AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene011488


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene011488.t1 MTR_4g101860 99.251 267 2 0 1 267 88 354 0.0 531
MS.gene011488.t1 MTR_3g070000 66.288 264 89 0 1 264 60 323 8.38e-124 355
MS.gene011488.t1 MTR_5g081710 65.019 263 92 0 1 263 44 306 3.33e-122 351
MS.gene011488.t1 MTR_3g462070 62.452 261 98 0 3 263 47 307 4.20e-120 345
MS.gene011488.t1 MTR_4g018760 62.452 261 98 0 1 261 48 308 7.45e-119 342
MS.gene011488.t1 MTR_8g090130 58.175 263 110 0 1 263 47 309 2.80e-107 313
MS.gene011488.t1 MTR_3g072380 32.567 261 168 3 2 259 51 306 9.43e-42 146
MS.gene011488.t1 MTR_1g030320 31.298 262 172 3 2 260 50 306 1.91e-40 143
MS.gene011488.t1 MTR_3g107470 27.099 262 181 4 1 259 55 309 8.01e-21 90.5
MS.gene011488.t1 MTR_0011s0320 26.437 261 184 5 1 259 51 305 1.71e-20 89.7
MS.gene011488.t1 MTR_2g070400 25.271 277 191 6 1 267 48 318 1.25e-18 84.3
MS.gene011488.t1 MTR_3g072380 34.513 113 74 0 2 114 51 163 1.58e-18 82.4
MS.gene011488.t1 MTR_4g114360 26.937 271 186 6 1 267 51 313 7.38e-18 82.4
MS.gene011488.t1 MTR_7g110380 26.103 272 187 4 1 267 52 314 2.76e-17 80.9
MS.gene011488.t1 MTR_4g105630 24.681 235 175 2 28 260 143 377 9.81e-16 76.6
MS.gene011488.t1 MTR_4g123900 28.364 275 173 6 1 265 48 308 1.13e-14 73.6
MS.gene011488.t1 MTR_2g029180 28.780 205 138 4 58 257 191 392 6.54e-14 71.2
MS.gene011488.t1 MTR_6g005480 26.471 238 170 2 28 260 171 408 2.04e-12 67.0
MS.gene011488.t1 MTR_8g016090 25.630 238 161 6 29 256 236 467 2.26e-12 67.0
MS.gene011488.t1 MTR_8g016090 26.577 222 147 6 45 256 202 417 6.41e-12 65.5
MS.gene011488.t1 MTR_3g077640 26.923 234 164 4 35 263 175 406 7.34e-12 65.1
MS.gene011488.t1 MTR_0662s0010 27.556 225 151 6 1 221 51 267 2.61e-11 62.8
MS.gene011488.t1 MTR_4g088350 28.511 235 143 7 47 265 65 290 2.83e-11 62.8
MS.gene011488.t1 MTR_4g088350 28.511 235 143 7 47 265 176 401 6.52e-11 62.4
MS.gene011488.t1 MTR_4g123900 26.877 253 169 4 1 247 48 290 7.00e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene011488.t1 AT1G12500 82.510 263 46 0 1 263 94 356 8.75e-158 443
MS.gene011488.t1 AT3G11320 66.160 263 89 0 1 263 46 308 9.26e-122 350
MS.gene011488.t1 AT5G05820 65.019 263 92 0 1 263 46 308 1.60e-119 344
MS.gene011488.t1 AT5G04160 59.316 263 107 0 1 263 47 309 1.64e-111 324
MS.gene011488.t1 AT3G10290 57.854 261 110 0 1 261 93 353 7.74e-109 319
MS.gene011488.t1 AT1G77610 32.558 258 172 1 2 259 45 300 1.50e-41 145
MS.gene011488.t1 AT1G21870 34.231 260 165 5 2 259 51 306 5.73e-41 144
MS.gene011488.t1 AT5G25400 27.407 270 186 4 1 267 55 317 4.53e-22 94.0
MS.gene011488.t1 AT5G11230 27.099 262 181 4 1 259 55 309 6.13e-22 94.0
MS.gene011488.t1 AT4G32390 25.926 270 190 4 1 267 55 317 1.48e-20 90.1
MS.gene011488.t1 AT1G53660 27.273 231 156 4 35 262 55 276 5.43e-20 87.8
MS.gene011488.t1 AT1G53660 26.201 229 161 2 35 262 89 310 7.71e-20 87.8
MS.gene011488.t1 AT1G53660 26.201 229 161 2 35 262 107 328 1.16e-19 87.4
MS.gene011488.t1 AT1G53660 27.556 225 151 4 41 262 1 216 1.38e-19 85.5
MS.gene011488.t1 AT2G25520 26.718 262 182 4 1 259 55 309 8.95e-19 85.1
MS.gene011488.t1 AT3G17430 29.437 231 157 4 38 267 86 311 4.68e-18 83.2
MS.gene011488.t1 AT3G17430 29.437 231 157 4 38 267 86 311 4.68e-18 83.2
MS.gene011488.t1 AT3G14410 25.547 274 184 5 1 265 52 314 6.91e-18 82.4
MS.gene011488.t1 AT5G17630 29.524 210 142 3 58 263 200 407 9.27e-17 79.7
MS.gene011488.t1 AT1G48230 28.261 230 151 4 38 262 13 233 3.05e-13 68.6
MS.gene011488.t1 AT1G48230 28.326 233 153 4 38 265 86 309 4.71e-13 68.6
MS.gene011488.t1 AT3G01550 24.906 265 184 6 5 260 115 373 2.83e-12 66.6
MS.gene011488.t1 AT5G46110 28.511 235 143 7 47 265 72 297 3.63e-12 65.5
MS.gene011488.t1 AT5G54800 25.688 218 153 3 47 259 174 387 5.03e-12 65.9
MS.gene011488.t1 AT5G46110 28.511 235 143 7 47 265 185 410 1.12e-11 64.7
MS.gene011488.t1 AT5G46110 28.696 230 140 7 47 261 185 405 2.14e-11 63.9
MS.gene011488.t1 AT5G33320 25.000 240 166 2 28 259 166 399 4.20e-11 63.2

Find 36 sgRNAs with CRISPR-Local

Find 54 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATGAATTTGTTGCTTTATA+TGG 0.170596 8.2:-21576275 MS.gene011488:CDS
TGCTTTGACTCTTCAAGTTT+TGG 0.171643 8.2:-21576077 MS.gene011488:CDS
GAATGCTACTGTTGCTTATT+TGG 0.176576 8.2:-21576137 MS.gene011488:CDS
GAACCTTTGTTTCATTTGTT+TGG 0.229462 8.2:-21576391 MS.gene011488:CDS
AACCTTTGTTTCATTTGTTT+GGG 0.260716 8.2:-21576390 MS.gene011488:CDS
GCTTTGTTACCGGTGGTGTT+AGG 0.261625 8.2:-21576436 MS.gene011488:CDS
GTGATGGGGATGACTGGTTT+TGG 0.276852 8.2:-21575992 MS.gene011488:CDS
AACAAACTGAACAACGTTAA+TGG 0.309688 8.2:+21576666 None:intergenic
GGTTTATCTTGCTTTGTTAC+CGG 0.326806 8.2:-21576446 MS.gene011488:CDS
TGCTGTTGCTGCTGTTGTTT+CGG 0.331531 8.2:-21576041 MS.gene011488:CDS
TTCTGCTTCTCAGTTGTTTG+TGG 0.369704 8.2:-21576583 MS.gene011488:CDS
CTTTGTTACCGGTGGTGTTA+GGG 0.384247 8.2:-21576435 MS.gene011488:CDS
CCGGTTACTTTGTATATTGA+AGG 0.384332 8.2:-21576226 MS.gene011488:CDS
ATAGCTTGGTTAAAAGAAAC+AGG 0.429694 8.2:+21576538 None:intergenic
GTTTGTGTTGGTTCAACTGC+AGG 0.433453 8.2:-21576361 MS.gene011488:CDS
CCTTCAATATACAAAGTAAC+CGG 0.440964 8.2:+21576226 None:intergenic
GTCATCCCCATCACAGTAAC+CGG 0.446566 8.2:+21576001 None:intergenic
TTGGAGTGGATTTGTTGATA+AGG 0.447814 8.2:+21576643 None:intergenic
AGAAATCCGGTTACTGTGAT+GGG 0.470166 8.2:-21576007 MS.gene011488:CDS
GAAGCTAAGAAGAGATCTAA+AGG 0.487491 8.2:-21575938 MS.gene011488:CDS
CAGAAATCCGGTTACTGTGA+TGG 0.490620 8.2:-21576008 MS.gene011488:CDS
TGAGAAACTGTTTCTTGGAG+TGG 0.511672 8.2:+21576629 None:intergenic
GTTACTGTGATGGGGATGAC+TGG 0.520789 8.2:-21575998 MS.gene011488:CDS
GTTGCTTTATATGGCTCCGT+TGG 0.524175 8.2:-21576266 MS.gene011488:CDS
AACAAAATCATCGCAGCCAA+CGG 0.544936 8.2:+21576250 None:intergenic
GCGTGGTTGCACCAATAGCT+TGG 0.548442 8.2:+21576524 None:intergenic
AACAACGTTAATGGCGGCGT+AGG 0.566351 8.2:+21576675 None:intergenic
TTATCTTGCTTTGTTACCGG+TGG 0.586670 8.2:-21576443 MS.gene011488:CDS
TTTGTGTTGGTTCAACTGCA+GGG 0.590893 8.2:-21576360 MS.gene011488:CDS
AACCCAAACAAATGAAACAA+AGG 0.600312 8.2:+21576388 None:intergenic
ACAACAATCCCTAACACCAC+CGG 0.619123 8.2:+21576427 None:intergenic
GCTTTGAAGAGTGTTGTGCA+AGG 0.632062 8.2:-21576334 MS.gene011488:CDS
GAAATCCGGTTACTGTGATG+GGG 0.660418 8.2:-21576006 MS.gene011488:CDS
AACAGGCAAATATCTCAATG+AGG 0.664388 8.2:+21576555 None:intergenic
AATGGCGGCGTAGGAATAAG+CGG 0.665226 8.2:+21576684 None:intergenic
AAACTGAACAACGTTAATGG+CGG 0.700627 8.2:+21576669 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATCAACAAAAACACAATAAA+CGG + chr8.2:21576471-21576490 None:intergenic 20.0%
!!! TATGAATTTGTTGCTTTATA+TGG - chr8.2:21576356-21576375 MS.gene011488:CDS 20.0%
!!! TTATTGTGTTTTTGTTGATT+GGG - chr8.2:21576472-21576491 MS.gene011488:CDS 20.0%
!!! TTTATTGTGTTTTTGTTGAT+TGG - chr8.2:21576471-21576490 MS.gene011488:CDS 20.0%
!! AACCTTTGTTTCATTTGTTT+GGG - chr8.2:21576241-21576260 MS.gene011488:CDS 25.0%
AACAAACTGAACAACGTTAA+TGG + chr8.2:21575968-21575987 None:intergenic 30.0%
AACCCAAACAAATGAAACAA+AGG + chr8.2:21576246-21576265 None:intergenic 30.0%
ATAGCTTGGTTAAAAGAAAC+AGG + chr8.2:21576096-21576115 None:intergenic 30.0%
CCTTCAATATACAAAGTAAC+CGG + chr8.2:21576408-21576427 None:intergenic 30.0%
TTGTAAAAAAGAAACTGCTG+AGG - chr8.2:21576164-21576183 MS.gene011488:CDS 30.0%
! GAACCTTTGTTTCATTTGTT+TGG - chr8.2:21576240-21576259 MS.gene011488:CDS 30.0%
! GTTTCTTTTAACCAAGCTAT+TGG - chr8.2:21576096-21576115 MS.gene011488:CDS 30.0%
!! GATTTTGAGAAACTGTTTCT+TGG + chr8.2:21576010-21576029 None:intergenic 30.0%
!! GGTTTTGATATTCAGAAATC+CGG - chr8.2:21576611-21576630 MS.gene011488:CDS 30.0%
!! GTTTCATTTGTTTGGGTTTT+TGG - chr8.2:21576248-21576267 MS.gene011488:CDS 30.0%
AAACTGAACAACGTTAATGG+CGG + chr8.2:21575965-21575984 None:intergenic 35.0%
AACAGGCAAATATCTCAATG+AGG + chr8.2:21576079-21576098 None:intergenic 35.0%
AATCAAAAACGCGAAAATCG+CGG + chr8.2:21576142-21576161 None:intergenic 35.0%
GAAGCTAAGAAGAGATCTAA+AGG - chr8.2:21576693-21576712 MS.gene011488:CDS 35.0%
! CCGGTTACTTTGTATATTGA+AGG - chr8.2:21576405-21576424 MS.gene011488:CDS 35.0%
! GAATGCTACTGTTGCTTATT+TGG - chr8.2:21576494-21576513 MS.gene011488:CDS 35.0%
! GGTTTATCTTGCTTTGTTAC+CGG - chr8.2:21576185-21576204 MS.gene011488:CDS 35.0%
!! CTTTGACTCTTCAAGTTTTG+GGG - chr8.2:21576556-21576575 MS.gene011488:CDS 35.0%
!! GCTTTGACTCTTCAAGTTTT+GGG - chr8.2:21576555-21576574 MS.gene011488:CDS 35.0%
!! TGCTTTGACTCTTCAAGTTT+TGG - chr8.2:21576554-21576573 MS.gene011488:CDS 35.0%
!! TTGGAGTGGATTTGTTGATA+AGG + chr8.2:21575991-21576010 None:intergenic 35.0%
!!! GGTTTTGGGATTACAATCAT+GGG - chr8.2:21576654-21576673 MS.gene011488:CDS 35.0%
!!! TGGTTTTGGGATTACAATCA+TGG - chr8.2:21576653-21576672 MS.gene011488:CDS 35.0%
!!! TTTGGGTTTTTGGTTTGTGT+TGG - chr8.2:21576258-21576277 MS.gene011488:CDS 35.0%
AACAAAATCATCGCAGCCAA+CGG + chr8.2:21576384-21576403 None:intergenic 40.0%
AGAAATCCGGTTACTGTGAT+GGG - chr8.2:21576624-21576643 MS.gene011488:CDS 40.0%
TTCTGCTTCTCAGTTGTTTG+TGG - chr8.2:21576048-21576067 MS.gene011488:CDS 40.0%
! TGAGAAACTGTTTCTTGGAG+TGG + chr8.2:21576005-21576024 None:intergenic 40.0%
! TTATCTTGCTTTGTTACCGG+TGG - chr8.2:21576188-21576207 MS.gene011488:CDS 40.0%
!! TTTGTGTTGGTTCAACTGCA+GGG - chr8.2:21576271-21576290 MS.gene011488:CDS 40.0%
ACAACAATCCCTAACACCAC+CGG + chr8.2:21576207-21576226 None:intergenic 45.0%
CAGAAATCCGGTTACTGTGA+TGG - chr8.2:21576623-21576642 MS.gene011488:CDS 45.0%
GAAATCCGGTTACTGTGATG+GGG - chr8.2:21576625-21576644 MS.gene011488:CDS 45.0%
GCGAAAATCGCGGTGAAAAA+CGG + chr8.2:21576132-21576151 None:intergenic 45.0%
! CTTTGTTACCGGTGGTGTTA+GGG - chr8.2:21576196-21576215 MS.gene011488:CDS 45.0%
! GTTGCTTTATATGGCTCCGT+TGG - chr8.2:21576365-21576384 MS.gene011488:CDS 45.0%
! TGCTGTTGCTGCTGTTGTTT+CGG - chr8.2:21576590-21576609 MS.gene011488:CDS 45.0%
!! GCTTTGAAGAGTGTTGTGCA+AGG - chr8.2:21576297-21576316 MS.gene011488:CDS 45.0%
!! GTTTGTGTTGGTTCAACTGC+AGG - chr8.2:21576270-21576289 MS.gene011488:CDS 45.0%
!!! TGATGGGGATGACTGGTTTT+GGG - chr8.2:21576640-21576659 MS.gene011488:CDS 45.0%
AACAACGTTAATGGCGGCGT+AGG + chr8.2:21575959-21575978 None:intergenic 50.0%
AATGGCGGCGTAGGAATAAG+CGG + chr8.2:21575950-21575969 None:intergenic 50.0%
GTCATCCCCATCACAGTAAC+CGG + chr8.2:21576633-21576652 None:intergenic 50.0%
! GCTTTGTTACCGGTGGTGTT+AGG - chr8.2:21576195-21576214 MS.gene011488:CDS 50.0%
! GGCTGCGATGATTTTGTTGC+CGG - chr8.2:21576386-21576405 MS.gene011488:CDS 50.0%
! GTTACTGTGATGGGGATGAC+TGG - chr8.2:21576633-21576652 MS.gene011488:CDS 50.0%
!!! GTGATGGGGATGACTGGTTT+TGG - chr8.2:21576639-21576658 MS.gene011488:CDS 50.0%
AATCGCGGTGAAAAACGGCG+TGG + chr8.2:21576127-21576146 None:intergenic 55.0%
GCGTGGTTGCACCAATAGCT+TGG + chr8.2:21576110-21576129 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 21575925 21576728 21575925 ID=MS.gene011488
chr8.2 mRNA 21575925 21576728 21575925 ID=MS.gene011488.t1;Parent=MS.gene011488
chr8.2 exon 21575925 21576728 21575925 ID=MS.gene011488.t1.exon1;Parent=MS.gene011488.t1
chr8.2 CDS 21575925 21576728 21575925 ID=cds.MS.gene011488.t1;Parent=MS.gene011488.t1
Gene Sequence

>MS.gene011488

ATGCTTCACATGCTATCTTGCGCCGCTTATTCCTACGCCGCCATTAACGTTGTTCAGTTTGTTCCTTATCAACAAATCCACTCCAAGAAACAGTTTCTCAAAATCTTTGCGCTTAGCGCAATTTTCTGCTTCTCAGTTGTTTGTGGAAATACCTCATTGAGATATTTGCCTGTTTCTTTTAACCAAGCTATTGGTGCAACCACGCCGTTTTTCACCGCGATTTTCGCGTTTTTGATTACTTGTAAAAAAGAAACTGCTGAGGTTTATCTTGCTTTGTTACCGGTGGTGTTAGGGATTGTTGTTTCAACAAATAGTGAACCTTTGTTTCATTTGTTTGGGTTTTTGGTTTGTGTTGGTTCAACTGCAGGGAGAGCTTTGAAGAGTGTTGTGCAAGGAATTATATTGACTAGTGAAGCTGAGAAGCTTCATTCTATGAATTTGTTGCTTTATATGGCTCCGTTGGCTGCGATGATTTTGTTGCCGGTTACTTTGTATATTGAAGGCAATGTGTTTGCGATAACGATTGAGAAAGCGAAGACTGATCCGTTTATTGTGTTTTTGTTGATTGGGAATGCTACTGTTGCTTATTTGGTGAATTTGACTAATTTTCTTGTGACTAAGCATACTAGTGCTTTGACTCTTCAAGTTTTGGGGAATGCTAAAGCTGCTGTTGCTGCTGTTGTTTCGGTTTTGATATTCAGAAATCCGGTTACTGTGATGGGGATGACTGGTTTTGGGATTACAATCATGGGTGTTGTGCTTTATAGTGAAGCTAAGAAGAGATCTAAAGGTGCATCTCATTGA

Protein sequence

>MS.gene011488.t1

MLHMLSCAAYSYAAINVVQFVPYQQIHSKKQFLKIFALSAIFCFSVVCGNTSLRYLPVSFNQAIGATTPFFTAIFAFLITCKKETAEVYLALLPVVLGIVVSTNSEPLFHLFGFLVCVGSTAGRALKSVVQGIILTSEAEKLHSMNLLLYMAPLAAMILLPVTLYIEGNVFAITIEKAKTDPFIVFLLIGNATVAYLVNLTNFLVTKHTSALTLQVLGNAKAAVAAVVSVLIFRNPVTVMGMTGFGITIMGVVLYSEAKKRSKGASH