AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene70849

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene70849.t1 MTR_5g089170 98.031 254 5 0 1 254 1 254 0.0 522
MS.gene70849.t1 MTR_3g101870 48.235 340 82 12 1 250 1 336 4.18e-92 276
MS.gene70849.t1 MTR_4g011850 73.529 170 6 2 85 254 9 139 3.05e-71 215
MS.gene70849.t1 MTR_5g010680 44.053 227 100 3 15 215 14 239 1.23e-57 187
MS.gene70849.t1 MTR_1g100777 41.532 248 120 5 17 246 10 250 1.42e-55 181
MS.gene70849.t1 MTR_7g091370 45.274 201 100 2 18 218 15 205 8.41e-54 174
MS.gene70849.t1 MTR_0020s0020 39.338 272 118 6 16 249 24 286 3.42e-52 173
MS.gene70849.t1 MTR_5g017470 37.295 244 125 5 18 242 2 236 3.69e-48 161
MS.gene70849.t1 MTR_5g029680 46.597 191 90 2 22 212 29 207 8.51e-45 157
MS.gene70849.t1 MTR_6g043060 69.892 93 28 0 24 116 21 113 4.59e-43 149
MS.gene70849.t1 MTR_1g102860 50.943 159 58 2 23 181 38 176 4.17e-41 144
MS.gene70849.t1 MTR_7g095680 65.957 94 32 0 23 116 47 140 3.64e-40 142
MS.gene70849.t1 MTR_1g071360 45.029 171 63 3 23 192 30 170 3.85e-40 142
MS.gene70849.t1 MTR_1g071360 45.029 171 63 3 23 192 27 167 5.92e-40 142
MS.gene70849.t1 MTR_8g087540 66.667 99 32 1 18 116 6 103 2.87e-39 140
MS.gene70849.t1 MTR_8g083100 68.132 91 29 0 26 116 23 113 1.73e-38 140
MS.gene70849.t1 MTR_1g061170 44.512 164 68 3 19 181 43 184 1.54e-37 137
MS.gene70849.t1 MTR_2g100680 63.830 94 34 0 23 116 29 122 3.38e-37 136
MS.gene70849.t1 MTR_4g088900 40.361 166 87 3 22 183 30 187 5.54e-37 130
MS.gene70849.t1 MTR_2g100670 58.824 102 42 0 15 116 23 124 3.34e-35 128
MS.gene70849.t1 MTR_6g086805 59.184 98 40 0 19 116 5 102 4.61e-35 128
MS.gene70849.t1 MTR_3g104550 42.138 159 73 1 23 181 44 183 7.35e-35 128
MS.gene70849.t1 MTR_4g077970 43.949 157 75 2 25 181 12 155 1.13e-34 130
MS.gene70849.t1 MTR_2g100670 58.824 102 42 0 15 116 131 232 2.81e-34 127
MS.gene70849.t1 MTR_2g017890 57.000 100 42 1 18 117 9 107 1.12e-33 125
MS.gene70849.t1 MTR_8g105780 59.794 97 38 1 24 119 21 117 3.29e-33 124
MS.gene70849.t1 MTR_4g045757 62.069 58 22 0 25 82 14 71 2.01e-19 80.5
MS.gene70849.t1 MTR_5g047190 41.304 92 47 2 33 117 1 92 2.82e-16 72.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene70849.t1 AT1G46264 61.364 220 53 5 20 211 29 244 1.00e-87 264
MS.gene70849.t1 AT4G36990 39.286 252 133 4 12 247 1 248 4.09e-54 176
MS.gene70849.t1 AT5G62020 40.800 250 129 3 18 249 16 264 2.11e-53 175
MS.gene70849.t1 AT4G11660 71.845 103 29 0 17 119 51 153 2.62e-50 169
MS.gene70849.t1 AT1G32330 46.196 184 87 3 22 204 34 206 4.01e-45 158
MS.gene70849.t1 AT1G32330 45.946 185 88 3 21 204 33 206 5.03e-45 157
MS.gene70849.t1 AT2G41690 43.094 181 93 3 23 194 38 217 7.66e-44 149
MS.gene70849.t1 AT4G17750 65.714 105 36 0 15 119 42 146 2.46e-43 153
MS.gene70849.t1 AT3G22830 66.327 98 33 0 20 117 56 153 4.51e-40 143
MS.gene70849.t1 AT5G16820 67.000 100 31 2 21 120 24 121 4.11e-39 142
MS.gene70849.t1 AT5G16820 67.000 100 31 2 21 120 24 121 4.11e-39 142
MS.gene70849.t1 AT3G02990 66.667 96 31 1 21 116 20 114 4.20e-39 141
MS.gene70849.t1 AT5G43840 60.952 105 41 0 23 127 17 121 5.61e-39 137
MS.gene70849.t1 AT5G03720 63.265 98 36 0 25 122 55 152 3.63e-38 138
MS.gene70849.t1 AT5G03720 63.265 98 36 0 25 122 55 152 3.63e-38 138
MS.gene70849.t1 AT3G63350 36.239 218 118 5 19 221 22 233 2.94e-37 132
MS.gene70849.t1 AT2G26150 59.794 97 39 0 20 116 39 135 5.44e-37 133
MS.gene70849.t1 AT2G26150 59.794 97 39 0 20 116 39 135 5.44e-37 133
MS.gene70849.t1 AT3G51910 60.417 96 38 0 20 115 24 119 5.74e-36 129
MS.gene70849.t1 AT4G13980 64.835 91 32 0 26 116 24 114 1.02e-35 132
MS.gene70849.t1 AT5G54070 57.895 95 40 0 21 115 67 161 3.06e-35 129
MS.gene70849.t1 AT3G24520 60.000 95 38 0 22 116 14 108 5.88e-35 128
MS.gene70849.t1 AT1G67970 50.420 119 58 1 24 141 18 136 1.34e-33 125
MS.gene70849.t1 AT4G18880 65.657 99 33 1 18 116 9 106 1.52e-31 120
MS.gene70849.t1 AT5G45710 42.442 172 91 3 25 191 13 181 4.39e-31 118
MS.gene70849.t1 AT5G45710 42.442 172 91 3 25 191 13 181 4.39e-31 118
MS.gene70849.t1 AT4G18870 44.706 85 47 0 25 109 146 230 4.76e-20 87.4
MS.gene70849.t1 AT4G18870 38.596 114 62 3 26 137 14 121 2.67e-18 82.4

Find 38 sgRNAs with CRISPR-Local

Find 57 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGATATCAGTGTTTGATTT+AGG 0.203557 5.3:+71945639 None:intergenic
CTCTTTGGTGTTCCTCTTTG+TGG 0.237760 5.3:-71945375 MS.gene70849:CDS
AGCTCTTCTGTGAAGCTCTT+TGG 0.317364 5.3:-71945390 MS.gene70849:CDS
CTATTACAATCTTTATCATT+TGG 0.339266 5.3:+71945411 None:intergenic
ATGAAACTACATTTGTTGTT+TGG 0.362655 5.3:-71946442 MS.gene70849:CDS
AGAAGATCTCTAGCAAATTC+AGG 0.373696 5.3:+71946413 None:intergenic
TCTTTATCATTTGGTAATTG+AGG 0.392241 5.3:+71945420 None:intergenic
CTTTGTTCAAAGGGTGAAGC+AGG 0.399996 5.3:+71945495 None:intergenic
ATTGTTGCTTCTTTGTTCAA+AGG 0.403141 5.3:+71945485 None:intergenic
TCTTATTAATCAAGATTACT+AGG 0.404553 5.3:+71945336 None:intergenic
ACAACTTCTCAAGCTTTGTT+AGG 0.420026 5.3:-71946370 MS.gene70849:CDS
ATCCAGCATATACTTTCATC+TGG 0.441694 5.3:+71945681 None:intergenic
TTGTTGCTTCTTTGTTCAAA+GGG 0.445911 5.3:+71945486 None:intergenic
TCAAGAAGGTTGTTGCTGAT+AGG 0.447682 5.3:-71945827 MS.gene70849:CDS
AAACTACATTTGTTGTTTGG+AGG 0.447885 5.3:-71946439 MS.gene70849:CDS
TGGTATGTCTTTGTCAAGAA+AGG 0.453363 5.3:+71946512 None:intergenic
CTTCTTGCAGGGTTTCAAGA+AGG 0.454510 5.3:-71945841 MS.gene70849:intron
AGATAACATGGTGTTCACTA+TGG 0.459097 5.3:-71946558 MS.gene70849:CDS
TTTGATTTAGGAGATGGTAA+TGG 0.467405 5.3:+71945651 None:intergenic
TCAGTGTTTGATTTAGGAGA+TGG 0.490616 5.3:+71945645 None:intergenic
TCACTGACCACATTGTATCT+TGG 0.491347 5.3:-71946472 MS.gene70849:CDS
GTCTTTGTCAAGAAAGGAGC+AGG 0.498324 5.3:+71946518 None:intergenic
ATTGTTGTTGAAAGTGTTGA+GGG 0.507424 5.3:+71945733 None:intergenic
CTGAGGACAATCAAAGACTA+AGG 0.512782 5.3:-71945605 MS.gene70849:CDS
AACCAGATGAAAGTATATGC+TGG 0.518742 5.3:-71945683 MS.gene70849:CDS
ATCTATTATGTGAAATCCAC+AGG 0.520532 5.3:-71945764 MS.gene70849:CDS
AGAAGGTTGTTGCTGATAGG+TGG 0.520569 5.3:-71945824 MS.gene70849:CDS
TATCTTAACAGCACTTTCTG+AGG 0.558486 5.3:-71945622 MS.gene70849:CDS
GAAGGTTGTTGCTGATAGGT+GGG 0.581284 5.3:-71945823 MS.gene70849:CDS
TGAGAGGATCATCAACAAGT+TGG 0.584975 5.3:+71946492 None:intergenic
TATTGTTGTTGAAAGTGTTG+AGG 0.604906 5.3:+71945732 None:intergenic
GATACAATGTGGTCAGTGAG+AGG 0.630246 5.3:+71946476 None:intergenic
TGATGGCTTTCACATTAGAG+AGG 0.643157 5.3:-71946586 MS.gene70849:CDS
AGAGAGGTGTGAAGATAACA+TGG 0.644284 5.3:-71946570 MS.gene70849:CDS
TTGTTGTTGAAAGTGTTGAG+GGG 0.692779 5.3:+71945734 None:intergenic
AGATCTCTAGCAAATTCAGG+AGG 0.698266 5.3:+71946416 None:intergenic
AGGGTGAAGCAGGACTCACA+TGG 0.700311 5.3:+71945505 None:intergenic
CATCACTCCAAGATACAATG+TGG 0.717706 5.3:+71946465 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GTTTAGAAATTATATGAAAA+TGG + chr5.3:71945828-71945847 None:intergenic 15.0%
!! CTATTACAATCTTTATCATT+TGG + chr5.3:71946517-71946536 None:intergenic 20.0%
!! GCAAATGATTATTTCAAAAA+AGG - chr5.3:71946130-71946149 MS.gene70849:intron 20.0%
!! TAACTATAATAATGAACTGA+AGG + chr5.3:71945661-71945680 None:intergenic 20.0%
!! TTATGAAAATATGCTGAAAA+CGG - chr5.3:71945874-71945893 MS.gene70849:intron 20.0%
!!! TATTTTGAAGCTTATTGAAT+TGG - chr5.3:71946471-71946490 MS.gene70849:CDS 20.0%
! CTGACAATAATTTGAGAAAA+TGG - chr5.3:71945961-71945980 MS.gene70849:intron 25.0%
! GTACTAAAACAATATCAAGA+AGG + chr5.3:71945635-71945654 None:intergenic 25.0%
! TTGTTGTGCTTGAAAAAATT+GGG + chr5.3:71945539-71945558 None:intergenic 25.0%
!! AAGATATCAGTGTTTGATTT+AGG + chr5.3:71946289-71946308 None:intergenic 25.0%
!! TCTTTATCATTTGGTAATTG+AGG + chr5.3:71946508-71946527 None:intergenic 25.0%
!!! ATAAGCTATTTCTGTAACAA+AGG - chr5.3:71945786-71945805 MS.gene70849:CDS 25.0%
!!! ATGAAACTACATTTGTTGTT+TGG - chr5.3:71945483-71945502 MS.gene70849:CDS 25.0%
AATTATTGTCAGTGCTTCAT+AGG + chr5.3:71945953-71945972 None:intergenic 30.0%
AATTTGAGAAAATGGAACAG+CGG - chr5.3:71945969-71945988 MS.gene70849:intron 30.0%
ATCTATTATGTGAAATCCAC+AGG - chr5.3:71946161-71946180 MS.gene70849:intron 30.0%
GTTGTTGTGCTTGAAAAAAT+TGG + chr5.3:71945540-71945559 None:intergenic 30.0%
TCATCTGGTTGAAAAATTTG+TGG + chr5.3:71946232-71946251 None:intergenic 30.0%
! ATTGTTGCTTCTTTGTTCAA+AGG + chr5.3:71946443-71946462 None:intergenic 30.0%
! TTGTTGCTTCTTTGTTCAAA+GGG + chr5.3:71946442-71946461 None:intergenic 30.0%
! TTTGATTTAGGAGATGGTAA+TGG + chr5.3:71946277-71946296 None:intergenic 30.0%
!! AAACTACATTTGTTGTTTGG+AGG - chr5.3:71945486-71945505 MS.gene70849:CDS 30.0%
!! ATTGTTGTTGAAAGTGTTGA+GGG + chr5.3:71946195-71946214 None:intergenic 30.0%
!! TATTGTTGTTGAAAGTGTTG+AGG + chr5.3:71946196-71946215 None:intergenic 30.0%
AGAAGATCTCTAGCAAATTC+AGG + chr5.3:71945515-71945534 None:intergenic 35.0%
AGATAACATGGTGTTCACTA+TGG - chr5.3:71945367-71945386 MS.gene70849:CDS 35.0%
ATCCAGCATATACTTTCATC+TGG + chr5.3:71946247-71946266 None:intergenic 35.0%
CACATGTATCAATGTCATGT+TGG - chr5.3:71946000-71946019 MS.gene70849:intron 35.0%
TATCTTAACAGCACTTTCTG+AGG - chr5.3:71946303-71946322 MS.gene70849:intron 35.0%
TCCTCTTTGTGGAAAAAAGA+GGG - chr5.3:71946561-71946580 MS.gene70849:CDS 35.0%
TGGTATGTCTTTGTCAAGAA+AGG + chr5.3:71945416-71945435 None:intergenic 35.0%
TTCCTCTTTGTGGAAAAAAG+AGG - chr5.3:71946560-71946579 MS.gene70849:CDS 35.0%
! AACCAGATGAAAGTATATGC+TGG - chr5.3:71946242-71946261 MS.gene70849:intron 35.0%
! TCAGTGTTTGATTTAGGAGA+TGG + chr5.3:71946283-71946302 None:intergenic 35.0%
!! ACAACTTCTCAAGCTTTGTT+AGG - chr5.3:71945555-71945574 MS.gene70849:CDS 35.0%
!! TTGTTGTTGAAAGTGTTGAG+GGG + chr5.3:71946194-71946213 None:intergenic 35.0%
AGATCTCTAGCAAATTCAGG+AGG + chr5.3:71945512-71945531 None:intergenic 40.0%
CATCACTCCAAGATACAATG+TGG + chr5.3:71945463-71945482 None:intergenic 40.0%
CTGAGGACAATCAAAGACTA+AGG - chr5.3:71946320-71946339 MS.gene70849:intron 40.0%
GTACTTCTCTTCTTCTTGCA+GGG - chr5.3:71946073-71946092 MS.gene70849:intron 40.0%
TCAAGAAGGTTGTTGCTGAT+AGG - chr5.3:71946098-71946117 MS.gene70849:intron 40.0%
TCACTGACCACATTGTATCT+TGG - chr5.3:71945453-71945472 MS.gene70849:CDS 40.0%
TGAGAGGATCATCAACAAGT+TGG + chr5.3:71945436-71945455 None:intergenic 40.0%
! AGAGAGGTGTGAAGATAACA+TGG - chr5.3:71945355-71945374 MS.gene70849:CDS 40.0%
!! GCTGAAAACGGCTTTTGAAA+AGG - chr5.3:71945886-71945905 MS.gene70849:intron 40.0%
!!! ACCCTCTTTTTTCCACAAAG+AGG + chr5.3:71946565-71946584 None:intergenic 40.0%
AGAAGGTTGTTGCTGATAGG+TGG - chr5.3:71946101-71946120 MS.gene70849:intron 45.0%
AGCTCTTCTGTGAAGCTCTT+TGG - chr5.3:71946535-71946554 MS.gene70849:CDS 45.0%
CGTACTTCTCTTCTTCTTGC+AGG - chr5.3:71946072-71946091 MS.gene70849:intron 45.0%
CTTCTTGCAGGGTTTCAAGA+AGG - chr5.3:71946084-71946103 MS.gene70849:intron 45.0%
CTTTGTTCAAAGGGTGAAGC+AGG + chr5.3:71946433-71946452 None:intergenic 45.0%
GAAGGTTGTTGCTGATAGGT+GGG - chr5.3:71946102-71946121 MS.gene70849:intron 45.0%
GATACAATGTGGTCAGTGAG+AGG + chr5.3:71945452-71945471 None:intergenic 45.0%
GTCTTTGTCAAGAAAGGAGC+AGG + chr5.3:71945410-71945429 None:intergenic 45.0%
!! CTCTTTGGTGTTCCTCTTTG+TGG - chr5.3:71946550-71946569 MS.gene70849:CDS 45.0%
! GTTGAGGGGTTTTTCTCCTG+TGG + chr5.3:71946180-71946199 None:intergenic 50.0%
AGGGTGAAGCAGGACTCACA+TGG + chr5.3:71946423-71946442 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr5.3 gene 71945341 71946606 71945341 ID=MS.gene70849
chr5.3 mRNA 71945341 71946606 71945341 ID=MS.gene70849.t1;Parent=MS.gene70849
chr5.3 exon 71946355 71946606 71946355 ID=MS.gene70849.t1.exon1;Parent=MS.gene70849.t1
chr5.3 CDS 71946355 71946606 71946355 ID=cds.MS.gene70849.t1;Parent=MS.gene70849.t1
chr5.3 exon 71945341 71945853 71945341 ID=MS.gene70849.t1.exon2;Parent=MS.gene70849.t1
chr5.3 CDS 71945341 71945853 71945341 ID=cds.MS.gene70849.t1;Parent=MS.gene70849.t1
Gene Sequence

>MS.gene70849

ATGGCTTTCACATTAGAGAGGTGTGAAGATAACATGGTGTTCACTATGGAGTCTCAGAAATCAGTGCCTGCTCCTTTCTTGACAAAGACATACCAACTTGTTGATGATCCTCTCACTGACCACATTGTATCTTGGAGTGATGATGAAACTACATTTGTTGTTTGGAGGCCTCCTGAATTTGCTAGAGATCTTCTTCCCAATTTTTTCAAGCACAACAACTTCTCAAGCTTTGTTAGGCAACTAAATACATATGTGAGTATCTTCAAATTCTAACTTCTATGTTCTCTATATCCTTCTTGATATTGTTTTAGTACTATCCTTCAGTTCATTATTATAGTTACATGATTGACTATGATAGTAAAACATCGTATATTTAGTAACTGTTTGTATAAACAACTTAATTAAACGATTATAGCGAAAGTGTTTATCATATAAATACTCATGAATAAGCTATTTCTGTAACAAAGGAGAAAAGAAAATCAAACCATTTTCATATAATTTCTAAACTGTTTTTCGAAGTTATACTAGAGAACTTATGAAAATATGCTGAAAACGGCTTTTGAAAAGGTCGTAAGTTATTTCTGTAAGCTCTTCAAAACAGTTTCGCAACCTATGAAGCACTGACAATAATTTGAGAAAATGGAACAGCGGAATAAAGTCACATGTATCAATGTCATGTTGGTGTCTGATGCGTATCTTCAACGTGAAGTGTGCTCACAAACATATACTTACGTACTTCTCTTCTTCTTGCAGGGTTTCAAGAAGGTTGTTGCTGATAGGTGGGAGTTTGCAAATGATTATTTCAAAAAAGGAGCTAAGCATCTATTATGTGAAATCCACAGGAGAAAAACCCCTCAACACTTTCAACAACAATACTATGAACAATCACCACAAATTTTTCAACCAGATGAAAGTATATGCTGGATTGACTCTCCATTACCATCTCCTAAATCAAACACTGATATCTTAACAGCACTTTCTGAGGACAATCAAAGACTAAGGAGAAAGAATTTCATGCTGTTATCAGAACTCAGTCACATGAAGAGTCTTTACAATGATATTATATATTTCATTCAAAACCATGTGAGTCCTGCTTCACCCTTTGAACAAAGAAGCAACAATAGTGCTGCTATTTTGAAGCTTATTGAATTGGATTCTGCATCACCTCAATTACCAAATGATAAAGATTGTAATAGCTCTTCTGTGAAGCTCTTTGGTGTTCCTCTTTGTGGAAAAAAGAGGGTTCATCCTAGTAATCTTGATTAA
Protein sequence

>MS.gene70849.t1

MAFTLERCEDNMVFTMESQKSVPAPFLTKTYQLVDDPLTDHIVSWSDDETTFVVWRPPEFARDLLPNFFKHNNFSSFVRQLNTYGFKKVVADRWEFANDYFKKGAKHLLCEIHRRKTPQHFQQQYYEQSPQIFQPDESICWIDSPLPSPKSNTDILTALSEDNQRLRRKNFMLLSELSHMKSLYNDIIYFIQNHVSPASPFEQRSNNSAAILKLIELDSASPQLPNDKDCNSSSVKLFGVPLCGKKRVHPSNLD