AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene09620

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene09620.t1 MTR_5g015090 94.904 157 8 0 1 157 1 157 7.24e-108 304
MS.gene09620.t1 MTR_4g097440 55.747 174 60 6 1 157 1 174 1.46e-53 167
MS.gene09620.t1 MTR_3g103360 40.476 126 65 2 11 136 16 131 3.25e-17 73.9
MS.gene09620.t1 MTR_1g017570 54.321 81 37 0 60 140 59 139 5.41e-16 70.9
MS.gene09620.t1 MTR_7g029400 41.667 96 49 1 58 153 81 169 2.66e-15 70.1
MS.gene09620.t1 MTR_4g070860 44.444 81 45 0 58 138 27 107 6.06e-15 68.2
MS.gene09620.t1 MTR_8g015250 36.719 128 69 2 26 153 44 159 2.06e-14 67.4
MS.gene09620.t1 MTR_8g086020 33.636 110 66 2 28 136 7 110 2.50e-13 63.9
MS.gene09620.t1 MTR_3g117120 38.542 96 51 1 58 145 27 122 9.00e-13 62.4
MS.gene09620.t1 MTR_1g022495 43.038 79 45 0 58 136 27 105 2.31e-11 58.9
MS.gene09620.t1 MTR_6g016375 45.570 79 43 0 58 136 87 165 3.27e-11 59.3
MS.gene09620.t1 MTR_1g087040 35.632 87 39 2 47 125 5 82 3.72e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene09620.t1 AT3G49760 38.849 139 84 1 5 142 15 153 1.66e-28 103
MS.gene09620.t1 AT4G37730 41.304 138 73 2 7 136 135 272 4.32e-21 87.4
MS.gene09620.t1 AT2G22850 48.235 85 44 0 59 143 127 211 6.49e-19 80.1
MS.gene09620.t1 AT2G22850 48.235 85 44 0 59 143 127 211 6.49e-19 80.1
MS.gene09620.t1 AT3G30530 40.833 120 66 2 27 146 49 163 1.19e-15 70.5
MS.gene09620.t1 AT1G75390 37.500 120 74 1 31 149 10 129 1.25e-15 70.5
MS.gene09620.t1 AT1G75390 41.667 96 55 1 31 125 10 105 7.67e-15 67.0
MS.gene09620.t1 AT2G18160 40.506 79 47 0 58 136 28 106 5.38e-13 63.5
MS.gene09620.t1 AT4G34590 41.176 85 50 0 58 142 24 108 6.21e-13 63.2
MS.gene09620.t1 AT1G13600 49.367 79 40 0 58 136 83 161 1.75e-12 62.8
MS.gene09620.t1 AT5G38800 41.414 99 51 1 38 136 56 147 2.44e-12 61.6
MS.gene09620.t1 AT2G04038 43.750 96 49 1 36 131 54 144 4.06e-12 61.2
MS.gene09620.t1 AT4G36730 38.554 83 49 1 61 141 222 304 9.65e-12 62.0
MS.gene09620.t1 AT4G36730 38.554 83 49 1 61 141 224 306 9.73e-12 62.0
MS.gene09620.t1 AT5G15830 45.570 79 43 0 58 136 71 149 1.59e-11 59.7

Find 52 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGACATCTAGAGAATTTA+CGG 0.286559 5.2:-7084152 MS.gene09620:CDS
GGGCTGGTGGGTTGGAAGGG+TGG 0.313437 5.2:+7084315 None:intergenic
GGATTGCTCGAACCGGAATA+TGG 0.324972 5.2:-7084241 MS.gene09620:CDS
ATATCATTCTCCTCCGCTTT+CGG 0.329484 5.2:+7084214 None:intergenic
TTCGTTTGGTTCGCCTGAAC+CGG 0.342625 5.2:+7084275 None:intergenic
GTGACCTCCTTGCCGATTCC+CGG 0.351976 5.2:+7084187 None:intergenic
GCAACCCGTTGTTCAATTCC+CGG 0.358900 5.2:+7084100 None:intergenic
TTCGTCTAACTCCGTGAAAT+CGG 0.374640 5.2:+7084371 None:intergenic
GCTTTCGGTCCTCCATATTC+CGG 0.399400 5.2:+7084229 None:intergenic
CTTAGGGCTGGTGGGTTGGA+AGG 0.408872 5.2:+7084311 None:intergenic
ACCGGTTTAGAGTTGAAAAC+CGG 0.409929 5.2:-7084119 MS.gene09620:CDS
CCGGTTGGAACGAACCATGC+TGG 0.411515 5.2:-7084028 MS.gene09620:CDS
TCTCTATGCCTCCGATTTCA+CGG 0.417032 5.2:-7084382 MS.gene09620:CDS
CTCACTTCAAGCTCCGGTTC+AGG 0.426863 5.2:-7084288 MS.gene09620:CDS
CCGGAGCTTGAAGTGAGCTT+AGG 0.429061 5.2:+7084294 None:intergenic
CGGTTCGAGCAATCCATGAC+CGG 0.433029 5.2:+7084249 None:intergenic
AAAACCGGGAATTGAACAAC+GGG 0.452979 5.2:-7084104 MS.gene09620:CDS
ATTTACGGAACCAGGTGAAC+CGG 0.455271 5.2:-7084137 MS.gene09620:CDS
CCAGCATGGTTCGTTCCAAC+CGG 0.461195 5.2:+7084028 None:intergenic
TGAAGTGAGCTTAGGGCTGG+TGG 0.471435 5.2:+7084302 None:intergenic
CAACTCTAAACCGGTTCACC+TGG 0.478647 5.2:+7084127 None:intergenic
CGGAGCTTGAAGTGAGCTTA+GGG 0.479442 5.2:+7084295 None:intergenic
TTAGGGCTGGTGGGTTGGAA+GGG 0.484445 5.2:+7084312 None:intergenic
AATGATATCAAACCGGGAAT+CGG 0.489517 5.2:-7084199 MS.gene09620:CDS
TTCAACCTTTCTCATCTGCA+TGG 0.491200 5.2:-7083969 MS.gene09620:CDS
GGAGGAGAATGATATCAAAC+CGG 0.491685 5.2:-7084206 MS.gene09620:CDS
CGGTCATGGATTGCTCGAAC+CGG 0.507348 5.2:-7084248 MS.gene09620:CDS
TGAGCTTAGGGCTGGTGGGT+TGG 0.515513 5.2:+7084307 None:intergenic
CCTAAGCTCACTTCAAGCTC+CGG 0.518730 5.2:-7084294 MS.gene09620:CDS
CGGTTGGAACGAACCATGCT+GGG 0.526524 5.2:-7084027 MS.gene09620:CDS
GAACCGAAAATGAGTGGCTC+CGG 0.546667 5.2:-7084047 MS.gene09620:CDS
GAAGTGAGCTTAGGGCTGGT+GGG 0.547493 5.2:+7084303 None:intergenic
CGAAAATGAGTGGCTCCGGT+TGG 0.563412 5.2:-7084043 MS.gene09620:CDS
GGCATAGAGAGAAGAGAGCA+TGG 0.571054 5.2:+7084395 None:intergenic
CATGGCCATGCAGATGAGAA+AGG 0.571565 5.2:+7083964 None:intergenic
GCTTGAAGTGAGCTTAGGGC+TGG 0.571567 5.2:+7084299 None:intergenic
CCGGTTTAGAGTTGAAAACC+GGG 0.582456 5.2:-7084118 MS.gene09620:CDS
TCTAGAGAATTTACGGAACC+AGG 0.588686 5.2:-7084145 MS.gene09620:CDS
AGACGAAAGTTTAACGCCGT+GGG 0.596983 5.2:-7084355 MS.gene09620:CDS
TAGACGAAAGTTTAACGCCG+TGG 0.603199 5.2:-7084356 MS.gene09620:CDS
GTCTAACTCCGTGAAATCGG+AGG 0.604952 5.2:+7084374 None:intergenic
GGTCAAAAGTTGTCAAACAT+AGG 0.610074 5.2:-7084006 MS.gene09620:CDS
GGAATATGGAGGACCGAAAG+CGG 0.611264 5.2:-7084227 MS.gene09620:CDS
GAGGAGAATGATATCAAACC+GGG 0.616694 5.2:-7084205 MS.gene09620:CDS
TCAGCTGTGACAATATTGCA+TGG 0.636378 5.2:+7083946 None:intergenic
TATCAAACCGGGAATCGGCA+AGG 0.644322 5.2:-7084194 MS.gene09620:CDS
GTCAAACATAGGTCAAAACA+TGG 0.654401 5.2:-7083995 MS.gene09620:CDS
GTCTACGAACCGAAAATGAG+TGG 0.656434 5.2:-7084053 MS.gene09620:CDS
GAAAACCGGGAATTGAACAA+CGG 0.656607 5.2:-7084105 MS.gene09620:CDS
ATATGGAGGACCGAAAGCGG+AGG 0.670255 5.2:-7084224 MS.gene09620:CDS
TTGCTCGAACCGGAATATGG+AGG 0.676236 5.2:-7084238 MS.gene09620:CDS
CAAACCGGGAATCGGCAAGG+AGG 0.703537 5.2:-7084191 MS.gene09620:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAAGACATCTAGAGAATTTA+CGG - chr5.2:7084183-7084202 MS.gene09620:CDS 25.0%
AGAATGTTAGAAAAATCCCA+CGG + chr5.2:7083999-7084018 None:intergenic 30.0%
AATGATATCAAACCGGGAAT+CGG - chr5.2:7084136-7084155 MS.gene09620:CDS 35.0%
GGTCAAAAGTTGTCAAACAT+AGG - chr5.2:7084329-7084348 MS.gene09620:CDS 35.0%
GTCAAACATAGGTCAAAACA+TGG - chr5.2:7084340-7084359 MS.gene09620:CDS 35.0%
AAAACCGGGAATTGAACAAC+GGG - chr5.2:7084231-7084250 MS.gene09620:CDS 40.0%
ATATCATTCTCCTCCGCTTT+CGG + chr5.2:7084124-7084143 None:intergenic 40.0%
GAAAACCGGGAATTGAACAA+CGG - chr5.2:7084230-7084249 MS.gene09620:CDS 40.0%
GAGGAGAATGATATCAAACC+GGG - chr5.2:7084130-7084149 MS.gene09620:CDS 40.0%
GGAGGAGAATGATATCAAAC+CGG - chr5.2:7084129-7084148 MS.gene09620:CDS 40.0%
TCAGCTGTGACAATATTGCA+TGG + chr5.2:7084392-7084411 None:intergenic 40.0%
TCTAGAGAATTTACGGAACC+AGG - chr5.2:7084190-7084209 MS.gene09620:CDS 40.0%
TTCAACCTTTCTCATCTGCA+TGG - chr5.2:7084366-7084385 MS.gene09620:CDS 40.0%
TTCGTCTAACTCCGTGAAAT+CGG + chr5.2:7083967-7083986 None:intergenic 40.0%
! ACCGGTTTAGAGTTGAAAAC+CGG - chr5.2:7084216-7084235 MS.gene09620:CDS 40.0%
ACCAAACGAAAAACCGGTCA+TGG - chr5.2:7084073-7084092 MS.gene09620:CDS 45.0%
AGACGAAAGTTTAACGCCGT+GGG - chr5.2:7083980-7083999 MS.gene09620:CDS 45.0%
AGGCGAACCAAACGAAAAAC+CGG - chr5.2:7084067-7084086 MS.gene09620:CDS 45.0%
ATTTACGGAACCAGGTGAAC+CGG - chr5.2:7084198-7084217 MS.gene09620:CDS 45.0%
GTCTACGAACCGAAAATGAG+TGG - chr5.2:7084282-7084301 MS.gene09620:CDS 45.0%
TAGACGAAAGTTTAACGCCG+TGG - chr5.2:7083979-7083998 MS.gene09620:CDS 45.0%
TCTCTATGCCTCCGATTTCA+CGG - chr5.2:7083953-7083972 MS.gene09620:CDS 45.0%
! CCCGGTTTTCAACTCTAAAC+CGG + chr5.2:7084220-7084239 None:intergenic 45.0%
! CCGGTTTAGAGTTGAAAACC+GGG - chr5.2:7084217-7084236 MS.gene09620:CDS 45.0%
! TGACAACTTTTGACCCAGCA+TGG + chr5.2:7084324-7084343 None:intergenic 45.0%
!! TCCATGACCGGTTTTTCGTT+TGG + chr5.2:7084077-7084096 None:intergenic 45.0%
CATGGCCATGCAGATGAGAA+AGG + chr5.2:7084374-7084393 None:intergenic 50.0%
CCTAAGCTCACTTCAAGCTC+CGG - chr5.2:7084041-7084060 MS.gene09620:CDS 50.0%
CGGAGCTTGAAGTGAGCTTA+GGG + chr5.2:7084043-7084062 None:intergenic 50.0%
GAACCGAAAATGAGTGGCTC+CGG - chr5.2:7084288-7084307 MS.gene09620:CDS 50.0%
GCAACCCGTTGTTCAATTCC+CGG + chr5.2:7084238-7084257 None:intergenic 50.0%
GCTTTCGGTCCTCCATATTC+CGG + chr5.2:7084109-7084128 None:intergenic 50.0%
GGAATATGGAGGACCGAAAG+CGG - chr5.2:7084108-7084127 MS.gene09620:CDS 50.0%
GGATTGCTCGAACCGGAATA+TGG - chr5.2:7084094-7084113 MS.gene09620:CDS 50.0%
GTCTAACTCCGTGAAATCGG+AGG + chr5.2:7083964-7083983 None:intergenic 50.0%
TATCAAACCGGGAATCGGCA+AGG - chr5.2:7084141-7084160 MS.gene09620:CDS 50.0%
TTGCTCGAACCGGAATATGG+AGG - chr5.2:7084097-7084116 MS.gene09620:CDS 50.0%
! CAACCGGAGCCACTCATTTT+CGG + chr5.2:7084294-7084313 None:intergenic 50.0%
! CAACTCTAAACCGGTTCACC+TGG + chr5.2:7084211-7084230 None:intergenic 50.0%
! TTCGTTTGGTTCGCCTGAAC+CGG + chr5.2:7084063-7084082 None:intergenic 50.0%
ATATGGAGGACCGAAAGCGG+AGG - chr5.2:7084111-7084130 MS.gene09620:CDS 55.0%
CCAGCATGGTTCGTTCCAAC+CGG + chr5.2:7084310-7084329 None:intergenic 55.0%
CCGGAGCTTGAAGTGAGCTT+AGG + chr5.2:7084044-7084063 None:intergenic 55.0%
CGAAAATGAGTGGCTCCGGT+TGG - chr5.2:7084292-7084311 MS.gene09620:CDS 55.0%
CGGTTCGAGCAATCCATGAC+CGG + chr5.2:7084089-7084108 None:intergenic 55.0%
CGGTTGGAACGAACCATGCT+GGG - chr5.2:7084308-7084327 MS.gene09620:CDS 55.0%
CTCACTTCAAGCTCCGGTTC+AGG - chr5.2:7084047-7084066 MS.gene09620:CDS 55.0%
GCTTGAAGTGAGCTTAGGGC+TGG + chr5.2:7084039-7084058 None:intergenic 55.0%
TGAAGTGAGCTTAGGGCTGG+TGG + chr5.2:7084036-7084055 None:intergenic 55.0%
! CGGTCATGGATTGCTCGAAC+CGG - chr5.2:7084087-7084106 MS.gene09620:CDS 55.0%
! GAAGTGAGCTTAGGGCTGGT+GGG + chr5.2:7084035-7084054 None:intergenic 55.0%
!! TTAGGGCTGGTGGGTTGGAA+GGG + chr5.2:7084026-7084045 None:intergenic 55.0%
CAAACCGGGAATCGGCAAGG+AGG - chr5.2:7084144-7084163 MS.gene09620:CDS 60.0%
CCGGTTGGAACGAACCATGC+TGG - chr5.2:7084307-7084326 MS.gene09620:CDS 60.0%
! TGAGCTTAGGGCTGGTGGGT+TGG + chr5.2:7084031-7084050 None:intergenic 60.0%
!! CTTAGGGCTGGTGGGTTGGA+AGG + chr5.2:7084027-7084046 None:intergenic 60.0%
!! GTGACCTCCTTGCCGATTCC+CGG + chr5.2:7084151-7084170 None:intergenic 60.0%
!! GGGCTGGTGGGTTGGAAGGG+TGG + chr5.2:7084023-7084042 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 7083942 7084415 7083942 ID=MS.gene09620
chr5.2 mRNA 7083942 7084415 7083942 ID=MS.gene09620.t1;Parent=MS.gene09620
chr5.2 exon 7083942 7084415 7083942 ID=MS.gene09620.t1.exon1;Parent=MS.gene09620.t1
chr5.2 CDS 7083942 7084415 7083942 ID=cds.MS.gene09620.t1;Parent=MS.gene09620.t1
Gene Sequence

>MS.gene09620

ATGCTCTCTTCTCTCTATGCCTCCGATTTCACGGAGTTAGACGAAAGTTTAACGCCGTGGGATTTTTCTAACATTCTGCCACCCTTCCAACCCACCAGCCCTAAGCTCACTTCAAGCTCCGGTTCAGGCGAACCAAACGAAAAACCGGTCATGGATTGCTCGAACCGGAATATGGAGGACCGAAAGCGGAGGAGAATGATATCAAACCGGGAATCGGCAAGGAGGTCACGTATGAGAAAACAAAGACATCTAGAGAATTTACGGAACCAGGTGAACCGGTTTAGAGTTGAAAACCGGGAATTGAACAACGGGTTGCAGTTTTTGCTGTATCAATGCAATCGTCTACGAACCGAAAATGAGTGGCTCCGGTTGGAACGAACCATGCTGGGTCAAAAGTTGTCAAACATAGGTCAAAACATGGTTTTTCAACCTTTCTCATCTGCATGGCCATGCAATATTGTCACAGCTGAATAA
Protein sequence

>MS.gene09620.t1

MLSSLYASDFTELDESLTPWDFSNILPPFQPTSPKLTSSSGSGEPNEKPVMDCSNRNMEDRKRRRMISNRESARRSRMRKQRHLENLRNQVNRFRVENRELNNGLQFLLYQCNRLRTENEWLRLERTMLGQKLSNIGQNMVFQPFSSAWPCNIVTAE