AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene99825


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene99825.t1 MTR_4g121560 87.640 89 10 1 50 137 226 314 2.29e-51 169
MS.gene99825.t1 MTR_1g013640 96.296 54 2 0 3 56 61 114 7.87e-32 110
MS.gene99825.t1 MTR_5g059400 46.154 91 48 1 46 136 283 372 6.22e-26 101
MS.gene99825.t1 MTR_1g116130 46.154 91 48 1 46 136 283 372 6.22e-26 101
MS.gene99825.t1 MTR_7g093450 53.086 81 37 1 56 136 366 445 2.42e-25 100
MS.gene99825.t1 MTR_0136s0010 48.039 102 50 3 35 136 269 367 4.49e-25 99.4
MS.gene99825.t1 MTR_5g033800 53.659 82 36 1 56 137 263 342 9.02e-25 97.4
MS.gene99825.t1 MTR_5g033800 53.659 82 36 1 56 137 263 342 2.08e-24 97.4
MS.gene99825.t1 MTR_8g069790 53.659 82 36 1 56 137 296 375 5.31e-24 96.3
MS.gene99825.t1 MTR_7g029590 87.805 41 5 0 92 132 1 41 5.05e-19 80.1
MS.gene99825.t1 MTR_4g126950 39.024 82 49 1 56 137 227 307 8.79e-16 72.8
MS.gene99825.t1 MTR_7g109550 43.750 80 43 1 57 136 256 333 1.27e-15 72.4
MS.gene99825.t1 MTR_2g022560 35.484 93 59 1 40 132 200 291 4.61e-14 68.2
MS.gene99825.t1 MTR_7g094750 35.106 94 58 2 40 132 194 285 2.96e-13 65.9
MS.gene99825.t1 MTR_7g094750 35.106 94 58 2 40 132 194 285 3.82e-13 65.1
MS.gene99825.t1 MTR_2g022580 32.530 83 55 1 40 122 45 126 5.44e-11 56.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene99825.t1 AT5G49340 55.435 92 38 3 48 137 210 300 8.13e-26 101
MS.gene99825.t1 AT3G12060 48.780 82 41 1 56 137 314 394 1.10e-24 98.6
MS.gene99825.t1 AT5G06700 50.617 81 39 1 56 136 373 452 1.99e-24 97.8
MS.gene99825.t1 AT1G60790 51.685 89 41 2 50 137 303 390 3.03e-23 94.4
MS.gene99825.t1 AT5G20590 40.244 82 48 1 56 137 260 340 4.19e-17 76.6
MS.gene99825.t1 AT5G20590 40.244 82 48 1 56 137 260 340 4.84e-17 76.6
MS.gene99825.t1 AT5G19160 34.513 113 68 3 26 137 191 298 1.44e-16 74.7
MS.gene99825.t1 AT5G19160 34.513 113 68 3 26 137 191 298 1.69e-16 75.1
MS.gene99825.t1 AT3G62390 38.272 81 48 1 57 137 257 335 7.51e-16 73.2
MS.gene99825.t1 AT3G62390 38.272 81 48 1 57 137 257 335 9.10e-16 72.8
MS.gene99825.t1 AT3G06080 33.333 108 66 3 26 132 195 297 3.86e-14 68.2
MS.gene99825.t1 AT3G06080 33.333 108 66 3 26 132 195 297 5.29e-14 67.8
MS.gene99825.t1 AT5G58600 31.304 115 64 3 24 137 153 253 9.11e-14 66.6
MS.gene99825.t1 AT5G58600 31.304 115 64 3 24 137 153 253 1.20e-13 67.0
MS.gene99825.t1 AT2G24970 55.556 54 24 0 3 56 62 115 6.14e-13 62.4

Find 23 sgRNAs with CRISPR-Local

Find 79 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTGATGTTAATTAGGATTA+TGG 0.236100 8.3:-24285934 MS.gene99825:intron
TTCCATTCTTGTACAAGAAA+TGG 0.283805 8.3:+24285886 None:intergenic
GTGCAGGATTTGATTGATAA+AGG 0.344148 8.3:-24286748 MS.gene99825:intron
CACTGCCCCTTCAGATTCAT+AGG 0.352061 8.3:+24287009 None:intergenic
TCCATTCTTGTACAAGAAAT+GGG 0.352802 8.3:+24285887 None:intergenic
TGGGGATTTCACAATGTCTA+TGG 0.361987 8.3:+24285906 None:intergenic
CCCCATTTCTTGTACAAGAA+TGG 0.370184 8.3:-24285888 MS.gene99825:CDS
TTCCTCAAAGAGAAACTCTT+AGG 0.383679 8.3:-24285843 MS.gene99825:CDS
AGCCTAAGAGTTTCTCTTTG+AGG 0.395436 8.3:+24285841 None:intergenic
TCATCATCTTCACTAGTAAA+GGG 0.406935 8.3:+24286664 None:intergenic
CGCATTCACTAACTTCAAAC+AGG 0.413377 8.3:-24286641 MS.gene99825:intron
GTCATCATCTTCACTAGTAA+AGG 0.461764 8.3:+24286663 None:intergenic
TGAGCTTCTTGCTGCTAAGC+AGG 0.485620 8.3:-24286983 MS.gene99825:intron
TAGAAATTTAGTGCAGCGTA+TGG 0.518555 8.3:-24286704 MS.gene99825:CDS
GGCAAACCCTATGAATCTGA+AGG 0.520434 8.3:-24287016 None:intergenic
AGTAGAAACTACTTTCAGAA+AGG 0.554989 8.3:-24285638 MS.gene99825:CDS
CCATTCTTGTACAAGAAATG+GGG 0.584992 8.3:+24285888 None:intergenic
AGCATCATAATATTGAGACT+TGG 0.603108 8.3:+24285801 None:intergenic
CAGCGTATGGAATCATCTGT+GGG 0.612923 8.3:-24286691 MS.gene99825:CDS
GCAAACCCTATGAATCTGAA+GGG 0.614234 8.3:-24287015 None:intergenic
GCAGCGTATGGAATCATCTG+TGG 0.620380 8.3:-24286692 MS.gene99825:CDS
CATCATCTTCACTAGTAAAG+GGG 0.629037 8.3:+24286665 None:intergenic
CAAACCCTATGAATCTGAAG+GGG 0.696980 8.3:-24287014 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTATTAATAAGTAGTTCAA+AGG - chr8.3:24286931-24286950 MS.gene99825:intron 15.0%
!! AATCATGAAAAGACAAAAAA+TGG - chr8.3:24286874-24286893 MS.gene99825:intron 20.0%
!! ATACATATGTTAGTTGAATT+GGG - chr8.3:24285807-24285826 MS.gene99825:CDS 20.0%
!! ATCATGAAAAGACAAAAAAT+GGG - chr8.3:24286875-24286894 MS.gene99825:intron 20.0%
!! TATACATATGTTAGTTGAAT+TGG - chr8.3:24285806-24285825 MS.gene99825:CDS 20.0%
!!! AATTCTAGAAATGATATACA+AGG + chr8.3:24286501-24286520 None:intergenic 20.0%
!!! ATTCTAGAAATGATATACAA+GGG + chr8.3:24286500-24286519 None:intergenic 20.0%
! AAACTACTATACTAACTTAC+AGG + chr8.3:24286546-24286565 None:intergenic 25.0%
! AAGAACACACATTCAAATAT+AGG + chr8.3:24286056-24286075 None:intergenic 25.0%
! ATAGTAGTTTGACTGTAATT+TGG - chr8.3:24286556-24286575 MS.gene99825:intron 25.0%
! TAATATAACAGTGACAATGT+CGG - chr8.3:24285729-24285748 MS.gene99825:intron 25.0%
! TACACTACTAGATTAAAGTT+AGG - chr8.3:24286416-24286435 MS.gene99825:intron 25.0%
! TATGTAGAATTGGATTTGAA+TGG - chr8.3:24285705-24285724 MS.gene99825:intron 25.0%
! TGTGATGTTAATTAGGATTA+TGG - chr8.3:24286685-24286704 MS.gene99825:CDS 25.0%
! TTACATGAACAAAATCAAAG+AGG + chr8.3:24286157-24286176 None:intergenic 25.0%
! TTGTCAAATAGCAGTTATAT+CGG - chr8.3:24286284-24286303 MS.gene99825:intron 25.0%
!! GATATAATCATTTTCAACAC+AGG - chr8.3:24286841-24286860 MS.gene99825:intron 25.0%
!! TGTTATACTTCAATGCATTT+TGG - chr8.3:24285673-24285692 MS.gene99825:intron 25.0%
!!! CTTTGATTTTCCTTTTTTGT+GGG - chr8.3:24286073-24286092 MS.gene99825:intron 25.0%
!!! TCTTTGATTTTCCTTTTTTG+TGG - chr8.3:24286072-24286091 MS.gene99825:intron 25.0%
!!! TGCTAGTAGATTTTAACAAA+CGG - chr8.3:24286360-24286379 MS.gene99825:intron 25.0%
AATATAACAGTGACAATGTC+GGG - chr8.3:24285730-24285749 MS.gene99825:intron 30.0%
AGATGCATTAGTTAGTCATA+AGG - chr8.3:24286192-24286211 MS.gene99825:intron 30.0%
AGCATCATAATATTGAGACT+TGG + chr8.3:24286821-24286840 None:intergenic 30.0%
AGTAGAAACTACTTTCAGAA+AGG - chr8.3:24286981-24287000 MS.gene99825:intron 30.0%
GAAATGATATACAAGGGAAA+AGG + chr8.3:24286494-24286513 None:intergenic 30.0%
GATGTGTTGTGATGTTAATT+AGG - chr8.3:24286678-24286697 MS.gene99825:CDS 30.0%
TAGTTTGACTGTAATTTGGT+GGG - chr8.3:24286560-24286579 MS.gene99825:intron 30.0%
TCATCATCTTCACTAGTAAA+GGG + chr8.3:24285958-24285977 None:intergenic 30.0%
TCCATTCTTGTACAAGAAAT+GGG + chr8.3:24286735-24286754 None:intergenic 30.0%
TTCCATTCTTGTACAAGAAA+TGG + chr8.3:24286736-24286755 None:intergenic 30.0%
TTGAATTGGGAATAAGATCT+AGG - chr8.3:24285820-24285839 MS.gene99825:CDS 30.0%
! TATACTTCAATGCATTTTGG+TGG - chr8.3:24285676-24285695 MS.gene99825:intron 30.0%
! TTTTGCTTGCATAAGGTTTA+AGG - chr8.3:24286638-24286657 MS.gene99825:intron 30.0%
!! ATACTTCAATGCATTTTGGT+GGG - chr8.3:24285677-24285696 MS.gene99825:intron 30.0%
AAATCACTATAGTGCTGTAG+TGG - chr8.3:24286332-24286351 MS.gene99825:intron 35.0%
ATATAACAGTGACAATGTCG+GGG - chr8.3:24285731-24285750 MS.gene99825:intron 35.0%
CATCATCTTCACTAGTAAAG+GGG + chr8.3:24285957-24285976 None:intergenic 35.0%
CCATTCTTGTACAAGAAATG+GGG + chr8.3:24286734-24286753 None:intergenic 35.0%
GTAGTTTGACTGTAATTTGG+TGG - chr8.3:24286559-24286578 MS.gene99825:intron 35.0%
GTCATCATCTTCACTAGTAA+AGG + chr8.3:24285959-24285978 None:intergenic 35.0%
GTGCAGGATTTGATTGATAA+AGG - chr8.3:24285871-24285890 MS.gene99825:CDS 35.0%
GTGGGTTCTTTATGTAGAAT+TGG - chr8.3:24285695-24285714 MS.gene99825:intron 35.0%
TAGAAATTTAGTGCAGCGTA+TGG - chr8.3:24285915-24285934 MS.gene99825:CDS 35.0%
TAGTTAGTCATAAGGTCTGT+AGG - chr8.3:24286200-24286219 MS.gene99825:intron 35.0%
TCAATTCCTTCAATGAAGAG+AGG - chr8.3:24286235-24286254 MS.gene99825:intron 35.0%
TGATATACAAGGGAAAAGGA+TGG + chr8.3:24286490-24286509 None:intergenic 35.0%
TTCCTCAAAGAGAAACTCTT+AGG - chr8.3:24286776-24286795 MS.gene99825:intron 35.0%
! ATAGAGCTTTTGCTTGCATA+AGG - chr8.3:24286631-24286650 MS.gene99825:intron 35.0%
! TCATTTTCAACACAGGATAC+TGG - chr8.3:24286848-24286867 MS.gene99825:intron 35.0%
! TGTACCAGTGTTGTTAATCA+CGG + chr8.3:24286400-24286419 None:intergenic 35.0%
!! TGATTTTCCTTTTTTGTGGG+TGG - chr8.3:24286076-24286095 MS.gene99825:intron 35.0%
ACAGGTTTGTGTTAGGATGT+TGG - chr8.3:24286583-24286602 MS.gene99825:intron 40.0%
AGCCTAAGAGTTTCTCTTTG+AGG + chr8.3:24286781-24286800 None:intergenic 40.0%
CCCCATTTCTTGTACAAGAA+TGG - chr8.3:24286731-24286750 MS.gene99825:CDS 40.0%
CGCATTCACTAACTTCAAAC+AGG - chr8.3:24285978-24285997 MS.gene99825:intron 40.0%
GGATGTTGGATGTGTTTGTT+TGG - chr8.3:24286597-24286616 MS.gene99825:intron 40.0%
TGAAATGCCACCCACAAAAA+AGG + chr8.3:24286086-24286105 None:intergenic 40.0%
TGGGGATTTCACAATGTCTA+TGG + chr8.3:24286716-24286735 None:intergenic 40.0%
! GTTTGCTTGTTGAATTGTGC+AGG - chr8.3:24285855-24285874 MS.gene99825:CDS 40.0%
! TTTTCAACACAGGATACTGG+TGG - chr8.3:24286851-24286870 MS.gene99825:intron 40.0%
AATGTCGGGGACTAATTTGG+TGG - chr8.3:24285744-24285763 MS.gene99825:intron 45.0%
AGGACATGACTAAGACAGCA+TGG + chr8.3:24286454-24286473 None:intergenic 45.0%
CACTCTCCTCTCTTCATTGA+AGG + chr8.3:24286244-24286263 None:intergenic 45.0%
CAGCGTATGGAATCATCTGT+GGG - chr8.3:24285928-24285947 MS.gene99825:intron 45.0%
CCATCCGTGATTAACAACAC+TGG - chr8.3:24286393-24286412 MS.gene99825:intron 45.0%
CTTCAATGAAGAGAGGAGAG+TGG - chr8.3:24286242-24286261 MS.gene99825:intron 45.0%
GACAATGTCGGGGACTAATT+TGG - chr8.3:24285741-24285760 MS.gene99825:intron 45.0%
GTCTTAGTCATGTCCTTGCA+TGG - chr8.3:24286458-24286477 MS.gene99825:intron 45.0%
! CCAGTGTTGTTAATCACGGA+TGG + chr8.3:24286396-24286415 None:intergenic 45.0%
! TGACTGTAATTTGGTGGGAC+AGG - chr8.3:24286565-24286584 MS.gene99825:intron 45.0%
!! AAGGTCTGTAGGAGTGCTTA+GGG - chr8.3:24286211-24286230 MS.gene99825:intron 45.0%
!! TAAGGTCTGTAGGAGTGCTT+AGG - chr8.3:24286210-24286229 MS.gene99825:intron 45.0%
AGAGGAGAGTGGAGTTCAGA+TGG - chr8.3:24286253-24286272 MS.gene99825:intron 50.0%
AGGATGGAAGACACCATGCA+AGG + chr8.3:24286474-24286493 None:intergenic 50.0%
GCAGCGTATGGAATCATCTG+TGG - chr8.3:24285927-24285946 MS.gene99825:intron 50.0%
TGAGCTTCTTGCTGCTAAGC+AGG - chr8.3:24285636-24285655 MS.gene99825:CDS 50.0%
TGGTGGGACAGGTTTGTGTT+AGG - chr8.3:24286576-24286595 MS.gene99825:intron 50.0%
!! ATATCGGCTCTGCAGTGTTG+TGG - chr8.3:24286300-24286319 MS.gene99825:intron 50.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 24285613 24287028 24285613 ID=MS.gene99825
chr8.3 mRNA 24285613 24287028 24285613 ID=MS.gene99825.t1;Parent=MS.gene99825
chr8.3 exon 24286984 24287028 24286984 ID=MS.gene99825.t1.exon1;Parent=MS.gene99825.t1
chr8.3 CDS 24286984 24287028 24286984 ID=cds.MS.gene99825.t1;Parent=MS.gene99825.t1
chr8.3 exon 24286642 24286764 24286642 ID=MS.gene99825.t1.exon2;Parent=MS.gene99825.t1
chr8.3 CDS 24286642 24286764 24286642 ID=cds.MS.gene99825.t1;Parent=MS.gene99825.t1
chr8.3 exon 24285745 24285941 24285745 ID=MS.gene99825.t1.exon3;Parent=MS.gene99825.t1
chr8.3 CDS 24285745 24285941 24285745 ID=cds.MS.gene99825.t1;Parent=MS.gene99825.t1
chr8.3 exon 24285613 24285658 24285613 ID=MS.gene99825.t1.exon4;Parent=MS.gene99825.t1
chr8.3 CDS 24285613 24285658 24285613 ID=cds.MS.gene99825.t1;Parent=MS.gene99825.t1
Gene Sequence

>MS.gene99825

ATGAATCTGAAGGGGCAGTGTCATGAGCTTCTTGCTGCTAAGCAGGTGATTACTTGCTGTTGTTATACTTCAATGCATTTTGGTGGGTTCTTTATGTAGAATTGGATTTGAATGGCTAATATAACAGTGACAATGTCGGGGACTAATTTGGTGGTTTGCTCGTAGTTCATAGTCTGATTATTTTTTGTAATAATATACATATGTTAGTTGAATTGGGAATAAGATCTAGGTTTTGAAGTATTGTTTGCTTGTTGAATTGTGCAGGATTTGATTGATAAAGGTCAAACAGTTCTTGTTGAGAATAGAAATTTAGTGCAGCGTATGGAATCATCTGTGGGAATCCCCTTTACTAGTGAAGATGATGACGCATTCACTAACTTCAAACAGGTTGTTGTGTTTGTCTTTATTTTAATCTTTTTATACAGTTTGAATGATAATATCCTATATTTGAATGTGTGTTCTTTGATTTTCCTTTTTTGTGGGTGGCATTTCATAGTACTTTACTCATTCATGTATGCATAATGATTCATCTTCTTTTTCTCCTCTTTGATTTTGTTCATGTAATTTAATTTCTTAAGTAGATGCATTAGTTAGTCATAAGGTCTGTAGGAGTGCTTAGGGCTCAATTCCTTCAATGAAGAGAGGAGAGTGGAGTTCAGATGGACACAATTTTGTCAAATAGCAGTTATATCGGCTCTGCAGTGTTGTGGAATTTGAACAAATCACTATAGTGCTGTAGTGGCTGTTTGCTAGTAGATTTTAACAAACGGCTATTTTCTTCCATCCGTGATTAACAACACTGGTACACTACTAGATTAAAGTTAGGTAATAATGCTTACCATGCTGTCTTAGTCATGTCCTTGCATGGTGTCTTCCATCCTTTTCCCTTGTATATCATTTCTAGAATTCAGAAATGCAGAAAATAATTATCCTGTAAGTTAGTATAGTAGTTTGACTGTAATTTGGTGGGACAGGTTTGTGTTAGGATGTTGGATGTGTTTGTTTGGTTGTGAATTTTATAGAGCTTTTGCTTGCATAAGGTTTAAGGTTTGATATTGTGTTTTTGATGTGTTGTGATGTTAATTAGGATTATGGATGCTCCATAGACATTGTGAAATCCCCATTTCTTGTACAAGAATGGAAAGTGTCACGTAACGATGAAGTTCCTCAAAGAGAAACTCTTAGGCTTGATATGATTCAAGCTTCCAAGTCTCAATATTATGATGCTGATATAATCATTTTCAACACAGGATACTGGTGGAATCATGAAAAGACAAAAAATGGGTAAAAAACAATTCTGCTAAGACACTATTCTTTTATTATTAATAAGTAGTTCAAAGGCTAACTACTATCAATTTTCATTCTAGCAGTAGAAACTACTTTCAGAAAGGTAATCATGTCTATGACAGATTAGAA

Protein sequence

>MS.gene99825.t1

MNLKGQCHELLAAKQDLIDKGQTVLVENRNLVQRMESSVGIPFTSEDDDAFTNFKQDYGCSIDIVKSPFLVQEWKVSRNDEVPQRETLRLDMIQASKSQYYDADIIIFNTGYWWNHEKTKNGRNYFQKGNHVYDRLE