AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene069242


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene069242.t1 MTR_8g031490 99.024 205 2 0 1 205 1 205 1.54e-152 421
MS.gene069242.t1 MTR_7g076720 77.295 207 45 2 1 205 1 207 5.47e-112 318
MS.gene069242.t1 MTR_3g070050 61.497 187 66 2 1 181 1 187 4.20e-83 245
MS.gene069242.t1 MTR_8g097300 54.680 203 86 3 1 202 1 198 6.12e-75 225
MS.gene069242.t1 MTR_1g017950 48.718 195 93 3 1 189 1 194 1.20e-62 193
MS.gene069242.t1 MTR_3g070050 59.722 144 52 2 44 181 2 145 2.53e-59 183
MS.gene069242.t1 MTR_3g070050 53.521 71 33 0 3 73 61 131 1.76e-21 86.7
MS.gene069242.t1 MTR_4g106800 48.045 179 80 2 2 171 3 177 7.96e-57 178
MS.gene069242.t1 MTR_3g070033 56.923 65 28 0 117 181 6 70 5.39e-24 90.9
MS.gene069242.t1 MTR_3g070033 52.459 61 29 0 22 82 5 65 2.19e-15 68.6
MS.gene069242.t1 MTR_1g106100 35.849 106 66 1 59 162 20 125 1.28e-17 76.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene069242.t1 AT3G61230 69.697 198 56 2 2 195 3 200 1.02e-103 298
MS.gene069242.t1 AT1G01780 67.500 200 65 0 1 200 1 200 1.80e-101 292
MS.gene069242.t1 AT2G45800 70.098 204 55 4 1 198 1 204 1.15e-100 291
MS.gene069242.t1 AT3G55770 67.232 177 54 2 1 173 1 177 1.69e-88 259
MS.gene069242.t1 AT3G55770 67.232 177 54 2 1 173 1 177 1.69e-88 259
MS.gene069242.t1 AT3G55770 67.232 177 54 2 1 173 1 177 1.69e-88 259
MS.gene069242.t1 AT3G55770 67.232 177 54 2 1 173 1 177 1.69e-88 259
MS.gene069242.t1 AT2G39900 66.292 178 55 2 1 173 1 178 2.36e-87 256
MS.gene069242.t1 AT3G55770 56.398 211 54 3 1 173 1 211 1.60e-80 240
MS.gene069242.t1 AT3G55770 42.857 98 54 1 97 194 3 98 2.44e-19 83.2
MS.gene069242.t1 AT3G55770 35.088 114 40 1 3 82 101 214 2.29e-14 69.7
MS.gene069242.t1 AT2G45800 65.116 172 51 6 34 198 4 173 1.35e-70 213
MS.gene069242.t1 AT2G45800 52.113 71 34 0 3 73 68 138 6.32e-21 86.3
MS.gene069242.t1 AT1G10200 50.286 175 81 2 1 169 1 175 9.49e-61 188
MS.gene069242.t1 AT3G55770 65.414 133 41 3 1 129 1 132 2.83e-56 175
MS.gene069242.t1 AT3G55770 42.857 98 54 1 97 194 3 98 1.41e-20 84.0
MS.gene069242.t1 AT3G55770 66.142 127 37 3 1 121 1 127 1.15e-53 168
MS.gene069242.t1 AT3G55770 42.857 98 54 1 97 194 3 98 8.61e-21 84.3
MS.gene069242.t1 AT1G10200 45.385 130 65 2 46 169 4 133 2.24e-37 127
MS.gene069242.t1 AT1G10200 48.611 72 37 0 3 74 61 132 2.25e-17 75.9

Find 35 sgRNAs with CRISPR-Local

Find 82 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCATTCAAGAGGTTTCTTC+TGG 0.235129 8.2:+66795937 None:intergenic
GTTTCTTCTGGATGATCTTC+AGG 0.252303 8.2:+66795949 None:intergenic
TCAAGCTATGCTGCTCTTGA+TGG 0.353414 8.2:-66796117 MS.gene069242:CDS
CAAAATGAACCCTGCAGTAT+AGG 0.377575 8.2:+66796091 None:intergenic
AGCAAGTCGCACATTTGTCC+AGG 0.436853 8.2:+66796526 None:intergenic
TGCTTTAGGTGTGCTCATGC+AGG 0.437095 8.2:-66796156 MS.gene069242:CDS
TTGATGGTGTCCTATACTGC+AGG 0.448405 8.2:-66796101 MS.gene069242:CDS
TCTACCACAAGACATGCTTT+AGG 0.453453 8.2:-66796170 MS.gene069242:CDS
AACCGTCTATCCACTGGAAA+AGG 0.456725 8.2:-66796499 MS.gene069242:intron
CTCTAAAACCGTCTATCCAC+TGG 0.500295 8.2:-66796505 MS.gene069242:CDS
GAAGAAAACATGTCTTTCAC+TGG 0.519623 8.2:-66797578 None:intergenic
TTGTTACTGTTTCATTCAAG+AGG 0.524503 8.2:+66795927 None:intergenic
TTCCATGTTCAGTGGTACCC+TGG 0.525905 8.2:-66796544 MS.gene069242:CDS
TCATTGCAAGGGAAATCTTA+CGG 0.534756 8.2:-66797456 MS.gene069242:intron
AACATGGAAGATAGTCTACT+TGG 0.545011 8.2:+66796558 None:intergenic
GGTGCTTCTGCTGATTGTGA+AGG 0.545791 8.2:+66795970 None:intergenic
ATTAAACAGGTGACACTGGA+AGG 0.549370 8.2:-66796198 MS.gene069242:intron
CTTCAAATGTAGTCATTGCA+AGG 0.555260 8.2:-66797468 MS.gene069242:CDS
GCAATAGAGAATTCCATCCA+TGG 0.558350 8.2:+66797132 None:intergenic
AGTACATACTCCTCCATGGA+TGG 0.562913 8.2:-66797145 MS.gene069242:CDS
TTCTGACAAAGCAAATGAGC+TGG 0.565336 8.2:-66796916 MS.gene069242:intron
TACTCAAATCTGCACACAAG+AGG 0.573033 8.2:-66796032 MS.gene069242:CDS
GCTTTAGGTGTGCTCATGCA+GGG 0.590942 8.2:-66796155 MS.gene069242:CDS
TTCAAATGTAGTCATTGCAA+GGG 0.595286 8.2:-66797467 MS.gene069242:CDS
TGATGGTGTCCTATACTGCA+GGG 0.598936 8.2:-66796100 MS.gene069242:CDS
GATGAGTACATACTCCTCCA+TGG 0.608526 8.2:-66797149 MS.gene069242:CDS
GTCCAGGGTACCACTGAACA+TGG 0.612761 8.2:+66796542 None:intergenic
GCATAGCTTGAATGTGTGAG+AGG 0.618734 8.2:+66796129 None:intergenic
AAATCTGCACACAAGAGGAA+TGG 0.618865 8.2:-66796027 MS.gene069242:CDS
TGGAACTCTTGATAAATGCA+AGG 0.629692 8.2:-66797558 MS.gene069242:CDS
CATAGCTTGAATGTGTGAGA+GGG 0.638300 8.2:+66796130 None:intergenic
AGACTATCTTCCATGTTCAG+TGG 0.654978 8.2:-66796552 MS.gene069242:CDS
GCAAGTCGCACATTTGTCCA+GGG 0.661497 8.2:+66796527 None:intergenic
CACACCTAAAGCATGTCTTG+TGG 0.697099 8.2:+66796166 None:intergenic
ATAGAGAATTCCATCCATGG+AGG 0.764020 8.2:+66797135 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTTATCTCTAATAATTTA+TGG + chr8.2:66796764-66796783 None:intergenic 10.0%
!! TAAAATAAAAATTCAAGTAA+TGG + chr8.2:66796664-66796683 None:intergenic 10.0%
!!! AATTGTTTCTTTTAAAAATT+TGG - chr8.2:66797099-66797118 MS.gene069242:CDS 10.0%
!!! ATATAATTTTTTGTTCATTT+TGG - chr8.2:66796539-66796558 MS.gene069242:CDS 10.0%
!! AAAATAAAAAATGAAGGATT+TGG + chr8.2:66796466-66796485 None:intergenic 15.0%
!! AAAATTATATGTGTATCAAT+TGG + chr8.2:66796529-66796548 None:intergenic 15.0%
!!! TTAAAGCTTCAATTTATTTT+TGG - chr8.2:66796283-66796302 MS.gene069242:intron 15.0%
!!! TTTTTTTGGTTTTATTAAAC+AGG - chr8.2:66797300-66797319 MS.gene069242:intron 15.0%
!! AATATGGAATTCATAAATGA+AGG - chr8.2:66797238-66797257 MS.gene069242:intron 20.0%
!! TAAAAGATAAAGATACGATA+TGG + chr8.2:66796627-66796646 None:intergenic 20.0%
!!! AGACAAATTTCATATCTTTT+TGG + chr8.2:66796732-66796751 None:intergenic 20.0%
!!! GCTTTTTTAAATCAAATTCT+TGG + chr8.2:66797152-66797171 None:intergenic 20.0%
!!! TACAGCTTGTTTTAAAATTT+AGG + chr8.2:66796259-66796278 None:intergenic 20.0%
! AAAAAGTTGAATTAGCCATA+TGG - chr8.2:66796696-66796715 MS.gene069242:intron 25.0%
! AATTAGCCATATGGAAATTA+GGG - chr8.2:66796705-66796724 MS.gene069242:intron 25.0%
! CCAATATTCAATAATGTCAT+TGG + chr8.2:66796338-66796357 None:intergenic 25.0%
! CCAATGACATTATTGAATAT+TGG - chr8.2:66796335-66796354 MS.gene069242:intron 25.0%
! TTACCTGATTTCATATAACT+TGG - chr8.2:66797125-66797144 MS.gene069242:CDS 25.0%
! TTTAAACACAAGCTGTAATA+TGG - chr8.2:66797222-66797241 MS.gene069242:intron 25.0%
!! AAAAAATGTGTTACGACTTT+TGG + chr8.2:66797286-66797305 None:intergenic 25.0%
!! AACAATTTTCCACAAAATCA+AGG + chr8.2:66797086-66797105 None:intergenic 25.0%
!! TCTTTCTAGTAGTGATATAA+AGG - chr8.2:66796825-66796844 MS.gene069242:intron 25.0%
!!! AAAGTCGTAACACATTTTTT+TGG - chr8.2:66797286-66797305 MS.gene069242:intron 25.0%
!!! ATGCTTATTTGAAGCATTTT+AGG - chr8.2:66796191-66796210 MS.gene069242:CDS 25.0%
!!! GTATTGATCTTTTACAGAAT+AGG - chr8.2:66796927-66796946 MS.gene069242:intron 25.0%
ATGTCATTGGTATCTCATTT+AGG + chr8.2:66796325-66796344 None:intergenic 30.0%
GAATTAGCCATATGGAAATT+AGG - chr8.2:66796704-66796723 MS.gene069242:intron 30.0%
TTCAAATGTAGTCATTGCAA+GGG - chr8.2:66796044-66796063 MS.gene069242:CDS 30.0%
! ACATTTTGAACAGCTTTTCA+AGG - chr8.2:66796407-66796426 MS.gene069242:intron 30.0%
! AGGAGCATATGAAGAATTTA+AGG + chr8.2:66796118-66796137 None:intergenic 30.0%
! TCATTTTGCACAACTTTTCA+TGG - chr8.2:66797435-66797454 MS.gene069242:intron 30.0%
! TTCATAAATGAAGGTGCATT+CGG - chr8.2:66797247-66797266 MS.gene069242:intron 30.0%
! TTTTATTAAACAGGTGACAC+TGG - chr8.2:66797309-66797328 MS.gene069242:intron 30.0%
!! TACATTTGAAGCAGCTTTTA+TGG + chr8.2:66796034-66796053 None:intergenic 30.0%
AAAGCAATCATACGTTTCGT+TGG - chr8.2:66797167-66797186 MS.gene069242:intron 35.0%
AACATGGAAGATAGTCTACT+TGG + chr8.2:66796956-66796975 None:intergenic 35.0%
ATCATACGTTTCGTTGGATA+TGG - chr8.2:66797173-66797192 MS.gene069242:intron 35.0%
CTTCAAATGTAGTCATTGCA+AGG - chr8.2:66796043-66796062 MS.gene069242:CDS 35.0%
GGTCCAAGTTATATGAAATC+AGG + chr8.2:66797131-66797150 None:intergenic 35.0%
TCATTGCAAGGGAAATCTTA+CGG - chr8.2:66796055-66796074 MS.gene069242:CDS 35.0%
TGGAACTCTTGATAAATGCA+AGG - chr8.2:66795953-66795972 MS.gene069242:CDS 35.0%
TTTGGTCCCTAATTTCCATA+TGG + chr8.2:66796714-66796733 None:intergenic 35.0%
! TGTTGTGATCCTTGATTTTG+TGG - chr8.2:66797074-66797093 MS.gene069242:intron 35.0%
! TTGAAGCAGCTTTTATGGTA+TGG + chr8.2:66796029-66796048 None:intergenic 35.0%
!! GGCAATTTTAGCAAGAACTT+TGG - chr8.2:66796435-66796454 MS.gene069242:intron 35.0%
AAATCTGCACACAAGAGGAA+TGG - chr8.2:66797484-66797503 MS.gene069242:CDS 40.0%
AGACTATCTTCCATGTTCAG+TGG - chr8.2:66796959-66796978 MS.gene069242:intron 40.0%
ATAGAGAATTCCATCCATGG+AGG + chr8.2:66796379-66796398 None:intergenic 40.0%
ATTAAACAGGTGACACTGGA+AGG - chr8.2:66797313-66797332 MS.gene069242:intron 40.0%
CAAAATGAACCCTGCAGTAT+AGG + chr8.2:66797423-66797442 None:intergenic 40.0%
CATAGCTTGAATGTGTGAGA+GGG + chr8.2:66797384-66797403 None:intergenic 40.0%
GCAATAGAGAATTCCATCCA+TGG + chr8.2:66796382-66796401 None:intergenic 40.0%
GTTTCTTCTGGATGATCTTC+AGG + chr8.2:66797565-66797584 None:intergenic 40.0%
TACTCAAATCTGCACACAAG+AGG - chr8.2:66797479-66797498 MS.gene069242:CDS 40.0%
TCTACCACAAGACATGCTTT+AGG - chr8.2:66797341-66797360 MS.gene069242:intron 40.0%
TTCTGACAAAGCAAATGAGC+TGG - chr8.2:66796595-66796614 MS.gene069242:intron 40.0%
! AACCTTTTCCAGTGGATAGA+CGG + chr8.2:66797017-66797036 None:intergenic 40.0%
! GCACAACTTTTCATGGAGAA+AGG - chr8.2:66797442-66797461 MS.gene069242:intron 40.0%
! TGTCGCGATTCTTGATTTTG+AGG - chr8.2:66797037-66797056 MS.gene069242:intron 40.0%
! TGTGTTACGACTTTTGGTCA+CGG + chr8.2:66797280-66797299 None:intergenic 40.0%
!! GAACAGCTTTTCAAGGAATC+TGG - chr8.2:66796414-66796433 MS.gene069242:intron 40.0%
AACCGTCTATCCACTGGAAA+AGG - chr8.2:66797012-66797031 MS.gene069242:intron 45.0%
AGTACATACTCCTCCATGGA+TGG - chr8.2:66796366-66796385 MS.gene069242:intron 45.0%
CACACCTAAAGCATGTCTTG+TGG + chr8.2:66797348-66797367 None:intergenic 45.0%
GATGAGTACATACTCCTCCA+TGG - chr8.2:66796362-66796381 MS.gene069242:intron 45.0%
GCATAGCTTGAATGTGTGAG+AGG + chr8.2:66797385-66797404 None:intergenic 45.0%
TCAAGCTATGCTGCTCTTGA+TGG - chr8.2:66797394-66797413 MS.gene069242:intron 45.0%
! TGATGGTGTCCTATACTGCA+GGG - chr8.2:66797411-66797430 MS.gene069242:intron 45.0%
! TGGAGGAGTATGTACTCATC+TGG + chr8.2:66796362-66796381 None:intergenic 45.0%
!! CTCTAAAACCGTCTATCCAC+TGG - chr8.2:66797006-66797025 MS.gene069242:intron 45.0%
!! TTGATGGTGTCCTATACTGC+AGG - chr8.2:66797410-66797429 MS.gene069242:intron 45.0%
!! AAAATTAAAATAAAAAATGA+AGG + chr8.2:66796472-66796491 None:intergenic 5.0%
!! TATGTATATAAATAATTAAA+AGG + chr8.2:66796138-66796157 None:intergenic 5.0%
AGCAAGTCGCACATTTGTCC+AGG + chr8.2:66796988-66797007 None:intergenic 50.0%
GCAAGTCGCACATTTGTCCA+GGG + chr8.2:66796987-66797006 None:intergenic 50.0%
TTCCATGTTCAGTGGTACCC+TGG - chr8.2:66796967-66796986 MS.gene069242:intron 50.0%
! CGACTTTTGGTCACGGAGTT+TGG + chr8.2:66797273-66797292 None:intergenic 50.0%
! GCTTTAGGTGTGCTCATGCA+GGG - chr8.2:66797356-66797375 MS.gene069242:intron 50.0%
! GGTGCTTCTGCTGATTGTGA+AGG + chr8.2:66797544-66797563 None:intergenic 50.0%
! TCGCGACAAACCTTTTCCAG+TGG + chr8.2:66797025-66797044 None:intergenic 50.0%
! TGCTTTAGGTGTGCTCATGC+AGG - chr8.2:66797355-66797374 MS.gene069242:intron 50.0%
! GTCCAGGGTACCACTGAACA+TGG + chr8.2:66796972-66796991 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 66795942 66797591 66795942 ID=MS.gene069242
chr8.2 mRNA 66795942 66797591 66795942 ID=MS.gene069242.t1;Parent=MS.gene069242
chr8.2 exon 66797457 66797591 66797457 ID=MS.gene069242.t1.exon1;Parent=MS.gene069242.t1
chr8.2 CDS 66797457 66797591 66797457 ID=cds.MS.gene069242.t1;Parent=MS.gene069242.t1
chr8.2 exon 66797077 66797170 66797077 ID=MS.gene069242.t1.exon2;Parent=MS.gene069242.t1
chr8.2 CDS 66797077 66797170 66797077 ID=cds.MS.gene069242.t1;Parent=MS.gene069242.t1
chr8.2 exon 66796917 66796945 66796917 ID=MS.gene069242.t1.exon3;Parent=MS.gene069242.t1
chr8.2 CDS 66796917 66796945 66796917 ID=cds.MS.gene069242.t1;Parent=MS.gene069242.t1
chr8.2 exon 66796500 66796589 66796500 ID=MS.gene069242.t1.exon4;Parent=MS.gene069242.t1
chr8.2 CDS 66796500 66796589 66796500 ID=cds.MS.gene069242.t1;Parent=MS.gene069242.t1
chr8.2 exon 66795942 66796211 66795942 ID=MS.gene069242.t1.exon5;Parent=MS.gene069242.t1
chr8.2 CDS 66795942 66796211 66795942 ID=cds.MS.gene069242.t1;Parent=MS.gene069242.t1
Gene Sequence

>MS.gene069242

ATGTCTTTCACTGGAACTCTTGATAAATGCAAGGCTTGTGACAAGACTGTTTATGTTGTTGATTTGTTAACTCTTGAAAATATTCCATACCATAAAAGCTGCTTCAAATGTAGTCATTGCAAGGGAAATCTTACGGTATTTTTATTATTATTTTTTCTTGTTTTTTATCTTGTCCTTAAATTCTTCATATGCTCCTTTTAATTATTTATATACATAATGAAATGAAACAAATTATTTTGTGACAAGCATATGCTTATTTGAAGCATTTTAGGTGCAATTTCTTTTATTTGATATGATTTTATGAATAATTATTACCTAAATTTTAAAACAAGCTGTATTTTTTAAAGCTTCAATTTATTTTTGGTTACATTTTAAAGCTTCCTAAATGAGATACCAATGACATTATTGAATATTGGTCCAGATGAGTACATACTCCTCCATGGATGGAATTCTCTATTGCAAAACACATTTTGAACAGCTTTTCAAGGAATCTGGCAATTTTAGCAAGAACTTTGGTATGACCAAATCCTTCATTTTTTATTTTAATTTTAATTTTTTGTCTTTTATTATTCAATCTCAAAATACCAATTGATACACATATAATTTTTTGTTCATTTTGGCTAACATGTTATGTTAAATATTGCAGCAAAGTCTTCTGACAAAGCAAATGAGCTGGTATGTTCCATATCGTATCTTTATCTTTTAGCAATTTGAGTTTTCCATTACTTGAATTTTTATTTTATACACTACAAGAAAAAAGTTGAATTAGCCATATGGAAATTAGGGACCAAAAAGATATGAAATTTGTCTCTAATATCGCCATAAATTATTAGAGATAAATTTCATCAAATAATTATTATTTTGATAAGCATCAATTTTTTTTTCTTTCTAGTAGTGATATAAAGGTACATATATGTACGCATCTATGTATGTATACACAATATCAATTTGTATGTATTTTAGTGCTCTTTCTAATATATCAAATGTATTGATCTTTTACAGAATAGGACACCAAGTAGACTATCTTCCATGTTCAGTGGTACCCTGGACAAATGTGCGACTTGCTCTAAAACCGTCTATCCACTGGAAAAGGTTTGTCGCGATTCTTGATTTTGAGGAAAATTGCTGTTTTTGTTGTGATCCTTGATTTTGTGGAAAATTGTTTCTTTTAAAAATTTGGTTGTTACCTGATTTCATATAACTTGGACCAAGAATTTGATTTAAAAAAGCAATCATACGTTTCGTTGGATATGGTTCATAGTTTATCGATAAATGTAGTATTTAAACACAAGCTGTAATATGGAATTCATAAATGAAGGTGCATTCGGCCAAACTCCGTGACCAAAAGTCGTAACACATTTTTTTGGTTTTATTAAACAGGTGACACTGGAAGGAGAAATCTACCACAAGACATGCTTTAGGTGTGCTCATGCAGGGTGCCCTCTCACACATTCAAGCTATGCTGCTCTTGATGGTGTCCTATACTGCAGGGTTCATTTTGCACAACTTTTCATGGAGAAAGGTAACTACAGTCATGTACTCAAATCTGCACACAAGAGGAATGGTTCTTCTTCTGAATCAGTTGAAGTTGTTGAAGAGCCTTCACAATCAGCAGAAGCACCTGAAGATCATCCAGAAGAAACCTCTTGA

Protein sequence

>MS.gene069242.t1

MSFTGTLDKCKACDKTVYVVDLLTLENIPYHKSCFKCSHCKGNLTMSTYSSMDGILYCKTHFEQLFKESGNFSKNFAKSSDKANELNRTPSRLSSMFSGTLDKCATCSKTVYPLEKVTLEGEIYHKTCFRCAHAGCPLTHSSYAALDGVLYCRVHFAQLFMEKGNYSHVLKSAHKRNGSSSESVEVVEEPSQSAEAPEDHPEETS