AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene055767

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055767.t1 MTR_2g090765 97.992 249 5 0 1 249 1 249 1.48e-178 490
MS.gene055767.t1 MTR_7g101080 46.193 197 104 2 16 210 17 213 1.20e-51 169
MS.gene055767.t1 MTR_4g059720 48.913 184 90 2 9 188 9 192 9.89e-49 161
MS.gene055767.t1 MTR_2g093990 48.649 148 76 0 38 185 41 188 4.58e-40 139
MS.gene055767.t1 MTR_4g059840 38.222 225 129 5 31 245 66 290 1.84e-39 138
MS.gene055767.t1 MTR_4g059790 40.704 199 108 3 31 227 66 256 8.63e-38 134
MS.gene055767.t1 MTR_4g053380 40.092 217 125 4 31 242 70 286 1.29e-37 134
MS.gene055767.t1 MTR_8g087460 36.759 253 130 10 14 240 66 314 1.59e-35 129
MS.gene055767.t1 MTR_8g087470 36.471 255 138 10 14 248 66 316 6.19e-35 127
MS.gene055767.t1 MTR_2g017960 40.449 178 103 2 38 214 68 243 9.28e-35 125
MS.gene055767.t1 MTR_2g017970 40.449 178 103 2 38 214 68 243 1.16e-34 125
MS.gene055767.t1 MTR_2g093980 35.874 223 135 5 29 249 60 276 4.09e-34 124
MS.gene055767.t1 MTR_2g017950 36.199 221 119 6 20 220 50 268 6.85e-32 119
MS.gene055767.t1 MTR_8g087450 43.421 152 85 1 31 181 70 221 1.20e-31 118
MS.gene055767.t1 MTR_2g093970 40.789 152 89 1 38 188 69 220 3.41e-30 114
MS.gene055767.t1 MTR_4g059780 38.650 163 99 1 27 188 79 241 7.47e-30 113
MS.gene055767.t1 MTR_7g075453 33.471 242 132 6 12 232 161 394 2.33e-28 111
MS.gene055767.t1 MTR_5g098060 34.524 168 108 2 37 203 47 213 8.82e-28 107
MS.gene055767.t1 MTR_5g098420 29.960 247 139 8 25 248 184 419 4.32e-18 83.2
MS.gene055767.t1 MTR_2g437700 29.630 189 123 6 8 190 164 348 2.07e-14 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.gene055767.t1 AT2G20520 50.000 248 109 5 9 249 6 245 3.86e-72 221
MS.gene055767.t1 AT1G03870 53.488 215 93 3 37 249 38 247 1.58e-70 217
MS.gene055767.t1 AT5G44130 55.895 229 93 4 6 230 3 227 1.84e-67 209
MS.gene055767.t1 AT5G03170 56.667 180 75 3 27 204 25 203 1.65e-60 191
MS.gene055767.t1 AT5G60490 47.682 151 78 1 36 185 37 187 1.22e-41 143
MS.gene055767.t1 AT2G04780 34.896 192 117 4 37 224 45 232 1.52e-25 101
MS.gene055767.t1 AT2G04780 34.896 192 117 4 37 224 45 232 1.52e-25 101
MS.gene055767.t1 AT3G60900 33.333 192 122 3 18 209 171 356 8.45e-24 99.4
MS.gene055767.t1 AT2G45470 32.512 203 123 4 17 210 159 356 1.91e-18 84.3
MS.gene055767.t1 AT3G46550 31.579 171 109 5 20 185 190 357 3.15e-18 83.6
MS.gene055767.t1 AT4G12730 34.123 211 122 9 25 229 178 377 8.61e-18 82.0
MS.gene055767.t1 AT5G55730 31.169 154 100 3 37 189 185 333 7.88e-13 67.8
MS.gene055767.t1 AT5G55730 31.169 154 100 3 37 189 185 333 7.88e-13 67.8

Find 60 sgRNAs with CRISPR-Local

Find 77 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGCCTGAGGGTGCTGGTGC+TGG 0.134067 2.1:-10106298 None:intergenic
AGGGTGCTGGTGCTGGGGCT+TGG 0.151988 2.1:-10106291 None:intergenic
CTGGTGCTGGGGCTTGGGCT+TGG 0.184032 2.1:-10106285 None:intergenic
GGCCTGAGGGTGCTGGTGCT+GGG 0.229466 2.1:-10106297 None:intergenic
AAGATTGATGTGATGTTTAT+TGG 0.232703 2.1:-10106319 None:intergenic
TAATACCTGATGGAAGATTT+TGG 0.244650 2.1:-10106471 None:intergenic
CTTCTGGTAAAGAAGGTAAT+TGG 0.246525 2.1:+10106764 MS.gene055767:CDS
GGGTGCTGGTGCTGGGGCTT+GGG 0.247233 2.1:-10106290 None:intergenic
CCAGAAGCTTGTGTTCTAAC+TGG 0.262827 2.1:-10106748 None:intergenic
TCGGAAAGAGAGTAGTATTT+TGG 0.290230 2.1:-10106706 None:intergenic
GCTGGAAGGAATGTCGGTTT+TGG 0.292376 2.1:+10107054 MS.gene055767:CDS
GGGGCTTGGGCTTGGATTTG+TGG 0.297552 2.1:-10106277 None:intergenic
TCCTTTGGCTGTTTATCAAT+TGG 0.355466 2.1:+10106876 MS.gene055767:CDS
TTCTGGTAAAGAAGGTAATT+GGG 0.362073 2.1:+10106765 MS.gene055767:CDS
TTTGGAAGGCATTGTCTGTT+GGG 0.376563 2.1:-10106453 None:intergenic
AGATTGATGTGATGTTTATT+GGG 0.381794 2.1:-10106318 None:intergenic
TTTGGATTTGTTGCTGGGCT+TGG 0.386640 2.1:+10107072 MS.gene055767:CDS
GTTTGAAACTGTTAAGAAAT+CGG 0.392584 2.1:-10106725 None:intergenic
AACCAAGTCAATGTTTCAAC+TGG 0.415400 2.1:+10106811 MS.gene055767:CDS
CTTCAGAAGTTGAGTTGAGT+TGG 0.431445 2.1:-10106414 None:intergenic
TTTGAGACGACAGTTTCCTT+TGG 0.433465 2.1:+10106861 MS.gene055767:CDS
CGTCTCAAAGCATTGTTGAT+AGG 0.435297 2.1:-10106847 None:intergenic
AAGTTGAGTTGAGTTGGGTT+TGG 0.439465 2.1:-10106408 None:intergenic
TTTATTGGGCCTGAGGGTGC+TGG 0.445785 2.1:-10106304 None:intergenic
GCCTGAGGGTGCTGGTGCTG+GGG 0.448279 2.1:-10106296 None:intergenic
TTGGATTTGTGGAGTTAAGA+AGG 0.451732 2.1:-10106266 None:intergenic
TTCAGAAGTTGAGTTGAGTT+GGG 0.456224 2.1:-10106413 None:intergenic
CCAGTTAGAACACAAGCTTC+TGG 0.459667 2.1:+10106748 MS.gene055767:CDS
CAGAAGCTTGTGTTCTAACT+GGG 0.462249 2.1:-10106747 None:intergenic
GCCCCAGCACCAGCACCCTC+AGG 0.463369 2.1:+10106295 MS.gene055767:CDS
AAGAAGGATGATAGTGCAGC+TGG 0.464254 2.1:+10107036 MS.gene055767:CDS
CCGAGCAGCAGCGACGTTGA+AGG 0.469244 2.1:+10106988 MS.gene055767:CDS
GACGAATGAGGAAGGTGTAT+TGG 0.472056 2.1:-10106354 None:intergenic
GCCTTCCAAAATCTTCCATC+AGG 0.478103 2.1:+10106466 MS.gene055767:CDS
GTGAGAAGAATGAGTGCAAG+AGG 0.488921 2.1:-10106235 None:intergenic
CTCCAGTTGAAACATTGACT+TGG 0.506376 2.1:-10106813 None:intergenic
GAATGAGTTGAACTTTCTGT+TGG 0.508496 2.1:-10106669 None:intergenic
ACACAAGCTTCTGGTAAAGA+AGG 0.515910 2.1:+10106757 MS.gene055767:CDS
ATCTCCTGCGTCTAGTAAGA+AGG 0.521844 2.1:+10107020 MS.gene055767:CDS
TGGATTTGTGGAGTTAAGAA+GGG 0.522153 2.1:-10106265 None:intergenic
CCTTCAACGTCGCTGCTGCT+CGG 0.523660 2.1:-10106988 None:intergenic
TTCTTACTAGACGCAGGAGA+TGG 0.526597 2.1:-10107018 None:intergenic
CAACTCAACTCAACTTCTGA+AGG 0.527769 2.1:+10106415 MS.gene055767:CDS
TAAGTCTCCATCTTCATCTC+CGG 0.540687 2.1:+10106933 MS.gene055767:CDS
TTGGAAGGCATTGTCTGTTG+GGG 0.549695 2.1:-10106452 None:intergenic
TTTCATTGAGGAGACGAATG+AGG 0.550194 2.1:-10106366 None:intergenic
TTAGGAGCCGGAGATGAAGA+TGG 0.552898 2.1:-10106940 None:intergenic
TCCAATTGATAAACAGCCAA+AGG 0.570662 2.1:-10106877 None:intergenic
GTGATGTTTATTGGGCCTGA+GGG 0.572050 2.1:-10106310 None:intergenic
GGCTGTTTATCAATTGGACA+AGG 0.577680 2.1:+10106882 MS.gene055767:CDS
ATTGAGGAGACGAATGAGGA+AGG 0.579677 2.1:-10106362 None:intergenic
GAACTTTCTGTTGGTCTGAG+AGG 0.589738 2.1:-10106660 None:intergenic
GGTCTTCACTTCACTTCACA+AGG 0.592303 2.1:+10106787 MS.gene055767:CDS
TGTGATGTTTATTGGGCCTG+AGG 0.598868 2.1:-10106311 None:intergenic
AGTGCAGCTGGAAGGAATGT+CGG 0.606286 2.1:+10107048 MS.gene055767:CDS
TCTGGTAAAGAAGGTAATTG+GGG 0.623440 2.1:+10106766 MS.gene055767:CDS
GAGTGCAAGAGGTGTTGTAG+TGG 0.624287 2.1:-10106224 None:intergenic
AGGATGATAGTGCAGCTGGA+AGG 0.628901 2.1:+10107040 MS.gene055767:CDS
TGAGTTGTTGAGTTTCATTG+AGG 0.637415 2.1:-10106378 None:intergenic
TCATCCTTCTTACTAGACGC+AGG 0.638283 2.1:-10107024 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CAAGTTATAATTATATTTAT+GGG - chr2.1:10106597-10106616 None:intergenic 10.0%
!! GCAAGTTATAATTATATTTA+TGG - chr2.1:10106598-10106617 None:intergenic 15.0%
!! TTTATATATATAATACCTGA+TGG - chr2.1:10106484-10106503 None:intergenic 15.0%
!! TAACATTTATGTCTATTATC+AGG + chr2.1:10106625-10106644 MS.gene055767:intron 20.0%
! AAGATTGATGTGATGTTTAT+TGG - chr2.1:10106322-10106341 None:intergenic 25.0%
! AGATTGATGTGATGTTTATT+GGG - chr2.1:10106321-10106340 None:intergenic 25.0%
!! GTTTGAAACTGTTAAGAAAT+CGG - chr2.1:10106728-10106747 None:intergenic 25.0%
TTCTGGTAAAGAAGGTAATT+GGG + chr2.1:10106765-10106784 MS.gene055767:CDS 30.0%
! ACATCAATCTTTGAAAAAGC+TGG + chr2.1:10106331-10106350 MS.gene055767:CDS 30.0%
! TAATACCTGATGGAAGATTT+TGG - chr2.1:10106474-10106493 None:intergenic 30.0%
! TTGTTACCTTCTGAACTTTT+TGG + chr2.1:10106907-10106926 MS.gene055767:CDS 30.0%
AACCAAGTCAATGTTTCAAC+TGG + chr2.1:10106811-10106830 MS.gene055767:CDS 35.0%
CTTCTGGTAAAGAAGGTAAT+TGG + chr2.1:10106764-10106783 MS.gene055767:CDS 35.0%
TCCAATTGATAAACAGCCAA+AGG - chr2.1:10106880-10106899 None:intergenic 35.0%
TCCTTTGGCTGTTTATCAAT+TGG + chr2.1:10106876-10106895 MS.gene055767:CDS 35.0%
TCTGGTAAAGAAGGTAATTG+GGG + chr2.1:10106766-10106785 MS.gene055767:CDS 35.0%
TGAGTTGTTGAGTTTCATTG+AGG - chr2.1:10106381-10106400 None:intergenic 35.0%
TGGATTTGTGGAGTTAAGAA+GGG - chr2.1:10106268-10106287 None:intergenic 35.0%
TTAGCACCAAAAAGTTCAGA+AGG - chr2.1:10106916-10106935 None:intergenic 35.0%
TTGGATTTGTGGAGTTAAGA+AGG - chr2.1:10106269-10106288 None:intergenic 35.0%
! GAATGAGTTGAACTTTCTGT+TGG - chr2.1:10106672-10106691 None:intergenic 35.0%
! TCGGAAAGAGAGTAGTATTT+TGG - chr2.1:10106709-10106728 None:intergenic 35.0%
!! TTCAGAAGTTGAGTTGAGTT+GGG - chr2.1:10106416-10106435 None:intergenic 35.0%
!!! AGTAGTATTTTGGTGTAACG+TGG - chr2.1:10106699-10106718 None:intergenic 35.0%
ACACAAGCTTCTGGTAAAGA+AGG + chr2.1:10106757-10106776 MS.gene055767:CDS 40.0%
CAACTCAACTCAACTTCTGA+AGG + chr2.1:10106415-10106434 MS.gene055767:CDS 40.0%
CAGAAGCTTGTGTTCTAACT+GGG - chr2.1:10106750-10106769 None:intergenic 40.0%
GGCTGTTTATCAATTGGACA+AGG + chr2.1:10106882-10106901 MS.gene055767:CDS 40.0%
TAAGTCTCCATCTTCATCTC+CGG + chr2.1:10106933-10106952 MS.gene055767:CDS 40.0%
TTTCATTGAGGAGACGAATG+AGG - chr2.1:10106369-10106388 None:intergenic 40.0%
! ACCTGATGGAAGATTTTGGA+AGG - chr2.1:10106470-10106489 None:intergenic 40.0%
! CTCCAGTTGAAACATTGACT+TGG - chr2.1:10106816-10106835 None:intergenic 40.0%
! GAAGGAGTTTTCGATGACTT+AGG - chr2.1:10106961-10106980 None:intergenic 40.0%
! TTTGAGACGACAGTTTCCTT+TGG + chr2.1:10106861-10106880 MS.gene055767:CDS 40.0%
!! AAGTTGAGTTGAGTTGGGTT+TGG - chr2.1:10106411-10106430 None:intergenic 40.0%
!! CGTCTCAAAGCATTGTTGAT+AGG - chr2.1:10106850-10106869 None:intergenic 40.0%
!! CTTCAGAAGTTGAGTTGAGT+TGG - chr2.1:10106417-10106436 None:intergenic 40.0%
!! TTTGGAAGGCATTGTCTGTT+GGG - chr2.1:10106456-10106475 None:intergenic 40.0%
!!! GGGCTTGGTTTTATTTGCAT+GGG + chr2.1:10107087-10107106 MS.gene055767:CDS 40.0%
!!! TCGGTTTTGGATTTGTTGCT+GGG + chr2.1:10107067-10107086 MS.gene055767:CDS 40.0%
!!! TGGGCTTGGTTTTATTTGCA+TGG + chr2.1:10107086-10107105 MS.gene055767:CDS 40.0%
!!! TTTTGGAAGGCATTGTCTGT+TGG - chr2.1:10106457-10106476 None:intergenic 40.0%
ATCTCCTGCGTCTAGTAAGA+AGG + chr2.1:10107020-10107039 MS.gene055767:CDS 45.0%
ATTGAGGAGACGAATGAGGA+AGG - chr2.1:10106365-10106384 None:intergenic 45.0%
CCAGAAGCTTGTGTTCTAAC+TGG - chr2.1:10106751-10106770 None:intergenic 45.0%
CCAGTTAGAACACAAGCTTC+TGG + chr2.1:10106748-10106767 MS.gene055767:CDS 45.0%
GCCTTCCAAAATCTTCCATC+AGG + chr2.1:10106466-10106485 MS.gene055767:CDS 45.0%
GGTCTTCACTTCACTTCACA+AGG + chr2.1:10106787-10106806 MS.gene055767:CDS 45.0%
GTGAGAAGAATGAGTGCAAG+AGG - chr2.1:10106238-10106257 None:intergenic 45.0%
GTGATGTTTATTGGGCCTGA+GGG - chr2.1:10106313-10106332 None:intergenic 45.0%
TCATCCTTCTTACTAGACGC+AGG - chr2.1:10107027-10107046 None:intergenic 45.0%
TGTGATGTTTATTGGGCCTG+AGG - chr2.1:10106314-10106333 None:intergenic 45.0%
TTCTTACTAGACGCAGGAGA+TGG - chr2.1:10107021-10107040 None:intergenic 45.0%
! AAGAAGGATGATAGTGCAGC+TGG + chr2.1:10107036-10107055 MS.gene055767:CDS 45.0%
! GAACTTTCTGTTGGTCTGAG+AGG - chr2.1:10106663-10106682 None:intergenic 45.0%
! GACGAATGAGGAAGGTGTAT+TGG - chr2.1:10106357-10106376 None:intergenic 45.0%
! GTTTTCGATGACTTAGGAGC+CGG - chr2.1:10106955-10106974 None:intergenic 45.0%
!! TTGGAAGGCATTGTCTGTTG+GGG - chr2.1:10106455-10106474 None:intergenic 45.0%
!! TTTGGATTTGTTGCTGGGCT+TGG + chr2.1:10107072-10107091 MS.gene055767:CDS 45.0%
!!! GTCGGTTTTGGATTTGTTGC+TGG + chr2.1:10107066-10107085 MS.gene055767:CDS 45.0%
AGTGCAGCTGGAAGGAATGT+CGG + chr2.1:10107048-10107067 MS.gene055767:CDS 50.0%
TTAGGAGCCGGAGATGAAGA+TGG - chr2.1:10106943-10106962 None:intergenic 50.0%
! AGGATGATAGTGCAGCTGGA+AGG + chr2.1:10107040-10107059 MS.gene055767:CDS 50.0%
!! GAGTGCAAGAGGTGTTGTAG+TGG - chr2.1:10106227-10106246 None:intergenic 50.0%
!!! CTGCTGCTCGGAGTTTTAGA+AGG - chr2.1:10106979-10106998 None:intergenic 50.0%
!!! GCTGGAAGGAATGTCGGTTT+TGG + chr2.1:10107054-10107073 MS.gene055767:CDS 50.0%
! TTTATTGGGCCTGAGGGTGC+TGG - chr2.1:10106307-10106326 None:intergenic 55.0%
CCTTCAACGTCGCTGCTGCT+CGG - chr2.1:10106991-10107010 None:intergenic 60.0%
GGGGCTTGGGCTTGGATTTG+TGG - chr2.1:10106280-10106299 None:intergenic 60.0%
CCGAGCAGCAGCGACGTTGA+AGG + chr2.1:10106988-10107007 MS.gene055767:CDS 65.0%
! CTGGTGCTGGGGCTTGGGCT+TGG - chr2.1:10106288-10106307 None:intergenic 70.0%
!! AGGGTGCTGGTGCTGGGGCT+TGG - chr2.1:10106294-10106313 None:intergenic 70.0%
!! GCCTGAGGGTGCTGGTGCTG+GGG - chr2.1:10106299-10106318 None:intergenic 70.0%
!! GGCCTGAGGGTGCTGGTGCT+GGG - chr2.1:10106300-10106319 None:intergenic 70.0%
!! GGGTGCTGGTGCTGGGGCTT+GGG - chr2.1:10106293-10106312 None:intergenic 70.0%
GCCCCAGCACCAGCACCCTC+AGG + chr2.1:10106295-10106314 MS.gene055767:CDS 75.0%
!! GGGCCTGAGGGTGCTGGTGC+TGG - chr2.1:10106301-10106320 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 10106214 10107122 10106214 ID=MS.gene055767
chr2.1 mRNA 10106214 10107122 10106214 ID=MS.gene055767.t1;Parent=MS.gene055767
chr2.1 exon 10106214 10106487 10106214 ID=MS.gene055767.t1.exon1;Parent=MS.gene055767.t1
chr2.1 CDS 10106214 10106487 10106214 ID=cds.MS.gene055767.t1;Parent=MS.gene055767.t1
chr2.1 exon 10106647 10107122 10106647 ID=MS.gene055767.t1.exon2;Parent=MS.gene055767.t1
chr2.1 CDS 10106647 10107122 10106647 ID=cds.MS.gene055767.t1;Parent=MS.gene055767.t1
Gene Sequence

>MS.gene055767

ATGGCACTCACCACTACAACACCTCTTGCACTCATTCTTCTCACTCTCATTCCCTTCTTAACTCCACAAATCCAAGCCCAAGCCCCAGCACCAGCACCCTCAGGCCCAATAAACATCACATCAATCTTTGAAAAAGCTGGCCAATACACCTTCCTCATTCGTCTCCTCAATGAAACTCAACAACTCACTCAAATCCAAACCCAACTCAACTCAACTTCTGAAGGTTTCACAATCTTTGCCCCAACAGACAATGCCTTCCAAAATCTTCCATCAGGTATTATATATATAAAACAAATTTATCTACTGTCATAAGTTTTGCGAAACTGTTTGAGAGAACTTACGATAACAACGCATGACATGTTCATAAGATGTTTTGCACTCCCATAAATATAATTATAACTTGCATGTAACTAACATTTATGTCTATTATCAGGAGCAATCAACGACCTCTCAGACCAACAGAAAGTTCAACTCATTCTCTACCACGTTACACCAAAATACTACTCTCTTTCCGATTTCTTAACAGTTTCAAACCCAGTTAGAACACAAGCTTCTGGTAAAGAAGGTAATTGGGGTCTTCACTTCACTTCACAAGGTAACCAAGTCAATGTTTCAACTGGAGTTGTTACTGTACCTATCAACAATGCTTTGAGACGACAGTTTCCTTTGGCTGTTTATCAATTGGACAAGGTTTTGTTACCTTCTGAACTTTTTGGTGCTAAGTCTCCATCTTCATCTCCGGCTCCTAAGTCATCGAAAACTCCTTCTAAAACTCCGAGCAGCAGCGACGTTGAAGGTGATGCTCCATCTCCTGCGTCTAGTAAGAAGGATGATAGTGCAGCTGGAAGGAATGTCGGTTTTGGATTTGTTGCTGGGCTTGGTTTTATTTGCATGGGAGTTCTTTTTTGA
Protein sequence

>MS.gene055767.t1

MALTTTTPLALILLTLIPFLTPQIQAQAPAPAPSGPINITSIFEKAGQYTFLIRLLNETQQLTQIQTQLNSTSEGFTIFAPTDNAFQNLPSGAINDLSDQQKVQLILYHVTPKYYSLSDFLTVSNPVRTQASGKEGNWGLHFTSQGNQVNVSTGVVTVPINNALRRQFPLAVYQLDKVLLPSELFGAKSPSSSPAPKSSKTPSKTPSSSDVEGDAPSPASSKKDDSAAGRNVGFGFVAGLGFICMGVLF