AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene022818

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene022818.t1 MTR_8g012210 96.933 326 10 0 1 326 45 370 0.0 656
MS.gene022818.t1 MTR_2g437030 23.024 291 211 8 19 304 172 454 3.24e-13 70.5
MS.gene022818.t1 MTR_6g083110 58.182 55 19 1 228 282 1 51 6.54e-13 66.2
MS.gene022818.t1 MTR_2g437260 20.130 308 233 9 19 319 80 381 1.59e-12 68.2
MS.gene022818.t1 MTR_4g120380 21.498 307 226 8 3 303 72 369 1.62e-12 68.2
MS.gene022818.t1 MTR_2g436400 20.139 288 225 4 18 304 92 375 5.56e-12 66.2
MS.gene022818.t1 MTR_2g437160 20.308 325 250 5 3 326 93 409 6.99e-12 66.2
MS.gene022818.t1 MTR_4g120380 20.521 307 230 7 3 303 72 370 8.06e-12 66.2
MS.gene022818.t1 MTR_2g437960 21.088 294 226 6 19 309 99 389 8.08e-12 66.2
MS.gene022818.t1 MTR_2g437960 21.088 294 226 6 19 309 99 389 8.91e-12 65.9
MS.gene022818.t1 MTR_2g436440 22.337 291 213 7 19 304 92 374 9.55e-12 65.9
MS.gene022818.t1 MTR_2g437020 21.583 278 206 6 18 289 84 355 1.20e-11 65.5
MS.gene022818.t1 MTR_2g436460 21.212 297 218 9 14 303 86 373 1.54e-11 65.1
MS.gene022818.t1 MTR_4g119580 22.258 310 222 8 3 304 72 370 2.47e-11 64.3
MS.gene022818.t1 MTR_2g019810 22.549 306 173 10 14 307 107 360 3.12e-11 63.9
MS.gene022818.t1 MTR_2g437080 22.222 306 197 9 18 304 85 368 4.04e-11 63.9
MS.gene022818.t1 MTR_4g119550 21.017 295 213 9 19 304 95 378 9.28e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene022818.t1 AT1G79220 47.866 328 166 3 2 326 74 399 2.36e-104 311
MS.gene022818.t1 AT1G21150 22.656 256 190 5 4 253 47 300 7.76e-12 65.9
MS.gene022818.t1 AT1G21150 22.656 256 190 5 4 253 83 336 9.24e-12 65.9
MS.gene022818.t1 AT1G21150 22.441 254 193 4 4 253 147 400 1.18e-11 65.9
MS.gene022818.t1 AT5G64950 25.090 279 183 7 43 304 107 376 2.04e-11 64.7
MS.gene022818.t1 AT1G61990 21.212 330 205 9 18 305 94 410 3.68e-11 63.9
MS.gene022818.t1 AT1G61990 21.212 330 205 9 18 305 94 410 3.68e-11 63.9
MS.gene022818.t1 AT1G62010 21.021 333 213 10 13 303 75 399 4.98e-11 63.5

Find 54 sgRNAs with CRISPR-Local

Find 71 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGCTTAGTGATTTGGGTTT+AGG 0.176330 8.1:+84859262 MS.gene022818:CDS
TGCTTAGTGATTTGGGTTTA+GGG 0.253153 8.1:+84859263 MS.gene022818:CDS
ACTTCGCTTGCTTAGTGATT+TGG 0.257285 8.1:+84859255 MS.gene022818:CDS
ATTGACAATGTCAAAATATT+AGG 0.269638 8.1:-84859736 None:intergenic
CTTCGCTTGCTTAGTGATTT+GGG 0.280618 8.1:+84859256 MS.gene022818:CDS
AGCAATGAAGGTACAGAATA+TGG 0.288554 8.1:+84859885 MS.gene022818:CDS
GGAAATTGCTGATGAGTTAA+TGG 0.297355 8.1:+84859996 MS.gene022818:CDS
AAATATGTGGTGACATTAAT+AGG 0.301744 8.1:+84859619 MS.gene022818:CDS
TAGCAGTTTCATCAAGGAAT+TGG 0.311012 8.1:+84860052 MS.gene022818:CDS
CAAGCCTCTCGTCGAAATTA+TGG 0.312035 8.1:-84859345 None:intergenic
ATATTTGAAAACAAAAGATA+TGG 0.343902 8.1:-84859832 None:intergenic
TTTGTACAATTTCGAATCCT+TGG 0.360192 8.1:-84859599 None:intergenic
GTTAAACAATACGAAGAGTT+AGG 0.365743 8.1:+84859469 MS.gene022818:CDS
TTTGACATTGTCAATTGATA+AGG 0.373162 8.1:+84859744 MS.gene022818:CDS
TGCAAAATGTTGAAGACAAA+TGG 0.380077 8.1:+84859119 MS.gene022818:CDS
TATGTCATTGTTTGAATCAA+AGG 0.401055 8.1:+84859375 MS.gene022818:CDS
TTCATTGCTAGAAGCACTCT+TGG 0.407140 8.1:-84859871 None:intergenic
GCGCAATTCGGATCCTTCTC+AGG 0.407457 8.1:+84859222 MS.gene022818:CDS
TTGTAAAGATTATCAATTGT+AGG 0.408436 8.1:+84859296 MS.gene022818:CDS
CATCAGCAATTTCCTTATCA+TGG 0.411377 8.1:-84859987 None:intergenic
ATGGAATATATAAGTAGGAT+TGG 0.421574 8.1:+84859571 MS.gene022818:CDS
TTGCCCGTCTTTGCGCAATT+CGG 0.442985 8.1:+84859210 MS.gene022818:CDS
TGTGGAAACAATTCGCGAAA+AGG 0.448608 8.1:+84859651 MS.gene022818:CDS
CTCAATGCTCTGAGTATTGA+GGG 0.449891 8.1:-84859925 None:intergenic
ATCAAAGGAAATGCTTCATA+AGG 0.452439 8.1:+84859390 MS.gene022818:CDS
TTCCTTTGATGATGAGAAGA+TGG 0.456305 8.1:+84859552 MS.gene022818:CDS
AAGAGTTAGGTATACCGAAA+AGG 0.463423 8.1:+84859482 MS.gene022818:CDS
TGGAATATATAAGTAGGATT+GGG 0.487565 8.1:+84859572 MS.gene022818:CDS
GATCCGAATTGCGCAAAGAC+GGG 0.502395 8.1:-84859213 None:intergenic
AGAGTTAGGTATACCGAAAA+GGG 0.503218 8.1:+84859483 MS.gene022818:CDS
CCTCAATGCTCTGAGTATTG+AGG 0.505830 8.1:-84859926 None:intergenic
GTTTGTCAGATGCCATGATA+AGG 0.508257 8.1:+84859975 MS.gene022818:CDS
AGGTATACCGAAAAGGGACT+TGG 0.508376 8.1:+84859489 MS.gene022818:CDS
CATATAAAAGTAGTTCAGAA+AGG 0.515005 8.1:-84860090 None:intergenic
AGAGATTAGCAGTTTCATCA+AGG 0.527319 8.1:+84860046 MS.gene022818:CDS
AAGAGTGCTTCTAGCAATGA+AGG 0.527541 8.1:+84859873 MS.gene022818:CDS
TATTTGAAAACAAAAGATAT+GGG 0.531224 8.1:-84859831 None:intergenic
CAATGAAGGGTTTCTTGCAA+TGG 0.534493 8.1:-84859413 None:intergenic
AGAAGATGGAATATATAAGT+AGG 0.535407 8.1:+84859566 MS.gene022818:CDS
GGATCCGAATTGCGCAAAGA+CGG 0.535712 8.1:-84859214 None:intergenic
ATATAAAAGTAGTTCAGAAA+GGG 0.539481 8.1:-84860089 None:intergenic
TTCGAAATTGTACAAATATG+TGG 0.547821 8.1:+84859606 MS.gene022818:CDS
AAGTAGGATTGGGCTTTCCA+AGG 0.560292 8.1:+84859582 MS.gene022818:CDS
TTCCATCTTCTCATCATCAA+AGG 0.572098 8.1:-84859554 None:intergenic
TCAAGGAATTGGACTACTAG+AGG 0.573509 8.1:+84860063 MS.gene022818:CDS
CATTGAGGATGTCCGAGGAG+AGG 0.582695 8.1:+84859941 MS.gene022818:CDS
ATTAATAGGCATCTCTCGTG+TGG 0.591058 8.1:+84859633 MS.gene022818:CDS
TGTCAATTGATAAGGTGCAA+AGG 0.614484 8.1:+84859752 MS.gene022818:CDS
CCTCAATACTCAGAGCATTG+AGG 0.621437 8.1:+84859926 MS.gene022818:CDS
TTAACCATAATTTCGACGAG+AGG 0.625796 8.1:+84859341 MS.gene022818:CDS
GAAGTTCTCGAAATAACAGT+CGG 0.638101 8.1:-84859532 None:intergenic
AGTTTCGACTGAACCTGAGA+AGG 0.646506 8.1:-84859235 None:intergenic
AAATGTTGAAGACAAATGGA+AGG 0.655802 8.1:+84859123 MS.gene022818:CDS
CAGAGCATTGAGGATGTCCG+AGG 0.674861 8.1:+84859936 MS.gene022818:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATATTTGAAAACAAAAGATA+TGG - chr8.1:84859835-84859854 None:intergenic 15.0%
!! TATTTGAAAACAAAAGATAT+GGG - chr8.1:84859834-84859853 None:intergenic 15.0%
!!! AGTTAATGGAATTTTATAAA+AGG + chr8.1:84860010-84860029 MS.gene022818:CDS 15.0%
!!! ATATCTTTTGTTTTCAAATA+TGG + chr8.1:84859834-84859853 MS.gene022818:CDS 15.0%
!! ATTGACAATGTCAAAATATT+AGG - chr8.1:84859739-84859758 None:intergenic 20.0%
!! TTGTAAAGATTATCAATTGT+AGG + chr8.1:84859296-84859315 MS.gene022818:CDS 20.0%
!!! ATTTTATAAAAGGACAAAAC+AGG + chr8.1:84860020-84860039 MS.gene022818:CDS 20.0%
!!! TTTTACAAAGTATGGTTTTT+CGG + chr8.1:84859681-84859700 MS.gene022818:CDS 20.0%
! AAATATGTGGTGACATTAAT+AGG + chr8.1:84859619-84859638 MS.gene022818:CDS 25.0%
! AGAAGATGGAATATATAAGT+AGG + chr8.1:84859566-84859585 MS.gene022818:CDS 25.0%
! ATGGAATATATAAGTAGGAT+TGG + chr8.1:84859571-84859590 MS.gene022818:CDS 25.0%
! TATGTCATTGTTTGAATCAA+AGG + chr8.1:84859375-84859394 MS.gene022818:CDS 25.0%
! TGGAATATATAAGTAGGATT+GGG + chr8.1:84859572-84859591 MS.gene022818:CDS 25.0%
! TTCGAAATTGTACAAATATG+TGG + chr8.1:84859606-84859625 MS.gene022818:CDS 25.0%
! TTTGACATTGTCAATTGATA+AGG + chr8.1:84859744-84859763 MS.gene022818:CDS 25.0%
!! ATGAAATATTCGGTCTTTTT+GGG + chr8.1:84859707-84859726 MS.gene022818:CDS 25.0%
!! GTGTTGAATTTTACAAAGTA+TGG + chr8.1:84859673-84859692 MS.gene022818:CDS 25.0%
!! TTTTCGGATGATGAAATATT+CGG + chr8.1:84859697-84859716 MS.gene022818:CDS 25.0%
!!! TACTGAAGTTTTGAGTAAAT+GGG + chr8.1:84859150-84859169 MS.gene022818:CDS 25.0%
AAATGTTGAAGACAAATGGA+AGG + chr8.1:84859123-84859142 MS.gene022818:CDS 30.0%
ATCAAAGGAAATGCTTCATA+AGG + chr8.1:84859390-84859409 MS.gene022818:CDS 30.0%
GTTAAACAATACGAAGAGTT+AGG + chr8.1:84859469-84859488 MS.gene022818:CDS 30.0%
TGCAAAATGTTGAAGACAAA+TGG + chr8.1:84859119-84859138 MS.gene022818:CDS 30.0%
TTTGTACAATTTCGAATCCT+TGG - chr8.1:84859602-84859621 None:intergenic 30.0%
! AGGAACATGACTTTCATTTT+AGG + chr8.1:84859772-84859791 MS.gene022818:CDS 30.0%
! GATGAAATATTCGGTCTTTT+TGG + chr8.1:84859706-84859725 MS.gene022818:CDS 30.0%
! TATTTTCACACAGCAATGAA+GGG - chr8.1:84859429-84859448 None:intergenic 30.0%
! TTATTTTCACACAGCAATGA+AGG - chr8.1:84859430-84859449 None:intergenic 30.0%
!!! ACTGAAGTTTTGAGTAAATG+GGG + chr8.1:84859151-84859170 MS.gene022818:CDS 30.0%
!!! CTACTGAAGTTTTGAGTAAA+TGG + chr8.1:84859149-84859168 MS.gene022818:CDS 30.0%
AAGAGTTAGGTATACCGAAA+AGG + chr8.1:84859482-84859501 MS.gene022818:CDS 35.0%
AGAGATTAGCAGTTTCATCA+AGG + chr8.1:84860046-84860065 MS.gene022818:CDS 35.0%
AGAGTTAGGTATACCGAAAA+GGG + chr8.1:84859483-84859502 MS.gene022818:CDS 35.0%
CATCAGCAATTTCCTTATCA+TGG - chr8.1:84859990-84860009 None:intergenic 35.0%
GAAGTTCTCGAAATAACAGT+CGG - chr8.1:84859535-84859554 None:intergenic 35.0%
GGAAATTGCTGATGAGTTAA+TGG + chr8.1:84859996-84860015 MS.gene022818:CDS 35.0%
TAGCAGTTTCATCAAGGAAT+TGG + chr8.1:84860052-84860071 MS.gene022818:CDS 35.0%
TGTCAATTGATAAGGTGCAA+AGG + chr8.1:84859752-84859771 MS.gene022818:CDS 35.0%
TTAACCATAATTTCGACGAG+AGG + chr8.1:84859341-84859360 MS.gene022818:CDS 35.0%
TTCCATCTTCTCATCATCAA+AGG - chr8.1:84859557-84859576 None:intergenic 35.0%
! AGCAATGAAGGTACAGAATA+TGG + chr8.1:84859885-84859904 MS.gene022818:CDS 35.0%
! ATTTGAACCAAGTCCCTTTT+CGG - chr8.1:84859499-84859518 None:intergenic 35.0%
! TGCTTAGTGATTTGGGTTTA+GGG + chr8.1:84859263-84859282 MS.gene022818:CDS 35.0%
! TTGCTTAGTGATTTGGGTTT+AGG + chr8.1:84859262-84859281 MS.gene022818:CDS 35.0%
!! TTCCTTTGATGATGAGAAGA+TGG + chr8.1:84859552-84859571 MS.gene022818:CDS 35.0%
ACTTCGCTTGCTTAGTGATT+TGG + chr8.1:84859255-84859274 MS.gene022818:CDS 40.0%
ATTAATAGGCATCTCTCGTG+TGG + chr8.1:84859633-84859652 MS.gene022818:CDS 40.0%
CAATGAAGGGTTTCTTGCAA+TGG - chr8.1:84859416-84859435 None:intergenic 40.0%
CGTATTGAAAAACCTCTCCT+CGG - chr8.1:84859956-84859975 None:intergenic 40.0%
CTTCGCTTGCTTAGTGATTT+GGG + chr8.1:84859256-84859275 MS.gene022818:CDS 40.0%
GTTTGTCAGATGCCATGATA+AGG + chr8.1:84859975-84859994 MS.gene022818:CDS 40.0%
TCAAGGAATTGGACTACTAG+AGG + chr8.1:84860063-84860082 MS.gene022818:CDS 40.0%
TGTGGAAACAATTCGCGAAA+AGG + chr8.1:84859651-84859670 MS.gene022818:CDS 40.0%
! ATTGTAGGCCTCGATTTTTC+AGG + chr8.1:84859311-84859330 MS.gene022818:CDS 40.0%
!! AAGAGTGCTTCTAGCAATGA+AGG + chr8.1:84859873-84859892 MS.gene022818:CDS 40.0%
!! CTCAATGCTCTGAGTATTGA+GGG - chr8.1:84859928-84859947 None:intergenic 40.0%
!! GTTTTGAGTAAATGGGGTTG+TGG + chr8.1:84859157-84859176 MS.gene022818:CDS 40.0%
!! TTCATTGCTAGAAGCACTCT+TGG - chr8.1:84859874-84859893 None:intergenic 40.0%
AAGTAGGATTGGGCTTTCCA+AGG + chr8.1:84859582-84859601 MS.gene022818:CDS 45.0%
AGGTATACCGAAAAGGGACT+TGG + chr8.1:84859489-84859508 MS.gene022818:CDS 45.0%
AGTCGAGTCCTGAAAAATCG+AGG - chr8.1:84859322-84859341 None:intergenic 45.0%
AGTTTCGACTGAACCTGAGA+AGG - chr8.1:84859238-84859257 None:intergenic 45.0%
CAAGCCTCTCGTCGAAATTA+TGG - chr8.1:84859348-84859367 None:intergenic 45.0%
! CCTCAATGCTCTGAGTATTG+AGG - chr8.1:84859929-84859948 None:intergenic 45.0%
!! CCTCAATACTCAGAGCATTG+AGG + chr8.1:84859926-84859945 MS.gene022818:CDS 45.0%
GATCCGAATTGCGCAAAGAC+GGG - chr8.1:84859216-84859235 None:intergenic 50.0%
GGATCCGAATTGCGCAAAGA+CGG - chr8.1:84859217-84859236 None:intergenic 50.0%
TTGCCCGTCTTTGCGCAATT+CGG + chr8.1:84859210-84859229 MS.gene022818:CDS 50.0%
CATTGAGGATGTCCGAGGAG+AGG + chr8.1:84859941-84859960 MS.gene022818:CDS 55.0%
GCGCAATTCGGATCCTTCTC+AGG + chr8.1:84859222-84859241 MS.gene022818:CDS 55.0%
!! CAGAGCATTGAGGATGTCCG+AGG + chr8.1:84859936-84859955 MS.gene022818:CDS 55.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 84859118 84860098 84859118 ID=MS.gene022818
chr8.1 mRNA 84859118 84860098 84859118 ID=MS.gene022818.t1;Parent=MS.gene022818
chr8.1 exon 84859118 84860098 84859118 ID=MS.gene022818.t1.exon1;Parent=MS.gene022818.t1
chr8.1 CDS 84859118 84860098 84859118 ID=cds.MS.gene022818.t1;Parent=MS.gene022818.t1
Gene Sequence

>MS.gene022818

ATGCAAAATGTTGAAGACAAATGGAAGGATGCTACTGAAGTTTTGAGTAAATGGGGTTGTGGTGATGACGATTTGACGAGAATATTCACTCGTTGCCCGTCTTTGCGCAATTCGGATCCTTCTCAGGTTCAGTCGAAACTTCGCTTGCTTAGTGATTTGGGTTTAGGGTCAGCTGAGCTTGTAAAGATTATCAATTGTAGGCCTCGATTTTTCAGGACTCGACTTAACCATAATTTCGACGAGAGGCTTGACTCTCTTATGTCATTGTTTGAATCAAAGGAAATGCTTCATAAGGCCATTGCAAGAAACCCTTCATTGCTGTGTGAAAATAATTATGACATTGAACGTATTGTTAAACAATACGAAGAGTTAGGTATACCGAAAAGGGACTTGGTTCAAATGATGATTTTGAGACCGACTGTTATTTCGAGAACTTCCTTTGATGATGAGAAGATGGAATATATAAGTAGGATTGGGCTTTCCAAGGATTCGAAATTGTACAAATATGTGGTGACATTAATAGGCATCTCTCGTGTGGAAACAATTCGCGAAAAGGTGTTGAATTTTACAAAGTATGGTTTTTCGGATGATGAAATATTCGGTCTTTTTGGGAAGTCTCCTAATATTTTGACATTGTCAATTGATAAGGTGCAAAGGAACATGACTTTCATTTTAGGCACAATGAAGCTTGAAGCTAACATAATCTTTACGTACCCATATCTTTTGTTTTCAAATATGGAGACAGTTTTGAAGCCAAGAGTGCTTCTAGCAATGAAGGTACAGAATATGGATTCTAATATGAAAACACCCTCAATACTCAGAGCATTGAGGATGTCCGAGGAGAGGTTTTTCAATACGTTTGTCAGATGCCATGATAAGGAAATTGCTGATGAGTTAATGGAATTTTATAAAAGGACAAAACAGGTTAAGAGATTAGCAGTTTCATCAAGGAATTGGACTACTAGAGGATTCCCTTTCTGA
Protein sequence

>MS.gene022818.t1

MQNVEDKWKDATEVLSKWGCGDDDLTRIFTRCPSLRNSDPSQVQSKLRLLSDLGLGSAELVKIINCRPRFFRTRLNHNFDERLDSLMSLFESKEMLHKAIARNPSLLCENNYDIERIVKQYEELGIPKRDLVQMMILRPTVISRTSFDDEKMEYISRIGLSKDSKLYKYVVTLIGISRVETIREKVLNFTKYGFSDDEIFGLFGKSPNILTLSIDKVQRNMTFILGTMKLEANIIFTYPYLLFSNMETVLKPRVLLAMKVQNMDSNMKTPSILRALRMSEERFFNTFVRCHDKEIADELMEFYKRTKQVKRLAVSSRNWTTRGFPF