=MS.gene04918.t1;Parent=MS.gene04918
chr3.4 exon 68016937 68017038 68016937 ID=MS.gene04918.t1.exon1;Parent=MS.gene04918.t1
chr3.4 CDS 68016937 68017038 68016937 ID=cds.MS.gene04918.t1;Parent=MS.gene04918.t1
chr3.4 exon 68016060 68016342 68016060 ID=MS.gene04918.t1.exon2;Parent=MS.gene04918.t1
chr3.4 CDS 68016060 68016342 68016060 ID=cds.MS.gene04918.t1;Parent=MS.gene04918.t1
Gene Sequence

>MS.gene04918

ATGCAGAAGCTGAAGACCAGGGTAGTGAAAAAGAATCTAAATCCTGAGTGGGACGAGGACTTGACTTTATCCATTTCAGATCCTCATACTCCAATCCATCTAGTAAGTAACTTTTCTTTAAACGTTGTGTGTTTCAAATCAAAATTTTGGTTAAAAAGATAAATGAAAAATTTAGGTTAGTTAAAGATATGAAATTTTCTCGCTTTGGTTTGGCTATCTGTATTATCATGTTGTTATTGATGCATATCACTATTATCATATGACAGAAAACATGATAAGACTTTTCAATTGGTAGAAATTTGATCTGTATATGACAGAACACATCTTAAATCATACAAACACTACCTTATAGCGAAAATAAGTTATATTTTAGGGAGATCATGAACATTATCAAATATGGGGTTTGTTGAATTTAGAATTAGTTCAAGTTCTTACTTGGTCTGTCTCATATTATCCGCTGTTAAGGTAAAATACACGTCTTCAGAAAATAATTTACTCTATTTTTTTATGTAAATCAATTTTTTGACTATATTGTGCTTATTGTAATATGAATTTGGTGGAAGGACTAATTAGTGTATGATTGAGAAGATATAAAAAAATAAGAATATTGATGAAAAATTGTAATTAGTACTATCTGAATATTAAAAAATGGAAAATAATTTGAGACAATATTCTAAACATGACCTTGCAATGCAGTTTGTGTATGATAAGGACACATTCAGCTTGGACGACAAAATGGGGGACGCTGAGTTTGACATCGGCCCATTTTTTGAAGCAGTAAAGATGCGGTTGGCAGGTCTCCCAAACGAGGCTATAGTTACAAGGGTGCAACCTAGCAGACAAAATTGCTTAGCAGAAGAGAGTCACATTGTTTGGAAAGATGGTAAAATTTTCCAAAACATGGTTCTTAGACTAAGAAATGTTGAATGTGGGGAAGTGGAACTCCAGTTGCACTGGGTTGACATTCCTGGTTCAAAGG

Protein sequence

>MS.gene04918.t1

MQKLKTRVVKKNLNPEWDEDLTLSISDPHTPIHLFVYDKDTFSLDDKMGDAEFDIGPFFEAVKMRLAGLPNEAIVTRVQPSRQNCLAEESHIVWKDGKIFQNMVLRLRNVECGEVELQLHWVDIPGSK