AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene64651


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene64651.t1 MTR_4g061823 89.286 112 10 2 1 112 133 242 5.56e-58 179
MS.gene64651.t1 MTR_4g061910 89.286 112 10 2 1 112 133 242 5.56e-58 179
MS.gene64651.t1 MTR_2g096080 64.286 112 36 3 1 112 144 251 8.37e-39 130
MS.gene64651.t1 MTR_1g044785 52.326 86 39 2 2 86 123 207 1.29e-20 83.2
MS.gene64651.t1 MTR_8g098725 72.000 50 14 0 8 57 224 273 2.03e-20 84.0
MS.gene64651.t1 MTR_8g098725 72.000 50 14 0 8 57 220 269 2.08e-20 84.0
MS.gene64651.t1 MTR_1g073350 70.000 50 15 0 9 58 312 361 7.97e-19 80.5
MS.gene64651.t1 MTR_2g068730 69.231 52 16 0 8 59 158 209 3.91e-18 77.0
MS.gene64651.t1 MTR_5g010120 68.000 50 16 0 8 57 168 217 2.95e-17 74.7
MS.gene64651.t1 MTR_3g091340 61.224 49 19 0 9 57 197 245 3.21e-16 72.0
MS.gene64651.t1 MTR_3g091340 61.224 49 19 0 9 57 190 238 3.61e-16 71.6
MS.gene64651.t1 MTR_3g091340 61.224 49 19 0 9 57 226 274 6.39e-16 71.2
MS.gene64651.t1 MTR_1g008220 56.000 50 22 0 9 58 228 277 1.03e-15 70.9
MS.gene64651.t1 MTR_1g013450 47.368 57 30 0 5 61 247 303 6.17e-12 60.8
MS.gene64651.t1 MTR_7g018170 44.444 54 30 0 5 58 319 372 6.65e-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.gene64651.t1 AT5G41380 57.143 77 21 1 8 84 210 274 2.88e-23 91.7
MS.gene64651.t1 AT1G63820 67.273 55 18 0 8 62 187 241 9.85e-22 87.0
MS.gene64651.t1 AT2G33350 76.000 50 12 0 9 58 295 344 3.15e-21 87.0
MS.gene64651.t1 AT2G33350 76.000 50 12 0 9 58 306 355 3.16e-21 87.0
MS.gene64651.t1 AT2G33350 76.000 50 12 0 9 58 307 356 3.41e-21 87.0
MS.gene64651.t1 AT2G33350 77.551 49 11 0 9 57 315 363 1.15e-20 85.5
MS.gene64651.t1 AT3G12890 57.746 71 30 0 8 78 134 204 8.50e-20 81.3
MS.gene64651.t1 AT5G59990 57.471 87 30 2 5 91 155 234 1.56e-19 80.5
MS.gene64651.t1 AT1G04500 73.469 49 13 0 9 57 275 323 4.82e-18 78.2
MS.gene64651.t1 AT1G04500 73.469 49 13 0 9 57 284 332 5.01e-18 78.2
MS.gene64651.t1 AT1G04500 73.469 49 13 0 9 57 284 332 5.01e-18 78.2
MS.gene64651.t1 AT4G27900 50.000 58 29 0 1 58 202 259 9.19e-16 70.9
MS.gene64651.t1 AT4G27900 50.000 58 29 0 1 58 202 259 9.19e-16 70.9
MS.gene64651.t1 AT5G53420 47.368 57 30 0 1 57 127 183 4.08e-15 67.8
MS.gene64651.t1 AT5G53420 47.368 57 30 0 1 57 127 183 4.08e-15 67.8
MS.gene64651.t1 AT5G53420 47.368 57 30 0 1 57 127 183 4.08e-15 67.8
MS.gene64651.t1 AT5G53420 47.368 57 30 0 1 57 206 262 1.01e-14 68.2
MS.gene64651.t1 AT5G24930 44.643 56 31 0 2 57 284 339 5.30e-11 58.2

Find 28 sgRNAs with CRISPR-Local

Find 86 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTCTCCATCATTATTAATA+TGG 0.215056 4.4:+43377286 None:intergenic
AGACACTATATGAGGAATTA+TGG 0.234337 4.4:+43377178 None:intergenic
AAGATGAGGAAGAAGAGAAT+TGG 0.325488 4.4:-43377257 MS.gene64651:CDS
TTAATATGGCTCCATTGATT+TGG 0.330401 4.4:+43377300 None:intergenic
GAACTACAATAAGAAAATTA+AGG 0.352434 4.4:-43378479 MS.gene64651:intron
GACTCGTCATGAGCAAGATT+TGG 0.366759 4.4:+43377204 None:intergenic
GACACTATATGAGGAATTAT+GGG 0.370530 4.4:+43377179 None:intergenic
AGATGAGGAAGAAGAGAATT+GGG 0.375443 4.4:-43377256 MS.gene64651:CDS
TTCCTCTGGGCTGTAAGGAC+TGG 0.386798 4.4:+43378546 None:intergenic
GACAGTAGGCCACGTATTAG+AGG 0.396649 4.4:-43377360 MS.gene64651:CDS
TTGGGAATCAGTATGTTTGT+AGG 0.430394 4.4:-43377395 MS.gene64651:intron
ATATGGCTCCATTGATTTGG+TGG 0.458606 4.4:+43377303 None:intergenic
TGGAGCCATATTAATAATGA+TGG 0.462252 4.4:-43377291 MS.gene64651:CDS
TAATGAATCCACCAAATCAA+TGG 0.463510 4.4:-43377311 MS.gene64651:CDS
TTAATACAAGACACTATATG+AGG 0.478126 4.4:+43377170 None:intergenic
GGACAGTTTATTTGATACAT+TGG 0.482895 4.4:-43377235 MS.gene64651:CDS
TGGAGAGGAATTAGAAGATG+AGG 0.517815 4.4:-43377271 MS.gene64651:CDS
TTACAGCCCAGAGGAAAAGA+AGG 0.592097 4.4:-43378539 MS.gene64651:CDS
ACAGTAGGCCACGTATTAGA+GGG 0.598648 4.4:-43377359 MS.gene64651:CDS
GTATGTTTGTAGGAAGACAT+TGG 0.609319 4.4:-43377385 MS.gene64651:CDS
GCCCAGAGGAAAAGAAGGTG+AGG 0.612843 4.4:-43378534 MS.gene64651:CDS
GGAAGACATTGGCAGACAGT+AGG 0.616987 4.4:-43377374 MS.gene64651:CDS
TCATGAGCAAGATTTGGAGT+AGG 0.623530 4.4:+43377210 None:intergenic
CCATATTAATAATGATGGAG+AGG 0.627865 4.4:-43377286 MS.gene64651:CDS
ATAGAAGCAAGAGAAATCAG+AGG 0.650504 4.4:-43378501 MS.gene64651:CDS
ACACTATATGAGGAATTATG+GGG 0.665187 4.4:+43377180 None:intergenic
AGCCAGTCCTTACAGCCCAG+AGG 0.687171 4.4:-43378548 MS.gene64651:CDS
GCAAATCTCCCTCTAATACG+TGG 0.703686 4.4:+43377351 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTTTTTTTTAATAAATAT+CGG + chr4.4:43377356-43377375 None:intergenic 0.0%
!!! TTTAAAACTTAAATAGTATA+TGG - chr4.4:43377395-43377414 MS.gene64651:intron 10.0%
!!! TTTAAGTTTTAAAACAATAT+TGG + chr4.4:43377388-43377407 None:intergenic 10.0%
!! AAAATGTATGTATTAAAATG+AGG + chr4.4:43377310-43377329 None:intergenic 15.0%
!! TTAAGAATATTATAACAACA+TGG - chr4.4:43377643-43377662 MS.gene64651:intron 15.0%
!!! AGTTTATTTTTGAAAAAACT+AGG + chr4.4:43377995-43378014 None:intergenic 15.0%
!!! GTTTATTTTTGAAAAAACTA+GGG + chr4.4:43377994-43378013 None:intergenic 15.0%
!!! TCAAATTGTAACTATAATTT+TGG - chr4.4:43378132-43378151 MS.gene64651:intron 15.0%
!! AATATAAAACCCTCATTATT+TGG + chr4.4:43377732-43377751 None:intergenic 20.0%
!! ATATAAAACCCTCATTATTT+GGG + chr4.4:43377731-43377750 None:intergenic 20.0%
!! GAACTACAATAAGAAAATTA+AGG - chr4.4:43377250-43377269 MS.gene64651:CDS 20.0%
!! TGAAGAATGAAAATTAGAAT+TGG - chr4.4:43378048-43378067 MS.gene64651:intron 20.0%
!! TTTATTGAATGACCATATTA+GGG - chr4.4:43377530-43377549 MS.gene64651:intron 20.0%
!!! ATCTTAGTTTTGTTTTCTTT+TGG - chr4.4:43378315-43378334 MS.gene64651:intron 20.0%
!!! TATTCTTTTGATTTTTTGCA+TGG - chr4.4:43378081-43378100 MS.gene64651:intron 20.0%
!!! TCTTAGTTTTGTTTTCTTTT+GGG - chr4.4:43378316-43378335 MS.gene64651:intron 20.0%
!!! TTTTAAAATTGTCTACGATT+CGG + chr4.4:43377503-43377522 None:intergenic 20.0%
!!! TTTTCAAAAATAAACTGAAG+TGG - chr4.4:43377999-43378018 MS.gene64651:intron 20.0%
! AAATGGAAACAGTAAAAAGT+TGG - chr4.4:43377963-43377982 MS.gene64651:intron 25.0%
! AACTTAAATAGTATATGGTC+CGG - chr4.4:43377400-43377419 MS.gene64651:intron 25.0%
! CTACTTTAAACAATTTAAGC+TGG - chr4.4:43377447-43377466 MS.gene64651:intron 25.0%
! GTTTATTGAATGACCATATT+AGG - chr4.4:43377529-43377548 MS.gene64651:intron 25.0%
! TATAAAACCCTCATTATTTG+GGG + chr4.4:43377730-43377749 None:intergenic 25.0%
! TTAATACAAGACACTATATG+AGG + chr4.4:43378562-43378581 None:intergenic 25.0%
! TTATTGAATGACCATATTAG+GGG - chr4.4:43377531-43377550 MS.gene64651:intron 25.0%
!! ACAAAATTTTCTCCATTCAT+TGG + chr4.4:43377884-43377903 None:intergenic 25.0%
!! ACAATTTGATATTTTCTGTG+TGG + chr4.4:43378121-43378140 None:intergenic 25.0%
!! CATCTAAGATTGAAAGTAAA+TGG - chr4.4:43377946-43377965 MS.gene64651:intron 25.0%
!!! GATTTGTTACTGTACATTAT+TGG + chr4.4:43378266-43378285 None:intergenic 25.0%
ACACTATATGAGGAATTATG+GGG + chr4.4:43378552-43378571 None:intergenic 30.0%
AGACACTATATGAGGAATTA+TGG + chr4.4:43378554-43378573 None:intergenic 30.0%
ATTGGAAGAGATAACTTTGA+GGG + chr4.4:43377771-43377790 None:intergenic 30.0%
CCTCTCCATCATTATTAATA+TGG + chr4.4:43378446-43378465 None:intergenic 30.0%
GACACTATATGAGGAATTAT+GGG + chr4.4:43378553-43378572 None:intergenic 30.0%
GAGTTTGGAGATAAAAAGAA+GGG + chr4.4:43377838-43377857 None:intergenic 30.0%
GGACAGTTTATTTGATACAT+TGG - chr4.4:43378494-43378513 MS.gene64651:CDS 30.0%
GGGGAACTAAAAAATTGTAT+TGG + chr4.4:43377711-43377730 None:intergenic 30.0%
TAATGAATCCACCAAATCAA+TGG - chr4.4:43378418-43378437 MS.gene64651:intron 30.0%
TGGAGCCATATTAATAATGA+TGG - chr4.4:43378438-43378457 MS.gene64651:intron 30.0%
! ATGGAGAAAATTTTGTGAAG+AGG - chr4.4:43377888-43377907 MS.gene64651:intron 30.0%
! CAATTTTTCCCTGTATTTCT+CGG + chr4.4:43377560-43377579 None:intergenic 30.0%
! CCATATTAATAATGATGGAG+AGG - chr4.4:43378443-43378462 MS.gene64651:intron 30.0%
! TTAATATGGCTCCATTGATT+TGG + chr4.4:43378432-43378451 None:intergenic 30.0%
! TTTAGTTCCCCAAATAATGA+GGG - chr4.4:43377720-43377739 MS.gene64651:intron 30.0%
!!! TTTTAGTTCCCCAAATAATG+AGG - chr4.4:43377719-43377738 MS.gene64651:intron 30.0%
AAACTCGCAAACAAAACCTA+AGG - chr4.4:43377852-43377871 MS.gene64651:intron 35.0%
AACTCGCAAACAAAACCTAA+GGG - chr4.4:43377853-43377872 MS.gene64651:intron 35.0%
AAGATGAGGAAGAAGAGAAT+TGG - chr4.4:43378472-43378491 MS.gene64651:intron 35.0%
AGATGAGGAAGAAGAGAATT+GGG - chr4.4:43378473-43378492 MS.gene64651:intron 35.0%
ATAGAAGCAAGAGAAATCAG+AGG - chr4.4:43377228-43377247 MS.gene64651:CDS 35.0%
CATTGGAAGAGATAACTTTG+AGG + chr4.4:43377772-43377791 None:intergenic 35.0%
CGAGTTTGGAGATAAAAAGA+AGG + chr4.4:43377839-43377858 None:intergenic 35.0%
GGAAAAAATGAAGGAGTAAG+TGG + chr4.4:43377808-43377827 None:intergenic 35.0%
GTAGTTGAACCATAACTTAG+AGG + chr4.4:43377431-43377450 None:intergenic 35.0%
GTATGTTTGTAGGAAGACAT+TGG - chr4.4:43378344-43378363 MS.gene64651:intron 35.0%
GTGGAAGAAATAGAAGACAT+TGG + chr4.4:43377789-43377808 None:intergenic 35.0%
TTGGAGATAAAAAGAAGGGA+GGG + chr4.4:43377834-43377853 None:intergenic 35.0%
TTGGGAATCAGTATGTTTGT+AGG - chr4.4:43378334-43378353 MS.gene64651:intron 35.0%
TTTGGAGATAAAAAGAAGGG+AGG + chr4.4:43377835-43377854 None:intergenic 35.0%
!! AATTTTGGTGTGACACTTTG+TGG - chr4.4:43378147-43378166 MS.gene64651:intron 35.0%
!!! TTAGGTTTTGTTTGCGAGTT+TGG + chr4.4:43377853-43377872 None:intergenic 35.0%
CATTCATTGGAGTTTCCCTT+AGG + chr4.4:43377871-43377890 None:intergenic 40.0%
CTAAGGGAAACTCCAATGAA+TGG - chr4.4:43377869-43377888 MS.gene64651:intron 40.0%
GATAAAAAGAAGGGAGGGTT+TGG + chr4.4:43377829-43377848 None:intergenic 40.0%
GGAGGGTTTGGAAAAAATGA+AGG + chr4.4:43377817-43377836 None:intergenic 40.0%
TGGAGAGGAATTAGAAGATG+AGG - chr4.4:43378458-43378477 MS.gene64651:intron 40.0%
! TCATGAGCAAGATTTGGAGT+AGG + chr4.4:43378522-43378541 None:intergenic 40.0%
!! ATATGGCTCCATTGATTTGG+TGG + chr4.4:43378429-43378448 None:intergenic 40.0%
ACAGTAGGCCACGTATTAGA+GGG - chr4.4:43378370-43378389 MS.gene64651:intron 45.0%
GACTCGTCATGAGCAAGATT+TGG + chr4.4:43378528-43378547 None:intergenic 45.0%
GCAAATCTCCCTCTAATACG+TGG + chr4.4:43378381-43378400 None:intergenic 45.0%
TTACAGCCCAGAGGAAAAGA+AGG - chr4.4:43377190-43377209 MS.gene64651:CDS 45.0%
TTTCTCGGAAGCCCCTAATA+TGG + chr4.4:43377545-43377564 None:intergenic 45.0%
TTTGCATGGTAGAGTCTTGC+AGG - chr4.4:43378095-43378114 MS.gene64651:intron 45.0%
! ATCCTCACCTTCTTTTCCTC+TGG + chr4.4:43377200-43377219 None:intergenic 45.0%
! TCCTCACCTTCTTTTCCTCT+GGG + chr4.4:43377199-43377218 None:intergenic 45.0%
! TTCTTTTCCTCTGGGCTGTA+AGG + chr4.4:43377191-43377210 None:intergenic 45.0%
AGGGGCTTCCGAGAAATACA+GGG - chr4.4:43377549-43377568 MS.gene64651:intron 50.0%
CCATAACTTAGAGGTCTCGC+CGG + chr4.4:43377422-43377441 None:intergenic 50.0%
GACAGTAGGCCACGTATTAG+AGG - chr4.4:43378369-43378388 MS.gene64651:intron 50.0%
GGAAGACATTGGCAGACAGT+AGG - chr4.4:43378355-43378374 MS.gene64651:intron 50.0%
TAGGGGCTTCCGAGAAATAC+AGG - chr4.4:43377548-43377567 MS.gene64651:intron 50.0%
CCGGCGAGACCTCTAAGTTA+TGG - chr4.4:43377419-43377438 MS.gene64651:intron 55.0%
GCCCAGAGGAAAAGAAGGTG+AGG - chr4.4:43377195-43377214 MS.gene64651:CDS 55.0%
TTCCTCTGGGCTGTAAGGAC+TGG + chr4.4:43377186-43377205 None:intergenic 55.0%
AGCCAGTCCTTACAGCCCAG+AGG - chr4.4:43377181-43377200 MS.gene64651:CDS 60.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 43377170 43378581 43377170 ID=MS.gene64651
chr4.4 mRNA 43377170 43378581 43377170 ID=MS.gene64651.t1;Parent=MS.gene64651
chr4.4 exon 43378480 43378581 43378480 ID=MS.gene64651.t1.exon1;Parent=MS.gene64651.t1
chr4.4 CDS 43378480 43378581 43378480 ID=cds.MS.gene64651.t1;Parent=MS.gene64651.t1
chr4.4 exon 43377170 43377406 43377170 ID=MS.gene64651.t1.exon2;Parent=MS.gene64651.t1
chr4.4 CDS 43377170 43377406 43377170 ID=cds.MS.gene64651.t1;Parent=MS.gene64651.t1
Gene Sequence

>MS.gene64651

ATGAGCAGAGCAGCCAGTCCTTACAGCCCAGAGGAAAAGAAGGTGAGGATTGAGAGATATAGAAGCAAGAGAAATCAGAGGAACTACAATAAGAAAATTAAGGTTAATTTTGTCTTTCTTTTATTAATAATAATTTGCCTCATTTTAATACATACATTTTAGTTTGTCTCTATATAGTCTACTCCGATATTTATTAAAAAAAAAAAAAGACTACTCCAATATTGTTTTAAAACTTAAATAGTATATGGTCCGGCGAGACCTCTAAGTTATGGTTCAACTACTTTAAACAATTTAAGCTGGAACAAAACTGTGATTGAATTGTTCAAATAGCCGAATCGTAGACAATTTTAAAATGAATAGTTTATTGAATGACCATATTAGGGGCTTCCGAGAAATACAGGGAAAAATTGATAAATTTTTCATATTTTTTTAGAGAGTATAAGCTAATTTTTATTATTAATATATTTTTAATTTTAAGAATATTATAACAACATGGATTATATTTGAAAAATTCATATAAACTCTCAAAAACTCTCATCCAATACAATTTTTTAGTTCCCCAAATAATGAGGGTTTTATATTTTGAAAAAAAATAAAGCCCTCAAAGTTATCTCTTCCAATGTCTTCTATTTCTTCCACTTACTCCTTCATTTTTTCCAAACCCTCCCTTCTTTTTATCTCCAAACTCGCAAACAAAACCTAAGGGAAACTCCAATGAATGGAGAAAATTTTGTGAAGAGGATAACAGCTCTTGATAAATATCATTGCTAAAATCACATCTAAGATTGAAAGTAAATGGAAACAGTAAAAAGTTGGACAAACCCTAGTTTTTTCAAAAATAAACTGAAGTGGTAATACTTTCAATAATCAAAATGATATGAAGAATGAAAATTAGAATTGGCTCTTGATTTTATTCTTTTGATTTTTTGCATGGTAGAGTCTTGCAGGCCACACAGAAAATATCAAATTGTAACTATAATTTTGGTGTGACACTTTGTGGATTGCAACATCAGTTTGTGATATGAGAATCATAAAAATTATCTCACATTTGTCTTATTATACGAGAATCATAAACTAAGCAATTATGAGTGATCCAATAATGTACAGTAACAAATCTTAGTTTGTTTTTATTATGAAAATATATAATCTTAGTTTTGTTTTCTTTTGGGAATCAGTATGTTTGTAGGAAGACATTGGCAGACAGTAGGCCACGTATTAGAGGGAGATTTGCTAAGAATGATGAAATTGTAATGAATCCACCAAATCAATGGAGCCATATTAATAATGATGGAGAGGAATTAGAAGATGAGGAAGAAGAGAATTGGGACAGTTTATTTGATACATTGGTTCCTACTCCAAATCTTGCTCATGACGAGTCTCCCCATAATTCCTCATATAGTGTCTTGTATTAA

Protein sequence

>MS.gene64651.t1

MSRAASPYSPEEKKVRIERYRSKRNQRNYNKKIKYVCRKTLADSRPRIRGRFAKNDEIVMNPPNQWSHINNDGEELEDEEEENWDSLFDTLVPTPNLAHDESPHNSSYSVLY