AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene28214

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene28214.t1 MTR_3g025380 74.286 140 36 0 3 142 2 141 6.62e-65 194
MS.gene28214.t1 MTR_3g025510 47.651 149 68 3 1 139 1 149 1.43e-38 128
MS.gene28214.t1 MTR_3g025550 83.051 59 10 0 84 142 6 64 1.62e-33 112
MS.gene28214.t1 MTR_3g025620 57.407 54 23 0 89 142 2 55 1.22e-17 72.0
MS.gene28214.t1 MTR_2g058360 47.368 76 35 3 67 139 67 140 1.88e-16 71.2
MS.gene28214.t1 MTR_5g041310 32.500 120 68 3 31 140 44 160 3.66e-16 72.4
MS.gene28214.t1 MTR_7g074170 43.750 64 35 1 78 140 327 390 2.06e-14 69.3
MS.gene28214.t1 MTR_3g088080 39.130 69 40 1 73 141 18 84 2.25e-14 64.7
MS.gene28214.t1 MTR_5g041330 37.647 85 49 2 57 140 69 150 8.05e-14 65.9
MS.gene28214.t1 MTR_3g072630 34.118 85 55 1 57 140 182 266 2.16e-13 65.9
MS.gene28214.t1 MTR_3g072630 34.118 85 55 1 57 140 182 266 3.11e-13 65.5
MS.gene28214.t1 MTR_1g114620 38.667 75 44 1 66 140 237 309 6.48e-13 64.7
MS.gene28214.t1 MTR_2g097620 35.385 65 42 0 77 141 171 235 1.11e-12 63.9
MS.gene28214.t1 MTR_6g079660 34.444 90 55 2 55 140 191 280 1.64e-12 63.5
MS.gene28214.t1 MTR_4g110100 43.077 65 36 1 77 140 341 405 4.13e-12 62.8
MS.gene28214.t1 MTR_1g114320 32.955 88 55 2 57 140 152 239 4.78e-12 62.0
MS.gene28214.t1 MTR_6g016350 43.750 48 27 0 93 140 309 356 2.19e-11 60.5
MS.gene28214.t1 MTR_3g083480 46.939 49 26 0 88 136 230 278 3.03e-11 60.1
MS.gene28214.t1 MTR_1g051105 45.652 46 25 0 95 140 159 204 3.15e-11 59.3
MS.gene28214.t1 MTR_5g088720 34.118 85 55 1 57 140 161 245 3.90e-11 59.7
MS.gene28214.t1 MTR_0067s0100 33.333 84 56 0 57 140 152 235 3.94e-11 59.3
MS.gene28214.t1 MTR_5g088720 34.118 85 55 1 57 140 207 291 4.08e-11 59.7
MS.gene28214.t1 MTR_5g088720 34.118 85 55 1 57 140 166 250 4.19e-11 59.7
MS.gene28214.t1 MTR_4g108830 33.721 86 48 2 55 139 114 191 5.19e-11 58.2
MS.gene28214.t1 MTR_4g108830 42.029 69 36 2 75 139 151 219 5.94e-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.gene28214.t1 AT1G14200 30.508 118 79 2 23 140 40 154 1.04e-14 67.8
MS.gene28214.t1 AT3G02340 26.897 145 84 4 1 140 253 380 2.01e-14 69.3
MS.gene28214.t1 AT3G02340 26.897 145 84 4 1 140 253 380 2.01e-14 69.3
MS.gene28214.t1 AT3G60080 40.541 74 41 1 67 140 144 214 2.06e-14 68.6
MS.gene28214.t1 AT1G60360 52.174 46 22 0 95 140 224 269 2.32e-14 68.9
MS.gene28214.t1 AT5G60820 43.396 53 30 0 89 141 366 418 1.62e-13 66.6
MS.gene28214.t1 AT2G44330 54.348 46 21 0 95 140 96 141 3.74e-13 63.5
MS.gene28214.t1 AT4G05350 35.052 97 51 3 55 139 108 204 5.55e-13 63.5
MS.gene28214.t1 AT4G12190 46.032 63 29 2 79 136 4 66 7.43e-13 60.1
MS.gene28214.t1 AT5G08139 39.062 64 38 1 78 140 291 354 1.25e-12 63.9
MS.gene28214.t1 AT2G40830 36.585 82 51 1 61 141 155 236 1.49e-12 63.5
MS.gene28214.t1 AT2G40830 36.585 82 51 1 61 141 155 236 1.49e-12 63.5
MS.gene28214.t1 AT2G40830 36.585 82 51 1 61 141 155 236 1.49e-12 63.5
MS.gene28214.t1 AT2G40830 36.585 82 51 1 61 141 155 236 1.49e-12 63.5
MS.gene28214.t1 AT5G15820 47.059 51 27 0 90 140 286 336 2.57e-12 63.2
MS.gene28214.t1 AT3G10815 36.508 63 40 0 78 140 104 166 2.84e-12 61.6
MS.gene28214.t1 AT1G21960 36.364 88 51 2 58 140 116 203 3.45e-12 61.6
MS.gene28214.t1 AT5G01980 40.625 64 38 0 77 140 332 395 3.86e-12 62.8
MS.gene28214.t1 AT5G54990 53.333 45 21 0 92 136 171 215 1.23e-11 60.5
MS.gene28214.t1 AT4G12210 44.444 63 30 2 79 136 135 197 1.67e-11 59.7
MS.gene28214.t1 AT4G12140 45.161 62 30 2 79 136 135 196 1.79e-11 59.7
MS.gene28214.t1 AT3G30460 40.678 59 35 0 81 139 83 141 1.82e-11 58.5
MS.gene28214.t1 AT3G30460 40.678 59 35 0 81 139 119 177 2.07e-11 58.9
MS.gene28214.t1 AT4G12150 49.091 55 26 1 82 134 140 194 2.12e-11 60.5
MS.gene28214.t1 AT4G26400 47.170 53 28 0 88 140 234 286 2.17e-11 60.5
MS.gene28214.t1 AT4G26400 47.170 53 28 0 88 140 234 286 2.17e-11 60.5
MS.gene28214.t1 AT1G55530 35.484 62 35 1 79 140 212 268 2.30e-11 60.5
MS.gene28214.t1 AT1G55530 35.484 62 35 1 79 140 212 268 2.30e-11 60.5
MS.gene28214.t1 AT1G55530 31.884 69 42 1 72 140 172 235 2.45e-11 60.1
MS.gene28214.t1 AT5G64920 37.931 58 36 0 79 136 241 298 3.34e-11 60.1
MS.gene28214.t1 AT3G13430 33.871 62 37 1 79 140 213 270 5.86e-11 59.3
MS.gene28214.t1 AT3G13430 33.871 62 37 1 79 140 213 270 5.86e-11 59.3
MS.gene28214.t1 AT3G13430 33.871 62 37 1 79 140 213 270 5.86e-11 59.3
MS.gene28214.t1 AT3G13430 33.871 62 37 1 79 140 213 270 5.86e-11 59.3
MS.gene28214.t1 AT3G19950 40.385 52 31 0 89 140 210 261 7.55e-11 58.9
MS.gene28214.t1 AT5G43200 44.068 59 31 2 83 139 144 202 7.62e-11 57.8
MS.gene28214.t1 AT3G19950 40.385 52 31 0 89 140 268 319 8.64e-11 58.9
MS.gene28214.t1 AT3G19950 40.385 52 31 0 89 140 268 319 8.64e-11 58.9
MS.gene28214.t1 AT3G56580 34.483 87 54 2 57 140 145 231 9.90e-11 58.5
MS.gene28214.t1 AT3G56580 34.483 87 54 2 57 140 145 231 9.90e-11 58.5
MS.gene28214.t1 AT3G56580 34.483 87 54 2 57 140 145 231 9.90e-11 58.5

Find 23 sgRNAs with CRISPR-Local

Find 24 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAATCACTTTCTACATTTAT+AGG 0.123833 3.3:-17468512 None:intergenic
TATCTGTTTGGCCGAGCTTT+TGG 0.296874 3.3:+17468769 MS.gene28214:CDS
CATAAACAAACTCAGATATT+AGG 0.326615 3.3:-17468899 None:intergenic
GATTCCGATTAGAATGCCTT+TGG 0.406287 3.3:-17468694 None:intergenic
AATACTGTGTTCTATCTGTT+TGG 0.415266 3.3:+17468757 MS.gene28214:CDS
ACGAAGGATGTATTATGAAA+TGG 0.423422 3.3:+17468834 MS.gene28214:CDS
CTATCCAAAGGCATTCTAAT+CGG 0.424659 3.3:+17468690 MS.gene28214:CDS
GAACCTGATTGATGAGGTTA+TGG 0.435011 3.3:-17468643 None:intergenic
CCACCATAACCTCATCAATC+AGG 0.481198 3.3:+17468640 MS.gene28214:CDS
AATTAGAGTTGAAGAAGGAA+AGG 0.503387 3.3:+17468724 MS.gene28214:CDS
GGAACAGTCTGACGACACAT+AGG 0.570479 3.3:-17468878 None:intergenic
TCGTGATACAAATGCGAACA+CGG 0.571244 3.3:-17468815 None:intergenic
GAACAGTCTGACGACACATA+GGG 0.586165 3.3:-17468877 None:intergenic
GGATGTATTATGAAATGGCT+AGG 0.587358 3.3:+17468839 MS.gene28214:CDS
ACTCATCGTCGTCATACTCA+TGG 0.592438 3.3:+17468569 MS.gene28214:CDS
TGGTTGGATCGCAAGCAACT+CGG 0.597083 3.3:+17468789 MS.gene28214:CDS
TTGCGATCCAACCAAAAGCT+CGG 0.608694 3.3:-17468780 None:intergenic
TTATGGTGGCGAAAAGCAGA+AGG 0.619203 3.3:-17468626 None:intergenic
GAAATATTGAAACTATCCAA+AGG 0.643613 3.3:+17468678 MS.gene28214:CDS
CCTGATTGATGAGGTTATGG+TGG 0.653108 3.3:-17468640 None:intergenic
TAGTCTGAACCTGATTGATG+AGG 0.654472 3.3:-17468649 None:intergenic
TGTTCGCATTTGTATCACGA+AGG 0.687288 3.3:+17468818 MS.gene28214:CDS
ATGGTACAAATCGATCACAA+AGG 0.716092 3.3:+17468588 MS.gene28214:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAATCACTTTCTACATTTAT+AGG - chr3.3:17468515-17468534 None:intergenic 20.0%
! GAAATATTGAAACTATCCAA+AGG + chr3.3:17468678-17468697 MS.gene28214:CDS 25.0%
! TCAAAAATTAGAGTTGAAGA+AGG + chr3.3:17468719-17468738 MS.gene28214:CDS 25.0%
AATACTGTGTTCTATCTGTT+TGG + chr3.3:17468757-17468776 MS.gene28214:CDS 30.0%
AATTAGAGTTGAAGAAGGAA+AGG + chr3.3:17468724-17468743 MS.gene28214:CDS 30.0%
ACGAAGGATGTATTATGAAA+TGG + chr3.3:17468834-17468853 MS.gene28214:CDS 30.0%
ATGGTACAAATCGATCACAA+AGG + chr3.3:17468588-17468607 MS.gene28214:CDS 35.0%
GGATGTATTATGAAATGGCT+AGG + chr3.3:17468839-17468858 MS.gene28214:CDS 35.0%
!! CTATCCAAAGGCATTCTAAT+CGG + chr3.3:17468690-17468709 MS.gene28214:CDS 35.0%
GAACCTGATTGATGAGGTTA+TGG - chr3.3:17468646-17468665 None:intergenic 40.0%
GATTCCGATTAGAATGCCTT+TGG - chr3.3:17468697-17468716 None:intergenic 40.0%
TAGTCTGAACCTGATTGATG+AGG - chr3.3:17468652-17468671 None:intergenic 40.0%
TCGTGATACAAATGCGAACA+CGG - chr3.3:17468818-17468837 None:intergenic 40.0%
TGTTCGCATTTGTATCACGA+AGG + chr3.3:17468818-17468837 MS.gene28214:CDS 40.0%
ACTCATCGTCGTCATACTCA+TGG + chr3.3:17468569-17468588 MS.gene28214:CDS 45.0%
CCACCATAACCTCATCAATC+AGG + chr3.3:17468640-17468659 MS.gene28214:CDS 45.0%
CCTGATTGATGAGGTTATGG+TGG - chr3.3:17468643-17468662 None:intergenic 45.0%
GAACAGTCTGACGACACATA+GGG - chr3.3:17468880-17468899 None:intergenic 45.0%
TTGCGATCCAACCAAAAGCT+CGG - chr3.3:17468783-17468802 None:intergenic 45.0%
! TATCTGTTTGGCCGAGCTTT+TGG + chr3.3:17468769-17468788 MS.gene28214:CDS 45.0%
! TTATGGTGGCGAAAAGCAGA+AGG - chr3.3:17468629-17468648 None:intergenic 45.0%
GGAACAGTCTGACGACACAT+AGG - chr3.3:17468881-17468900 None:intergenic 50.0%
TGGTTGGATCGCAAGCAACT+CGG + chr3.3:17468789-17468808 MS.gene28214:CDS 50.0%
! TGTTTGGCCGAGCTTTTGGT+TGG + chr3.3:17468773-17468792 MS.gene28214:CDS 50.0%


Chromosome Type Strat End Strand Name
chr3.3 gene 17468482 17468910 17468482 ID=MS.gene28214
chr3.3 mRNA 17468482 17468910 17468482 ID=MS.gene28214.t1;Parent=MS.gene28214
chr3.3 exon 17468482 17468910 17468482 ID=MS.gene28214.t1.exon1;Parent=MS.gene28214.t1
chr3.3 CDS 17468482 17468910 17468482 ID=cds.MS.gene28214.t1;Parent=MS.gene28214.t1
Gene Sequence

>MS.gene28214

ATGGAGCAACAACAACGTAATATAAGAAGTCCTATAAATGTAGAAAGTGATTATGTAATGATTCTTGATGCTGTTGATCAAAATCTCACTCATCGTCGTCATACTCATGGTACAAATCGATCACAAAGGTTCACTCTCTTGCATCCTTCTGCTTTTCGCCACCATAACCTCATCAATCAGGTTCAGACTACTACAAGAAATATTGAAACTATCCAAAGGCATTCTAATCGGAATCTTTCAAAAATTAGAGTTGAAGAAGGAAAGGAGTCTGAAGCAATACTGTGTTCTATCTGTTTGGCCGAGCTTTTGGTTGGATCGCAAGCAACTCGGTTGCCGTGTTCGCATTTGTATCACGAAGGATGTATTATGAAATGGCTAGGTAGATCAAACAGTTGCCCTATGTGTCGTCAGACTGTTCCTAATATCTGA
Protein sequence

>MS.gene28214.t1

MEQQQRNIRSPINVESDYVMILDAVDQNLTHRRHTHGTNRSQRFTLLHPSAFRHHNLINQVQTTTRNIETIQRHSNRNLSKIRVEEGKESEAILCSICLAELLVGSQATRLPCSHLYHEGCIMKWLGRSNSCPMCRQTVPNI