AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene70636


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene70636.t1 MTR_3g077630 97.115 208 6 0 1 208 145 352 3.96e-151 423
MS.gene70636.t1 MTR_4g105600 73.077 208 52 2 1 208 147 350 1.19e-110 320
MS.gene70636.t1 MTR_7g035095 53.140 207 82 5 1 206 126 318 4.66e-73 224
MS.gene70636.t1 MTR_8g069820 52.404 208 93 3 1 207 142 344 3.86e-72 222
MS.gene70636.t1 MTR_5g033940 50.000 208 104 0 1 208 121 328 2.98e-70 217
MS.gene70636.t1 MTR_8g069805 48.372 215 91 3 1 207 157 359 8.58e-68 212
MS.gene70636.t1 MTR_1g086330 56.209 153 67 0 52 204 173 325 9.95e-59 187
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene70636.t1 AT5G62960 54.717 212 75 3 1 208 153 347 2.51e-79 241
MS.gene70636.t1 AT1G70505 55.556 198 85 2 5 202 130 324 6.88e-71 219
MS.gene70636.t1 AT1G70505 55.556 198 85 2 5 202 156 350 1.36e-70 219
MS.gene70636.t1 AT1G10660 49.500 200 97 2 1 200 123 318 1.66e-64 202
MS.gene70636.t1 AT1G10660 49.500 200 97 2 1 200 123 318 1.66e-64 202
MS.gene70636.t1 AT1G10660 49.500 200 97 2 1 200 123 318 1.66e-64 202
MS.gene70636.t1 AT1G10660 49.500 200 97 2 1 200 123 318 1.66e-64 202
MS.gene70636.t1 AT5G62960 54.598 174 58 3 1 170 153 309 1.07e-61 194
MS.gene70636.t1 AT3G27770 42.640 197 106 2 1 197 83 272 7.82e-52 168
MS.gene70636.t1 AT3G27770 42.640 197 106 2 1 197 126 315 4.16e-51 167
MS.gene70636.t1 AT2G47115 49.405 168 78 1 43 203 130 297 6.35e-47 156
MS.gene70636.t1 AT1G70505 47.899 119 59 2 5 123 130 245 3.70e-27 104
MS.gene70636.t1 AT1G70505 47.934 121 60 2 5 125 156 273 5.45e-27 105

Find 45 sgRNAs with CRISPR-Local

Find 84 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCTCACTGATTGTGTATTT+TGG 0.163861 3.1:-63810168 MS.gene70636:CDS
GAAATCAAGTGGTGATAATA+AGG 0.310675 3.1:-63810513 MS.gene70636:CDS
GTTTAGATTGTAATCTTTGA+TGG 0.322863 3.1:+63810123 None:intergenic
CACTTGATTTCTTATGTTGT+TGG 0.347629 3.1:+63810525 None:intergenic
TATCTTTCAAATAATATTCC+AGG 0.363276 3.1:-63810348 MS.gene70636:intron
TAATCTTTGATGGTTAGAAA+TGG 0.396997 3.1:+63810133 None:intergenic
GCCTTTCCCTTGGTTTCGAA+TGG 0.405870 3.1:-63809824 MS.gene70636:CDS
TTCGCCAACATGCTGGAACT+TGG 0.406302 3.1:-63810376 MS.gene70636:CDS
TCGCCAACATGCTGGAACTT+GGG 0.415761 3.1:-63810375 MS.gene70636:CDS
TTCATGCTTGCATTAATCTC+TGG 0.416369 3.1:-63809753 MS.gene70636:intron
TTGGCGAACATTAACTTCTT+CGG 0.420467 3.1:+63810391 None:intergenic
GAGGATGACAAGTCAAGAAA+TGG 0.433463 3.1:+63809622 None:intergenic
GCTCTCTTCAGCCTTTCCCT+TGG 0.434934 3.1:-63809834 MS.gene70636:intron
CATCCTCATATGCTCCACTA+TGG 0.460621 3.1:-63809606 MS.gene70636:intron
CCTTTCCCTTGGTTTCGAAT+GGG 0.468182 3.1:-63809823 MS.gene70636:CDS
TTGATATGAGTCGGGGTAGC+GGG 0.468763 3.1:+63809294 None:intergenic
CTAACACATTGATATGAGTC+GGG 0.484149 3.1:+63809286 None:intergenic
TGATACAGCTTTAAATTGCC+TGG 0.484429 3.1:-63809937 MS.gene70636:intron
TCTGATGCATTAGAACTTTG+TGG 0.494592 3.1:+63810437 None:intergenic
GTTAATGTTCGCCAACATGC+TGG 0.515327 3.1:-63810383 MS.gene70636:CDS
GACAAGTCAAGAAATGGATA+AGG 0.518669 3.1:+63809628 None:intergenic
CGCCAACATGCTGGAACTTG+GGG 0.519334 3.1:-63810374 MS.gene70636:CDS
TGCAAGCATGAACAATCCAT+TGG 0.520315 3.1:+63809764 None:intergenic
TACTCGTGAAAGATAAATGC+AGG 0.524620 3.1:-63810199 MS.gene70636:intron
ATACCATAGTGGAGCATATG+AGG 0.524828 3.1:+63809603 None:intergenic
CTGATGCATTAGAACTTTGT+GGG 0.528959 3.1:+63810438 None:intergenic
TTACTGCATATTCCATGCTA+TGG 0.537856 3.1:-63809361 MS.gene70636:CDS
GGATCAATACTTTCCATGCA+TGG 0.538449 3.1:-63810554 None:intergenic
TTAAAGCTGTATCACCTATG+AGG 0.539460 3.1:+63809946 None:intergenic
TCTAACACATTGATATGAGT+CGG 0.542148 3.1:+63809285 None:intergenic
TGATAATAAGGTTGATAATG+TGG 0.562805 3.1:-63810501 MS.gene70636:CDS
AATTTCTAGGTACTTTGCTG+TGG 0.563058 3.1:-63809386 MS.gene70636:intron
CCCATTCGAAACCAAGGGAA+AGG 0.571956 3.1:+63809823 None:intergenic
ATTGATATGAGTCGGGGTAG+CGG 0.581054 3.1:+63809293 None:intergenic
AATAAGGTTGATAATGTGGA+TGG 0.581138 3.1:-63810497 MS.gene70636:CDS
AAAGTGAAAATACCATAGCA+TGG 0.583624 3.1:+63809349 None:intergenic
AAGTATCCCATTCGAAACCA+AGG 0.584984 3.1:+63809817 None:intergenic
AACCCCAAGTTCCAGCATGT+TGG 0.588542 3.1:+63810372 None:intergenic
CAACAACATAAGAAATCAAG+TGG 0.591255 3.1:-63810524 MS.gene70636:CDS
GCGAACATTAACTTCTTCGG+AGG 0.611051 3.1:+63810394 None:intergenic
AGTATCCCATTCGAAACCAA+GGG 0.618643 3.1:+63809818 None:intergenic
GTGGATGGAGATGCAGAGCA+AGG 0.625282 3.1:-63810482 MS.gene70636:CDS
GAGTAAAGTTCATACCATAG+TGG 0.631828 3.1:+63809592 None:intergenic
TTGTTGGTAACATCCATGCA+TGG 0.678567 3.1:+63810541 None:intergenic
TAACACATTGATATGAGTCG+GGG 0.681170 3.1:+63809287 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATACTATAATCAATATAAG+TGG + chr3.1:63809808-63809827 None:intergenic 15.0%
!! ACAAAAACTAAAAAAAACAA+AGG + chr3.1:63810100-63810119 None:intergenic 15.0%
!! TATCTTTCAAATAATATTCC+AGG - chr3.1:63809473-63809492 MS.gene70636:intron 20.0%
!! TGTATATACTTAAGTTCATT+TGG - chr3.1:63810385-63810404 MS.gene70636:CDS 20.0%
!!! AATGGAAGTTTAGAATTAAA+TGG + chr3.1:63809929-63809948 None:intergenic 20.0%
!!! TTGATTATAGTATTCTTTTG+TGG - chr3.1:63809814-63809833 MS.gene70636:CDS 20.0%
! AAATAAGAGACTTCAAAACT+TGG - chr3.1:63809774-63809793 MS.gene70636:CDS 25.0%
! GTTTAGATTGTAATCTTTGA+TGG + chr3.1:63809701-63809720 None:intergenic 25.0%
! TCAGTAATGTATGAAAATTG+AGG + chr3.1:63809507-63809526 None:intergenic 25.0%
! TCTATGAACTCATTCATTTA+GGG - chr3.1:63809734-63809753 MS.gene70636:intron 25.0%
! TGAAGTAATAAACTACTGTT+AGG - chr3.1:63810342-63810361 MS.gene70636:intron 25.0%
! TTCTATGAACTCATTCATTT+AGG - chr3.1:63809733-63809752 MS.gene70636:intron 25.0%
!! TAATCTTTGATGGTTAGAAA+TGG + chr3.1:63809691-63809710 None:intergenic 25.0%
!! TACTGATTAAACTTCAATGA+TGG - chr3.1:63809521-63809540 MS.gene70636:intron 25.0%
!! TTTTCTTGTCTTGAAAAAAC+AGG - chr3.1:63810167-63810186 MS.gene70636:CDS 25.0%
!!! TGATAATAAGGTTGATAATG+TGG - chr3.1:63809320-63809339 MS.gene70636:CDS 25.0%
AAAGTGAAAATACCATAGCA+TGG + chr3.1:63810475-63810494 None:intergenic 30.0%
AATAAACTACTGTTAGGACT+TGG - chr3.1:63810348-63810367 MS.gene70636:intron 30.0%
AGAACTAAAGAATGGAAATG+AGG + chr3.1:63810296-63810315 None:intergenic 30.0%
ATAAACTACTGTTAGGACTT+GGG - chr3.1:63810349-63810368 MS.gene70636:CDS 30.0%
ATCAGACCAAGAGAAAAATT+TGG - chr3.1:63809401-63809420 MS.gene70636:intron 30.0%
CAACAACATAAGAAATCAAG+TGG - chr3.1:63809297-63809316 MS.gene70636:CDS 30.0%
CACTTGATTTCTTATGTTGT+TGG + chr3.1:63809299-63809318 None:intergenic 30.0%
CTATGAACTCATTCATTTAG+GGG - chr3.1:63809735-63809754 MS.gene70636:intron 30.0%
GAAATCAAGTGGTGATAATA+AGG - chr3.1:63809308-63809327 MS.gene70636:CDS 30.0%
TATGAACTCATTCATTTAGG+GGG - chr3.1:63809736-63809755 MS.gene70636:intron 30.0%
TCAGACCAAGAGAAAAATTT+GGG - chr3.1:63809402-63809421 MS.gene70636:intron 30.0%
TCTAACACATTGATATGAGT+CGG + chr3.1:63810539-63810558 None:intergenic 30.0%
TTCCATATAAGCACAAACAA+TGG + chr3.1:63809947-63809966 None:intergenic 30.0%
TTCCATTGTTTGTGCTTATA+TGG - chr3.1:63809942-63809961 MS.gene70636:CDS 30.0%
! ATGCTATGGTATTTTCACTT+TGG - chr3.1:63810474-63810493 MS.gene70636:CDS 30.0%
! ATGGCTTGTGATTAATTTCT+AGG - chr3.1:63810422-63810441 MS.gene70636:CDS 30.0%
! TCACATATGTGATTTTCCAA+TGG - chr3.1:63810041-63810060 MS.gene70636:intron 30.0%
! TGCTATGGTATTTTCACTTT+GGG - chr3.1:63810475-63810494 MS.gene70636:CDS 30.0%
!! AAAGCTCTAGAACTAAAGAA+TGG + chr3.1:63810304-63810323 None:intergenic 30.0%
!! AATAAGGTTGATAATGTGGA+TGG - chr3.1:63809324-63809343 MS.gene70636:CDS 30.0%
!!! ATCAATGCTATTTTCCTCAT+AGG - chr3.1:63809861-63809880 MS.gene70636:intron 30.0%
AAAATTGAGGAAACTGTACC+TGG + chr3.1:63809494-63809513 None:intergenic 35.0%
AATCACAAGCCATAGAAAAC+AGG + chr3.1:63810415-63810434 None:intergenic 35.0%
ATCACAAGCCATAGAAAACA+GGG + chr3.1:63810414-63810433 None:intergenic 35.0%
CTAACACATTGATATGAGTC+GGG + chr3.1:63810538-63810557 None:intergenic 35.0%
CTCATCATCTTCTGCAAAAT+TGG - chr3.1:63810256-63810275 MS.gene70636:intron 35.0%
CTGATGCATTAGAACTTTGT+GGG + chr3.1:63809386-63809405 None:intergenic 35.0%
GACAAGTCAAGAAATGGATA+AGG + chr3.1:63810196-63810215 None:intergenic 35.0%
GAGTAAAGTTCATACCATAG+TGG + chr3.1:63810232-63810251 None:intergenic 35.0%
TAACACATTGATATGAGTCG+GGG + chr3.1:63810537-63810556 None:intergenic 35.0%
TACTCGTGAAAGATAAATGC+AGG - chr3.1:63809622-63809641 MS.gene70636:CDS 35.0%
TCTGATGCATTAGAACTTTG+TGG + chr3.1:63809387-63809406 None:intergenic 35.0%
TCTTGTCTTGAAAAAACAGG+TGG - chr3.1:63810170-63810189 MS.gene70636:CDS 35.0%
TTAAAGCTGTATCACCTATG+AGG + chr3.1:63809878-63809897 None:intergenic 35.0%
TTACTGCATATTCCATGCTA+TGG - chr3.1:63810460-63810479 MS.gene70636:CDS 35.0%
TTCATGCTTGCATTAATCTC+TGG - chr3.1:63810068-63810087 MS.gene70636:intron 35.0%
TTGGCGAACATTAACTTCTT+CGG + chr3.1:63809433-63809452 None:intergenic 35.0%
TTTGCAGAAGATGATGAGAA+TGG + chr3.1:63810254-63810273 None:intergenic 35.0%
! AATTTCTAGGTACTTTGCTG+TGG - chr3.1:63810435-63810454 MS.gene70636:CDS 35.0%
! GAATGGGATACTTTTGCTTA+TGG - chr3.1:63810014-63810033 MS.gene70636:intron 35.0%
! TAGTATTCTTTTGTGGCAGT+TGG - chr3.1:63809821-63809840 MS.gene70636:CDS 35.0%
!! TGATACAGCTTTAAATTGCC+TGG - chr3.1:63809884-63809903 MS.gene70636:intron 35.0%
!! TGCTCACTGATTGTGTATTT+TGG - chr3.1:63809653-63809672 MS.gene70636:intron 35.0%
AAGTATCCCATTCGAAACCA+AGG + chr3.1:63810007-63810026 None:intergenic 40.0%
AGTATCCCATTCGAAACCAA+GGG + chr3.1:63810006-63810025 None:intergenic 40.0%
ATTCAATGCAAGAACTCACC+AGG + chr3.1:63809905-63809924 None:intergenic 40.0%
GAGGATGACAAGTCAAGAAA+TGG + chr3.1:63810202-63810221 None:intergenic 40.0%
TCATTTAGGGGGTTTCTCTT+AGG - chr3.1:63809747-63809766 MS.gene70636:intron 40.0%
TGCAAGCATGAACAATCCAT+TGG + chr3.1:63810060-63810079 None:intergenic 40.0%
! AGGCTCCCAAATTTTTCTCT+TGG + chr3.1:63809410-63809429 None:intergenic 40.0%
! ATACCATAGTGGAGCATATG+AGG + chr3.1:63810221-63810240 None:intergenic 40.0%
!! TTTGGTGACCCTGTTTTCTA+TGG - chr3.1:63810403-63810422 MS.gene70636:CDS 40.0%
ATTGATATGAGTCGGGGTAG+CGG + chr3.1:63810531-63810550 None:intergenic 45.0%
CATCCTCATATGCTCCACTA+TGG - chr3.1:63810215-63810234 MS.gene70636:intron 45.0%
CCTTTCCCTTGGTTTCGAAT+GGG - chr3.1:63809998-63810017 MS.gene70636:intron 45.0%
GAAAGGCTGAAGAGAGCAAA+AGG + chr3.1:63809984-63810003 None:intergenic 45.0%
GCGAACATTAACTTCTTCGG+AGG + chr3.1:63809430-63809449 None:intergenic 45.0%
GTTAATGTTCGCCAACATGC+TGG - chr3.1:63809438-63809457 MS.gene70636:intron 45.0%
AACCCCAAGTTCCAGCATGT+TGG + chr3.1:63809452-63809471 None:intergenic 50.0%
AGGCTGAAGAGAGCAAAAGG+AGG + chr3.1:63809981-63810000 None:intergenic 50.0%
CCCATTCGAAACCAAGGGAA+AGG + chr3.1:63810001-63810020 None:intergenic 50.0%
GCCTTTCCCTTGGTTTCGAA+TGG - chr3.1:63809997-63810016 MS.gene70636:intron 50.0%
TCGCCAACATGCTGGAACTT+GGG - chr3.1:63809446-63809465 MS.gene70636:intron 50.0%
TTCGCCAACATGCTGGAACT+TGG - chr3.1:63809445-63809464 MS.gene70636:intron 50.0%
TTGATATGAGTCGGGGTAGC+GGG + chr3.1:63810530-63810549 None:intergenic 50.0%
CGCCAACATGCTGGAACTTG+GGG - chr3.1:63809447-63809466 MS.gene70636:intron 55.0%
GCTCTCTTCAGCCTTTCCCT+TGG - chr3.1:63809987-63810006 MS.gene70636:intron 55.0%
GTGGATGGAGATGCAGAGCA+AGG - chr3.1:63809339-63809358 MS.gene70636:CDS 55.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 63809282 63810561 63809282 ID=MS.gene70636
chr3.1 mRNA 63809282 63810561 63809282 ID=MS.gene70636.t1;Parent=MS.gene70636
chr3.1 exon 63810349 63810561 63810349 ID=MS.gene70636.t1.exon1;Parent=MS.gene70636.t1
chr3.1 CDS 63810349 63810561 63810349 ID=cds.MS.gene70636.t1;Parent=MS.gene70636.t1
chr3.1 exon 63810120 63810209 63810120 ID=MS.gene70636.t1.exon2;Parent=MS.gene70636.t1
chr3.1 CDS 63810120 63810209 63810120 ID=cds.MS.gene70636.t1;Parent=MS.gene70636.t1
chr3.1 exon 63809938 63810003 63809938 ID=MS.gene70636.t1.exon3;Parent=MS.gene70636.t1
chr3.1 CDS 63809938 63810003 63809938 ID=cds.MS.gene70636.t1;Parent=MS.gene70636.t1
chr3.1 exon 63809754 63809845 63809754 ID=MS.gene70636.t1.exon4;Parent=MS.gene70636.t1
chr3.1 CDS 63809754 63809845 63809754 ID=cds.MS.gene70636.t1;Parent=MS.gene70636.t1
chr3.1 exon 63809607 63809654 63809607 ID=MS.gene70636.t1.exon5;Parent=MS.gene70636.t1
chr3.1 CDS 63809607 63809654 63809607 ID=cds.MS.gene70636.t1;Parent=MS.gene70636.t1
chr3.1 exon 63809282 63809399 63809282 ID=MS.gene70636.t1.exon6;Parent=MS.gene70636.t1
chr3.1 CDS 63809282 63809399 63809282 ID=cds.MS.gene70636.t1;Parent=MS.gene70636.t1
Gene Sequence

>MS.gene70636

ATGCATGGATGTTACCAACAACATAAGAAATCAAGTGGTGATAATAAGGTTGATAATGTGGATGGAGATGCAGAGCAAGGAATATTTGATGTTCATATACTCCCACAAAGTTCTAATGCATCAGACCAAGAGAAAAATTTGGGAGCCTCCGAAGAAGTTAATGTTCGCCAACATGCTGGAACTTGGGGTTATATCTTTCAAATAATATTCCAGGTACAGTTTCCTCAATTTTCATACATTACTGATTAAACTTCAATGATGGTTGATCTTTTCATTTATTTTTTTTAATCTGCAAATGTTAGCTCAAACGAGTTGATTGTATAATTGACTTTAGTTTCTTTACTCGTGAAAGATAAATGCAGGTGCTGCATTGCTCACTGATTGTGTATTTTGGTTTGTATTTGTTCCATTTCTAACCATCAAAGATTACAATCTAAACTTTGTAAGTATCTTCTATGAACTCATTCATTTAGGGGGTTTCTCTTAGGAAGAAAATAAGAGACTTCAAAACTTGGAAATTAAACCACTTATATTGATTATAGTATTCTTTTGTGGCAGTTGGTAATCATTATGCACTCAATCAATGCTATTTTCCTCATAGGTGATACAGCTTTAAATTGCCTGGTGAGTTCTTGCATTGAATTCCATTTAATTCTAAACTTCCATTGTTTGTGCTTATATGGAAATCTTACTCTTCCTCCTTTTGCTCTCTTCAGCCTTTCCCTTGGTTTCGAATGGGATACTTTTGCTTATGGACAGTCACATATGTGATTTTCCAATGGATTGTTCATGCTTGCATTAATCTCTGGTATAAGCCTTTGTTTTTTTTAGTTTTTGTTCAACTACTTAGACAAAAACACATTATACATCATTGTCTAACATAAGTTTTCTTGTCTTGAAAAAACAGGTGGCCTTATCCATTTCTTGACTTGTCATCCTCATATGCTCCACTATGGTATGAACTTTACTCCATTCTCATCATCTTCTGCAAAATTGGTTACAAAAATCTTGCCTCATTTCCATTCTTTAGTTCTAGAGCTTTTATGATGCTTGATTTCTATGAAGTAATAAACTACTGTTAGGACTTGGGATATTTAGCTTTGTGTATATACTTAAGTTCATTTGGTGACCCTGTTTTCTATGGCTTGTGATTAATTTCTAGGTACTTTGCTGTGGCATTACTGCATATTCCATGCTATGGTATTTTCACTTTGGGAATGAAGCTGAAACATTATGTCTTGTCAACCCGCTACCCCGACTCATATCAATGTGTTAGATGA

Protein sequence

>MS.gene70636.t1

MHGCYQQHKKSSGDNKVDNVDGDAEQGIFDVHILPQSSNASDQEKNLGASEEVNVRQHAGTWGYIFQIIFQINAGAALLTDCVFWFVFVPFLTIKDYNLNFLVIIMHSINAIFLIGDTALNCLPFPWFRMGYFCLWTVTYVIFQWIVHACINLWWPYPFLDLSSSYAPLWYFAVALLHIPCYGIFTLGMKLKHYVLSTRYPDSYQCVR