AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene001359

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene001359.t1 MTR_7g053200 100.000 123 0 0 1 123 1 123 7.32e-85 254
MS.gene001359.t1 MTR_8g011780 65.833 120 38 1 7 123 14 133 4.24e-49 162
MS.gene001359.t1 MTR_2g062850 37.069 116 66 2 8 123 166 274 7.58e-19 81.3
MS.gene001359.t1 MTR_2g098240 36.752 117 66 2 6 122 10 118 2.37e-18 79.3
MS.gene001359.t1 MTR_1g060790 38.211 123 67 3 1 123 462 575 2.50e-18 79.7
MS.gene001359.t1 MTR_6g004720 36.752 117 65 3 8 123 248 356 4.21e-18 79.0
MS.gene001359.t1 MTR_7g033640 37.607 117 64 3 8 123 229 337 9.77e-18 78.2
MS.gene001359.t1 MTR_3g010260 37.190 121 67 3 3 123 409 520 1.26e-17 77.8
MS.gene001359.t1 MTR_4g065080 34.167 120 71 2 8 123 10 125 1.37e-16 74.7
MS.gene001359.t1 MTR_7g104180 36.585 123 69 3 1 123 484 597 1.61e-16 74.7
MS.gene001359.t1 MTR_8g006870 34.483 116 69 2 8 123 367 475 1.89e-16 74.3
MS.gene001359.t1 MTR_2g027240 34.483 116 69 2 8 123 201 309 2.35e-16 73.9
MS.gene001359.t1 MTR_7g081665 35.345 116 68 2 8 123 361 469 7.79e-16 72.8
MS.gene001359.t1 MTR_2g018990 32.258 124 71 2 8 123 74 192 8.27e-16 72.4
MS.gene001359.t1 MTR_8g446990 33.621 116 70 2 8 123 129 237 6.95e-15 69.7
MS.gene001359.t1 MTR_8g089420 32.203 118 67 4 8 117 70 182 2.57e-13 65.5
MS.gene001359.t1 MTR_2g069990 34.483 116 69 2 8 123 91 199 3.32e-13 65.1
MS.gene001359.t1 MTR_2g095980 30.000 120 77 2 4 123 364 476 4.53e-13 64.7
MS.gene001359.t1 MTR_2g095980 30.252 119 76 2 5 123 620 731 4.57e-13 64.7
MS.gene001359.t1 MTR_2g095980 30.252 119 76 2 5 123 620 731 4.76e-13 64.7
MS.gene001359.t1 MTR_8g070530 30.252 119 76 2 5 123 591 702 7.54e-13 63.9
MS.gene001359.t1 MTR_2g085065 32.456 114 69 3 12 123 90 197 2.50e-12 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene001359.t1 AT4G13000 54.701 117 47 2 7 123 14 124 3.87e-35 124
MS.gene001359.t1 AT3G25250 55.000 120 48 2 7 123 11 127 8.27e-35 124
MS.gene001359.t1 AT1G16440 35.294 119 72 1 5 123 105 218 4.36e-20 84.7
MS.gene001359.t1 AT2G34650 34.711 121 71 2 6 123 68 183 8.00e-20 84.0
MS.gene001359.t1 AT3G12690 36.134 119 69 2 5 123 177 288 1.02e-19 83.6
MS.gene001359.t1 AT3G12690 36.134 119 69 2 5 123 177 288 1.02e-19 83.6
MS.gene001359.t1 AT3G12690 36.134 119 69 2 5 123 177 288 1.02e-19 83.6
MS.gene001359.t1 AT1G79250 35.294 119 70 2 5 123 138 249 7.31e-18 78.6
MS.gene001359.t1 AT1G79250 35.294 119 70 2 5 123 138 249 7.31e-18 78.6
MS.gene001359.t1 AT1G79250 35.294 119 70 2 5 123 138 249 7.31e-18 78.6
MS.gene001359.t1 AT1G79250 35.294 119 70 2 5 123 138 249 7.31e-18 78.6
MS.gene001359.t1 AT5G55910 33.884 121 71 3 3 123 101 212 4.78e-17 76.3
MS.gene001359.t1 AT5G55910 33.884 121 71 3 3 123 101 212 4.78e-17 76.3
MS.gene001359.t1 AT5G03640 34.711 121 72 2 3 123 531 644 5.49e-17 75.9
MS.gene001359.t1 AT5G03640 34.711 121 72 2 3 123 531 644 5.49e-17 75.9
MS.gene001359.t1 AT5G47750 34.483 116 69 2 8 123 186 294 9.75e-17 75.1
MS.gene001359.t1 AT4G26610 33.884 121 71 3 3 123 115 226 1.50e-16 74.7
MS.gene001359.t1 AT2G36350 34.188 117 70 2 7 123 553 662 4.83e-16 73.2
MS.gene001359.t1 AT2G26700 30.252 119 78 1 5 123 79 192 7.22e-16 72.8
MS.gene001359.t1 AT2G44830 34.483 116 69 2 8 123 358 466 1.39e-15 72.0
MS.gene001359.t1 AT2G44830 34.483 116 69 2 8 123 358 466 1.39e-15 72.0
MS.gene001359.t1 AT2G44830 34.483 116 69 2 8 123 358 466 1.39e-15 72.0
MS.gene001359.t1 AT3G52890 33.333 117 71 2 7 123 532 641 3.11e-15 70.9
MS.gene001359.t1 AT3G52890 33.333 117 71 2 7 123 532 641 3.11e-15 70.9
MS.gene001359.t1 AT3G52890 33.333 117 71 2 7 123 532 641 3.11e-15 70.9
MS.gene001359.t1 AT3G52890 33.333 117 71 2 7 123 532 641 3.11e-15 70.9
MS.gene001359.t1 AT5G58140 30.894 123 78 2 1 123 565 680 5.65e-15 70.1
MS.gene001359.t1 AT5G58140 31.933 119 74 2 5 123 569 680 1.21e-14 69.3
MS.gene001359.t1 AT5G58140 31.933 119 74 2 5 123 569 680 1.21e-14 69.3
MS.gene001359.t1 AT5G58140 31.933 119 74 2 5 123 569 680 1.21e-14 69.3
MS.gene001359.t1 AT5G58140 31.933 119 74 2 5 123 569 680 1.21e-14 69.3
MS.gene001359.t1 AT5G58140 31.933 119 74 2 5 123 569 680 1.21e-14 69.3
MS.gene001359.t1 AT5G40030 35.833 120 66 3 6 123 107 217 1.52e-14 68.9
MS.gene001359.t1 AT3G27580 32.773 119 73 2 5 123 174 285 1.87e-14 68.6
MS.gene001359.t1 AT3G27580 32.773 119 73 2 5 123 174 285 1.87e-14 68.6
MS.gene001359.t1 AT5G58140 31.933 119 74 2 5 123 569 680 2.41e-14 68.6
MS.gene001359.t1 AT3G45780 31.933 119 74 2 5 123 655 766 5.84e-14 67.4
MS.gene001359.t1 AT3G45780 31.933 119 74 2 5 123 655 766 5.84e-14 67.4
MS.gene001359.t1 AT3G44610 35.965 114 58 3 19 123 75 182 3.20e-13 65.1
MS.gene001359.t1 AT1G53700 32.759 116 72 1 8 123 88 197 4.82e-13 64.7
MS.gene001359.t1 AT3G20830 31.200 125 71 3 6 123 14 130 1.25e-12 63.5
MS.gene001359.t1 AT1G51170 32.520 123 68 3 8 123 17 131 2.95e-12 62.4
MS.gene001359.t1 AT3G14370 32.759 116 71 2 8 123 83 191 2.22e-11 59.7

Find 23 sgRNAs with CRISPR-Local

Find 28 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCAAACTGAAAAGCTTAT+TGG 0.148224 7.1:+49041535 MS.gene001359:CDS
CCTCTCTTGCCTAGGTTTAA+AGG 0.151835 7.1:+49041508 MS.gene001359:CDS
TGTTTCGCCGCCGTGATTCA+TGG 0.360362 7.1:-49041275 None:intergenic
CGCCGTCGGTCGTGGCGCAA+AGG 0.449924 7.1:+49041327 MS.gene001359:CDS
TTGATCATCCTCTCTTGCCT+AGG 0.457608 7.1:+49041500 MS.gene001359:CDS
GCCGTCGGTCGTGGCGCAAA+GGG 0.465289 7.1:+49041328 MS.gene001359:CDS
GAATCACGGCGGCGAAACAT+TGG 0.475611 7.1:+49041279 MS.gene001359:CDS
TTTGCTATTGATTATTGTCA+TGG 0.483556 7.1:+49041559 MS.gene001359:CDS
TGAAAAGCTCCTTTAAACCT+AGG 0.487325 7.1:-49041517 None:intergenic
AATTCTCTGAAGAAACAATC+AGG 0.495961 7.1:+49041623 MS.gene001359:CDS
GAAAGAATGGTGAATGCAAA+AGG 0.496992 7.1:+49041446 MS.gene001359:CDS
ACCCTTTGCGCCACGACCGA+CGG 0.506004 7.1:-49041329 None:intergenic
GTGTTTCTTTCAAGAACCTA+CGG 0.544643 7.1:+49041355 MS.gene001359:CDS
CCTTTAAACCTAGGCAAGAG+AGG 0.548188 7.1:-49041508 None:intergenic
CTATTGATTATTGTCATGGT+GGG 0.561164 7.1:+49041563 MS.gene001359:CDS
ATCATCGAAAGAAGAATGGT+TGG 0.568810 7.1:+49041378 MS.gene001359:CDS
TTCTTCTTTCGATGATCCGT+AGG 0.576905 7.1:-49041371 None:intergenic
CTTACCTCTGCCATGAATCA+CGG 0.586868 7.1:+49041265 None:intergenic
ACGGATCATCGAAAGAAGAA+TGG 0.592361 7.1:+49041374 MS.gene001359:CDS
CTTTGCGCCACGACCGACGG+CGG 0.638099 7.1:-49041326 None:intergenic
AAAGAATGGTGAATGCAAAA+GGG 0.638261 7.1:+49041447 MS.gene001359:CDS
GCTATTGATTATTGTCATGG+TGG 0.639438 7.1:+49041562 MS.gene001359:CDS
ACCTCTGCCATGAATCACGG+CGG 0.774611 7.1:+49041268 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TTTCAAACTGAAAAGCTTAT+TGG + chr7.1:49041535-49041554 MS.gene001359:CDS 25.0%
!! AGGAAAAATAATGGAAAGAA+TGG + chr7.1:49041433-49041452 MS.gene001359:CDS 25.0%
!!! CGGATAAAATTTTAAGGTTT+CGG - chr7.1:49041309-49041328 None:intergenic 25.0%
!!! CTTCTTTTGAGGAAAAATAA+TGG + chr7.1:49041424-49041443 MS.gene001359:CDS 25.0%
!!! TTTGCTATTGATTATTGTCA+TGG + chr7.1:49041559-49041578 MS.gene001359:CDS 25.0%
AAAGAATGGTGAATGCAAAA+GGG + chr7.1:49041447-49041466 MS.gene001359:CDS 30.0%
! AATTCTCTGAAGAAACAATC+AGG + chr7.1:49041623-49041642 MS.gene001359:CDS 30.0%
! CTATTGATTATTGTCATGGT+GGG + chr7.1:49041563-49041582 MS.gene001359:CDS 30.0%
! TATCTAAAGAGCTTCTTTTG+AGG + chr7.1:49041413-49041432 MS.gene001359:CDS 30.0%
!!! TCTTCAGAGAATTTTTTCTC+AGG - chr7.1:49041616-49041635 None:intergenic 30.0%
ATCATCGAAAGAAGAATGGT+TGG + chr7.1:49041378-49041397 MS.gene001359:CDS 35.0%
GAAAGAATGGTGAATGCAAA+AGG + chr7.1:49041446-49041465 MS.gene001359:CDS 35.0%
GTGTTTCTTTCAAGAACCTA+CGG + chr7.1:49041355-49041374 MS.gene001359:CDS 35.0%
TGAAAAGCTCCTTTAAACCT+AGG - chr7.1:49041520-49041539 None:intergenic 35.0%
! CTTAAAATTTTATCCGCCGT+CGG + chr7.1:49041313-49041332 MS.gene001359:CDS 35.0%
! GCTATTGATTATTGTCATGG+TGG + chr7.1:49041562-49041581 MS.gene001359:CDS 35.0%
ACGGATCATCGAAAGAAGAA+TGG + chr7.1:49041374-49041393 MS.gene001359:CDS 40.0%
TTCTTCTTTCGATGATCCGT+AGG - chr7.1:49041374-49041393 None:intergenic 40.0%
! CGACGGCGGATAAAATTTTA+AGG - chr7.1:49041315-49041334 None:intergenic 40.0%
CCTCTCTTGCCTAGGTTTAA+AGG + chr7.1:49041508-49041527 MS.gene001359:CDS 45.0%
CCTTTAAACCTAGGCAAGAG+AGG - chr7.1:49041511-49041530 None:intergenic 45.0%
TTGATCATCCTCTCTTGCCT+AGG + chr7.1:49041500-49041519 MS.gene001359:CDS 45.0%
GAATCACGGCGGCGAAACAT+TGG + chr7.1:49041279-49041298 MS.gene001359:CDS 55.0%
! ATTTTATCCGCCGTCGGTCG+TGG + chr7.1:49041319-49041338 MS.gene001359:CDS 55.0%
ACCCTTTGCGCCACGACCGA+CGG - chr7.1:49041332-49041351 None:intergenic 65.0%
CTTTGCGCCACGACCGACGG+CGG - chr7.1:49041329-49041348 None:intergenic 70.0%
GCCGTCGGTCGTGGCGCAAA+GGG + chr7.1:49041328-49041347 MS.gene001359:CDS 70.0%
CGCCGTCGGTCGTGGCGCAA+AGG + chr7.1:49041327-49041346 MS.gene001359:CDS 75.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 49041277 49041648 49041277 ID=MS.gene001359
chr7.1 mRNA 49041277 49041648 49041277 ID=MS.gene001359.t1;Parent=MS.gene001359
chr7.1 exon 49041277 49041648 49041277 ID=MS.gene001359.t1.exon1;Parent=MS.gene001359.t1
chr7.1 CDS 49041277 49041648 49041277 ID=cds.MS.gene001359.t1;Parent=MS.gene001359.t1
Gene Sequence

>MS.gene001359

ATGAATCACGGCGGCGAAACATTGGACTTCCGAAACCTTAAAATTTTATCCGCCGTCGGTCGTGGCGCAAAGGGTGTCGTGTTTCTTTCAAGAACCTACGGATCATCGAAAGAAGAATGGTTGGCATTGAAAGTGATATCTAAAGAGCTTCTTTTGAGGAAAAATAATGGAAAGAATGGTGAATGCAAAAGGGTGAAATTTGAACAACAAATACTACGTCGTTTTGATCATCCTCTCTTGCCTAGGTTTAAAGGAGCTTTTCAAACTGAAAAGCTTATTGGATTTGCTATTGATTATTGTCATGGTGGGAATTTGCATTCTCTTAGAAAGAAACAACCTGAGAAAAAATTCTCTGAAGAAACAATCAGGTAA
Protein sequence

>MS.gene001359.t1

MNHGGETLDFRNLKILSAVGRGAKGVVFLSRTYGSSKEEWLALKVISKELLLRKNNGKNGECKRVKFEQQILRRFDHPLLPRFKGAFQTEKLIGFAIDYCHGGNLHSLRKKQPEKKFSEETIR