AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180005807.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180005807.01.T01 MTR_1g107285 92.105 76 6 0 1 76 389 464 1.56e-44 149
MsG0180005807.01.T01 MTR_1g107325 76.316 76 17 1 1 76 279 353 1.35e-34 120
MsG0180005807.01.T01 MTR_3g049970 77.922 77 16 1 1 77 396 471 1.61e-34 122
MsG0180005807.01.T01 MTR_1g107365 73.684 76 17 1 1 76 420 492 1.66e-31 114
MsG0180005807.01.T01 MTR_1g107360 72.368 76 18 2 1 75 388 461 1.70e-30 111
MsG0180005807.01.T01 MTR_1g107315 79.221 77 15 1 1 77 395 470 9.00e-30 109
MsG0180005807.01.T01 MTR_1g107350 69.737 76 22 1 1 76 395 469 1.48e-29 108
MsG0180005807.01.T01 MTR_8g064870 69.737 76 22 1 1 76 400 474 2.31e-29 108
MsG0180005807.01.T01 MTR_1g107375 68.421 76 21 1 1 76 382 454 1.27e-28 106
MsG0180005807.01.T01 MTR_1g032490 75.641 78 18 1 1 78 397 473 5.04e-28 104
MsG0180005807.01.T01 MTR_8g064880 67.105 76 24 1 1 76 402 476 8.34e-20 82.0
MsG0180005807.01.T01 MTR_5g004940 55.172 58 26 0 19 76 321 378 2.68e-15 68.9
MsG0180005807.01.T01 MTR_1g107380 42.466 73 39 1 3 75 403 472 3.73e-12 60.1
MsG0180005807.01.T01 MTR_8g083280 43.243 74 40 2 3 75 389 461 6.13e-12 59.7
MsG0180005807.01.T01 MTR_7g080950 41.096 73 40 1 3 75 378 447 9.12e-12 58.9
MsG0180005807.01.T01 MTR_8g083290 38.667 75 42 3 3 75 391 463 2.62e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180005807.01.T01 AT4G15480 53.333 75 34 1 1 75 405 478 6.41e-20 82.4
MsG0180005807.01.T01 AT4G15500 45.679 81 40 2 1 78 389 468 3.48e-18 77.4
MsG0180005807.01.T01 AT4G15490 46.835 79 41 1 1 79 393 470 2.40e-17 75.1
MsG0180005807.01.T01 AT3G21560 49.333 75 37 1 1 75 399 472 1.64e-16 72.8
MsG0180005807.01.T01 AT1G05560 52.727 55 25 1 21 75 448 501 7.33e-12 59.3
MsG0180005807.01.T01 AT2G23260 45.333 75 39 2 1 75 381 453 1.63e-11 58.5
MsG0180005807.01.T01 AT1G05680 35.714 70 42 1 3 72 383 449 3.86e-11 57.4
MsG0180005807.01.T01 AT2G23250 40.000 75 43 2 1 75 363 435 8.16e-11 56.6
MsG0180005807.01.T01 AT1G05560 52.727 55 25 1 21 75 398 451 8.96e-11 56.2

Find 21 sgRNAs with CRISPR-Local

Find 23 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCGGAATCTTGATGAGTTTA+TGG 0.205758 1:+96389445 MsG0180005807.01.T01:CDS
TGAGGTGAAGAAGTGCTTAT+TGG 0.236956 1:+96389325 MsG0180005807.01.T01:CDS
TGCTTATTGGAAGCAACAAC+TGG 0.334367 1:+96389338 MsG0180005807.01.T01:CDS
TTTGGGATAGGAATTAAAAT+AGG 0.355858 1:+96389263 MsG0180005807.01.T01:CDS
GAAGAAGGCGGAGGAAGCTT+TGG 0.420316 1:+96389403 MsG0180005807.01.T01:CDS
TTGGGTTGTAAATAATGAAT+TGG 0.427793 1:+96389292 MsG0180005807.01.T01:CDS
GAGGAAGCTTTGGCCGTTGG+TGG 0.436155 1:+96389413 MsG0180005807.01.T01:CDS
GAATTAAAATAGGTAGTGGT+TGG 0.455984 1:+96389273 MsG0180005807.01.T01:CDS
GCGGAGGAAGCTTTGGCCGT+TGG 0.485293 1:+96389410 MsG0180005807.01.T01:CDS
AATTAAAATAGGTAGTGGTT+GGG 0.509326 1:+96389274 MsG0180005807.01.T01:CDS
ATAGGAATTAAAATAGGTAG+TGG 0.547457 1:+96389269 MsG0180005807.01.T01:CDS
GCTTATTGGAAGCAACAACT+GGG 0.570415 1:+96389339 MsG0180005807.01.T01:CDS
TGCAAACAAGTGGAAGAAGA+AGG 0.576172 1:+96389388 MsG0180005807.01.T01:CDS
CCGTTGGTGGATCCTCTGAT+CGG 0.578196 1:+96389426 MsG0180005807.01.T01:CDS
CTCATCAAGATTCCGATCAG+AGG 0.592037 1:-96389438 None:intergenic
TGAAGCAAAATGCAAACAAG+TGG 0.603058 1:+96389378 MsG0180005807.01.T01:CDS
TGAATTGGTAACAAGAGATG+AGG 0.624799 1:+96389307 MsG0180005807.01.T01:CDS
CAAGTGGAAGAAGAAGGCGG+AGG 0.637922 1:+96389394 MsG0180005807.01.T01:CDS
CCGATCAGAGGATCCACCAA+CGG 0.671965 1:-96389426 None:intergenic
CTTATTGGAAGCAACAACTG+GGG 0.712429 1:+96389340 MsG0180005807.01.T01:CDS
AAACAAGTGGAAGAAGAAGG+CGG 0.728169 1:+96389391 MsG0180005807.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATAGGAATTAAAATAGGTAG+TGG + Chr1:96389269-96389288 MsG0180005807.01.T01:CDS 25.0%
!! AATTAAAATAGGTAGTGGTT+GGG + Chr1:96389274-96389293 MsG0180005807.01.T01:CDS 25.0%
!! TTGGGTTGTAAATAATGAAT+TGG + Chr1:96389292-96389311 MsG0180005807.01.T01:CDS 25.0%
!! TTTGGGATAGGAATTAAAAT+AGG + Chr1:96389263-96389282 MsG0180005807.01.T01:CDS 25.0%
! GAATTAAAATAGGTAGTGGT+TGG + Chr1:96389273-96389292 MsG0180005807.01.T01:CDS 30.0%
TCGGAATCTTGATGAGTTTA+TGG + Chr1:96389445-96389464 MsG0180005807.01.T01:CDS 35.0%
TGAAGCAAAATGCAAACAAG+TGG + Chr1:96389378-96389397 MsG0180005807.01.T01:CDS 35.0%
! TGAATTGGTAACAAGAGATG+AGG + Chr1:96389307-96389326 MsG0180005807.01.T01:CDS 35.0%
AAACAAGTGGAAGAAGAAGG+CGG + Chr1:96389391-96389410 MsG0180005807.01.T01:CDS 40.0%
CTTATTGGAAGCAACAACTG+GGG + Chr1:96389340-96389359 MsG0180005807.01.T01:CDS 40.0%
GCTTATTGGAAGCAACAACT+GGG + Chr1:96389339-96389358 MsG0180005807.01.T01:CDS 40.0%
TGCAAACAAGTGGAAGAAGA+AGG + Chr1:96389388-96389407 MsG0180005807.01.T01:CDS 40.0%
TGCTTATTGGAAGCAACAAC+TGG + Chr1:96389338-96389357 MsG0180005807.01.T01:CDS 40.0%
!! TGAGGTGAAGAAGTGCTTAT+TGG + Chr1:96389325-96389344 MsG0180005807.01.T01:CDS 40.0%
!!! CTGGTTGATGTTTTTGGGAT+AGG + Chr1:96389251-96389270 MsG0180005807.01.T01:CDS 40.0%
CTCATCAAGATTCCGATCAG+AGG - Chr1:96389441-96389460 None:intergenic 45.0%
CAACTGGGGAAAAAGCAGAG+AGG + Chr1:96389354-96389373 MsG0180005807.01.T01:CDS 50.0%
CAAGTGGAAGAAGAAGGCGG+AGG + Chr1:96389394-96389413 MsG0180005807.01.T01:CDS 55.0%
CCGATCAGAGGATCCACCAA+CGG - Chr1:96389429-96389448 None:intergenic 55.0%
GAAGAAGGCGGAGGAAGCTT+TGG + Chr1:96389403-96389422 MsG0180005807.01.T01:CDS 55.0%
! CCGTTGGTGGATCCTCTGAT+CGG + Chr1:96389426-96389445 MsG0180005807.01.T01:CDS 55.0%
! GAGGAAGCTTTGGCCGTTGG+TGG + Chr1:96389413-96389432 MsG0180005807.01.T01:CDS 60.0%
! GCGGAGGAAGCTTTGGCCGT+TGG + Chr1:96389410-96389429 MsG0180005807.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr1 gene 96389251 96389512 96389251 ID=MsG0180005807.01;Name=MsG0180005807.01
Chr1 mRNA 96389251 96389493 96389251 ID=MsG0180005807.01.T01;Parent=MsG0180005807.01;Name=MsG0180005807.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|80
Chr1 exon 96389251 96389493 96389251 ID=MsG0180005807.01.T01:exon:50516;Parent=MsG0180005807.01.T01
Chr1 CDS 96389251 96389493 96389251 ID=MsG0180005807.01.T01:cds;Parent=MsG0180005807.01.T01
Chr1 mRNA 96389387 96389512 96389387 ID=MsG0180005807.01.T02;Parent=MsG0180005807.01;Name=MsG0180005807.01.T02;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|41
Chr1 exon 96389387 96389512 96389387 ID=MsG0180005807.01.T02:exon:50517;Parent=MsG0180005807.01.T02
Chr1 CDS 96389387 96389512 96389387 ID=MsG0180005807.01.T02:cds;Parent=MsG0180005807.01.T02
Gene Sequence

>MsG0180005807.01.T01

CTGGTTGATGTTTTTGGGATAGGAATTAAAATAGGTAGTGGTTGGGTTGTAAATAATGAATTGGTAACAAGAGATGAGGTGAAGAAGTGCTTATTGGAAGCAACAACTGGGGAAAAAGCAGAGAGGTTGAAGCAAAATGCAAACAAGTGGAAGAAGAAGGCGGAGGAAGCTTTGGCCGTTGGTGGATCCTCTGATCGGAATCTTGATGAGTTTATGGAAGACATTAAGAACATGCATCATTAA

>MsG0180005807.01.T02

ATGCAAACAAGTGGAAGAAGAAGGCGGAGGAAGCTTTGGCCGTTGGTGGATCCTCTGATCGGAATCTTGATGAGTTTATGGAAGACATTAAGAACATGCATCATTAATAATAATGTTAACGTCTAG

Protein sequence

>MsG0180005807.01.T01

LVDVFGIGIKIGSGWVVNNELVTRDEVKKCLLEATTGEKAERLKQNANKWKKKAEEALAVGGSSDRNLDEFMEDIKNMHH*

>MsG0180005807.01.T02

MQTSGRRRRRKLWPLVDPLIGILMSLWKTLRTCIINNNVNV*