AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene014037


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene014037.t1 MTR_7g090410 95.434 219 9 1 1 218 1 219 1.65e-125 356
MS.gene014037.t1 MTR_1g048720 58.772 228 74 7 1 218 1 218 2.41e-75 228
MS.gene014037.t1 MTR_1g048720 58.772 228 74 7 1 218 1 218 3.64e-75 228
MS.gene014037.t1 MTR_1g048750 56.034 232 74 6 1 222 1 214 6.81e-73 223
MS.gene014037.t1 MTR_1g048720 58.333 228 74 8 1 218 1 217 9.09e-73 221
MS.gene014037.t1 MTR_1g048720 58.333 228 74 8 1 218 1 217 1.07e-72 222
MS.gene014037.t1 MTR_1g048710 57.456 228 68 7 1 218 1 209 1.50e-65 203
MS.gene014037.t1 MTR_0007s0330 34.211 152 91 4 66 215 6 150 1.07e-11 61.6
MS.gene014037.t1 MTR_0007s0330 32.121 165 103 4 66 228 18 175 1.27e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene014037.t1 AT3G56970 44.348 230 109 7 1 218 1 223 1.82e-50 165
MS.gene014037.t1 AT3G56980 43.644 236 107 7 1 218 1 228 7.48e-42 143
MS.gene014037.t1 AT2G41240 40.664 241 122 7 1 231 1 230 3.42e-41 141
MS.gene014037.t1 AT2G41240 40.249 241 122 8 1 231 1 229 1.14e-38 134
MS.gene014037.t1 AT5G04150 45.000 160 79 3 63 218 83 237 5.97e-36 127
MS.gene014037.t1 AT5G04150 45.000 160 79 3 63 218 83 237 1.62e-35 127

Find 42 sgRNAs with CRISPR-Local

Find 96 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCTTCTTGGCCATAAGTTT+AGG 0.279241 7.2:+18280279 None:intergenic
AGCATTGTGGTTAAGCTTCT+TGG 0.288890 7.2:+18280266 None:intergenic
GCTTCTTGGCCATAAGTTTA+GGG 0.303457 7.2:+18280280 None:intergenic
TCACTTCGTTCACTTCTTCC+CGG 0.311784 7.2:-18280201 MS.gene014037:CDS
TCTTCTTCTTCTAAAACCTT+TGG 0.334379 7.2:-18279048 MS.gene014037:CDS
TCAATCTCAACATGTTCCTT+TGG 0.352411 7.2:+18280315 None:intergenic
GCCACCATCCCCTAAACTTA+TGG 0.372270 7.2:-18280289 MS.gene014037:CDS
TTGATGTGTTTAGAAAATAA+TGG 0.374175 7.2:-18279087 MS.gene014037:CDS
AAGACACGTGAAATTGTTAC+CGG 0.393671 7.2:+18279339 None:intergenic
AAACATGGGATGGCTCTTAG+AGG 0.417919 7.2:-18280424 MS.gene014037:CDS
TATTACCGTTTGATCTTCAC+CGG 0.440214 7.2:+18280182 None:intergenic
GCACGGGTTAATTAGAAGCT+TGG 0.441997 7.2:-18278588 MS.gene014037:CDS
GGGATGGCTCTTAGAGGAGT+TGG 0.478368 7.2:-18280418 MS.gene014037:CDS
CTCAGATAGAGGAATCTTGT+AGG 0.481665 7.2:+18279113 None:intergenic
TCTTCTTCTAAAACCTTTGG+AGG 0.482465 7.2:-18279045 MS.gene014037:CDS
CACATCAAGATCTCAGATAG+AGG 0.501569 7.2:+18279102 None:intergenic
ATGTTTGAGTATGAGAACTT+AGG 0.501753 7.2:+18280441 None:intergenic
TTGGCCATAAGTTTAGGGGA+TGG 0.512241 7.2:+18280285 None:intergenic
AGGAACATGTTGAGATTGAA+AGG 0.537866 7.2:-18280311 MS.gene014037:CDS
GCCATAAGTTTAGGGGATGG+TGG 0.542896 7.2:+18280288 None:intergenic
CTTCTAAAACCTTTGGAGGG+AGG 0.546758 7.2:-18279041 MS.gene014037:CDS
TTTGAGTATGAGAACTTAGG+TGG 0.557960 7.2:+18280444 None:intergenic
ACGTGTCTTAAAGTACATAC+CGG 0.558220 7.2:-18279325 MS.gene014037:CDS
ACAAAAGCAGAATTGTAACT+TGG 0.558897 7.2:+18279195 None:intergenic
CTTCTTCTAAAACCTTTGGA+GGG 0.566421 7.2:-18279044 MS.gene014037:CDS
TCTTCCCGGTGAAGATCAAA+CGG 0.568161 7.2:-18280187 MS.gene014037:intron
ATAGAAGAGCCTCCCTCCAA+AGG 0.569392 7.2:+18279032 None:intergenic
GGTGAAGAGAATTGATGATA+CGG 0.572582 7.2:+18280336 None:intergenic
CTTCTTGGCCATAAGTTTAG+GGG 0.575873 7.2:+18280281 None:intergenic
AAGTTCTCATACTCAAACAT+GGG 0.594178 7.2:-18280438 MS.gene014037:CDS
TCTCATACTCAAACATGGGA+TGG 0.596383 7.2:-18280434 MS.gene014037:CDS
TTACCATAATAATATAGTGG+GGG 0.598517 7.2:+18278547 None:intergenic
TACCATAATAATATAGTGGG+GGG 0.599211 7.2:+18278548 None:intergenic
TAAGTTCTCATACTCAAACA+TGG 0.607041 7.2:-18280439 MS.gene014037:CDS
GATTTACAAAAGCAAGTGCA+AGG 0.608962 7.2:-18279303 MS.gene014037:CDS
TCATCAATTCTCTTCACCAA+AGG 0.612543 7.2:-18280331 MS.gene014037:CDS
GGTTAATTAGAAGCTTGGAA+AGG 0.644231 7.2:-18278583 MS.gene014037:CDS
TTGAGTATGAGAACTTAGGT+GGG 0.650167 7.2:+18280445 None:intergenic
CAGTTAACAAAGAATCGCAA+AGG 0.655004 7.2:-18279227 MS.gene014037:CDS
TTTACCATAATAATATAGTG+GGG 0.658365 7.2:+18278546 None:intergenic
ATTACCGTTTGATCTTCACC+GGG 0.685907 7.2:+18280183 None:intergenic
GATCACGTTCACTAGCATTG+TGG 0.694395 7.2:+18280253 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GATATATTAATTAAAAGTTT+AGG - chr7.2:18280355-18280374 MS.gene014037:CDS 10.0%
!!! AAGCTATTTTTTAAAATGAT+AGG - chr7.2:18278941-18278960 MS.gene014037:intron 15.0%
!!! AATTTATTTTGCAAACATTT+TGG + chr7.2:18279237-18279256 None:intergenic 15.0%
!!! ATAGCTAATTATTCTTTTAA+AGG - chr7.2:18279366-18279385 MS.gene014037:intron 15.0%
!!! TTAATTAAAAGTTTAGGATT+TGG - chr7.2:18280361-18280380 MS.gene014037:CDS 15.0%
!!! TTTTGGTTAGATTTTTATTT+TGG + chr7.2:18279220-18279239 None:intergenic 15.0%
!! AAGCAGAAAAATAATCATTT+GGG - chr7.2:18280302-18280321 MS.gene014037:CDS 20.0%
!! GATACCAATTTATAGAAAAT+TGG + chr7.2:18278866-18278885 None:intergenic 20.0%
!! TTGATGTGTTTAGAAAATAA+TGG - chr7.2:18279919-18279938 MS.gene014037:intron 20.0%
!!! AGTTTTAATCTGACTTTTAT+TGG - chr7.2:18279098-18279117 MS.gene014037:CDS 20.0%
!!! TAACCTACTTTAAGAAAAAA+GGG - chr7.2:18279411-18279430 MS.gene014037:intron 20.0%
!!! TAGTACATATTTTAATAGCA+CGG - chr7.2:18280401-18280420 MS.gene014037:CDS 20.0%
! CCAATTTATAGAAAATTGGA+AGG + chr7.2:18278862-18278881 None:intergenic 25.0%
! CCCTAATTGTTTACTATTAA+GGG - chr7.2:18280137-18280156 MS.gene014037:intron 25.0%
! CCCTTAATAGTAAACAATTA+GGG + chr7.2:18280140-18280159 None:intergenic 25.0%
! GAAGCAGAAAAATAATCATT+TGG - chr7.2:18280301-18280320 MS.gene014037:CDS 25.0%
! TATGTGCAAAAAATTAGAGA+TGG - chr7.2:18279318-18279337 MS.gene014037:CDS 25.0%
! TCCCTTAATAGTAAACAATT+AGG + chr7.2:18280141-18280160 None:intergenic 25.0%
! TGACGTATTCATAATATGAA+TGG - chr7.2:18279541-18279560 MS.gene014037:intron 25.0%
! TTACCATAATAATATAGTGG+GGG + chr7.2:18280462-18280481 None:intergenic 25.0%
!! CCTTCCAATTTTCTATAAAT+TGG - chr7.2:18278859-18278878 MS.gene014037:intron 25.0%
!! GTAACCTACTTTAAGAAAAA+AGG - chr7.2:18279410-18279429 MS.gene014037:intron 25.0%
!!! AGTACATATTTTAATAGCAC+GGG - chr7.2:18280402-18280421 MS.gene014037:CDS 25.0%
!!! ATTTATTTTGCAATGTTTGC+AGG - chr7.2:18280217-18280236 MS.gene014037:CDS 25.0%
!!! GTTCTCTTTTTGACTAATTA+AGG + chr7.2:18278623-18278642 None:intergenic 25.0%
!!! TTTAGCTTTATATAACTCCA+TGG - chr7.2:18278970-18278989 MS.gene014037:intron 25.0%
AAATAATCATTTGGGCACTA+TGG - chr7.2:18280310-18280329 MS.gene014037:CDS 30.0%
AAGTTCTCATACTCAAACAT+GGG - chr7.2:18278568-18278587 MS.gene014037:CDS 30.0%
ACAAAAGCAGAATTGTAACT+TGG + chr7.2:18279814-18279833 None:intergenic 30.0%
ATGATAGATGATTAATCCAG+AGG + chr7.2:18279153-18279172 None:intergenic 30.0%
ATGTTTGAGTATGAGAACTT+AGG + chr7.2:18278568-18278587 None:intergenic 30.0%
CTGGATTAATCATCTATCAT+TGG - chr7.2:18279153-18279172 MS.gene014037:CDS 30.0%
GCCCTAATTGTTTACTATTA+AGG - chr7.2:18280136-18280155 MS.gene014037:intron 30.0%
TAAGTTCTCATACTCAAACA+TGG - chr7.2:18278567-18278586 MS.gene014037:CDS 30.0%
! CTGTTTGTTTCGTAATGTTT+TGG - chr7.2:18279465-18279484 MS.gene014037:intron 30.0%
! TACCATAATAATATAGTGGG+GGG + chr7.2:18280461-18280480 None:intergenic 30.0%
!! CTTCTATAACTTGCATTTTC+AGG - chr7.2:18279990-18280009 MS.gene014037:intron 30.0%
!! TCTTCTTCTTCTAAAACCTT+TGG - chr7.2:18279958-18279977 MS.gene014037:intron 30.0%
!!! AATGTTTTGGAACTATGTCA+CGG - chr7.2:18279478-18279497 MS.gene014037:intron 30.0%
!!! ACACCCTTTTTTCTTAAAGT+AGG + chr7.2:18279417-18279436 None:intergenic 30.0%
!!! TTTTTTCTGCAACATCAACA+TGG + chr7.2:18279638-18279657 None:intergenic 30.0%
AAGACACGTGAAATTGTTAC+CGG + chr7.2:18279670-18279689 None:intergenic 35.0%
ACGTGTCTTAAAGTACATAC+CGG - chr7.2:18279681-18279700 MS.gene014037:intron 35.0%
AGGAACATGTTGAGATTGAA+AGG - chr7.2:18278695-18278714 MS.gene014037:intron 35.0%
CAGTTAACAAAGAATCGCAA+AGG - chr7.2:18279779-18279798 MS.gene014037:intron 35.0%
CTAGAGATAAGCATACTCAT+AGG + chr7.2:18279021-18279040 None:intergenic 35.0%
CTATGAGTATGCTTATCTCT+AGG - chr7.2:18279019-18279038 MS.gene014037:CDS 35.0%
GATTTACAAAAGCAAGTGCA+AGG - chr7.2:18279703-18279722 MS.gene014037:intron 35.0%
GCAGAAAAAAATGAGCATTC+CGG - chr7.2:18279648-18279667 MS.gene014037:intron 35.0%
GCTTTATATAACTCCATGGT+TGG - chr7.2:18278974-18278993 MS.gene014037:intron 35.0%
GGTTAATTAGAAGCTTGGAA+AGG - chr7.2:18280423-18280442 MS.gene014037:CDS 35.0%
TATTACCGTTTGATCTTCAC+CGG + chr7.2:18278827-18278846 None:intergenic 35.0%
TCAATCTCAACATGTTCCTT+TGG + chr7.2:18278694-18278713 None:intergenic 35.0%
TCATCAATTCTCTTCACCAA+AGG - chr7.2:18278675-18278694 MS.gene014037:intron 35.0%
TTGAGTATGAGAACTTAGGT+GGG + chr7.2:18278564-18278583 None:intergenic 35.0%
TTTGAGTATGAGAACTTAGG+TGG + chr7.2:18278565-18278584 None:intergenic 35.0%
! CTTTTGTAGTTTCGACAAGT+AGG - chr7.2:18279827-18279846 MS.gene014037:intron 35.0%
! GGTGAAGAGAATTGATGATA+CGG + chr7.2:18278673-18278692 None:intergenic 35.0%
! TATTTTGCAATGTTTGCAGG+TGG - chr7.2:18280220-18280239 MS.gene014037:CDS 35.0%
!! CTTCTTCTAAAACCTTTGGA+GGG - chr7.2:18279962-18279981 MS.gene014037:intron 35.0%
!! TCTTCTTCTAAAACCTTTGG+AGG - chr7.2:18279961-18279980 MS.gene014037:intron 35.0%
!! TGCACTTGCTTTTGTAAATC+CGG + chr7.2:18279703-18279722 None:intergenic 35.0%
AGCATTGTGGTTAAGCTTCT+TGG + chr7.2:18278743-18278762 None:intergenic 40.0%
AGCTTCTTGGCCATAAGTTT+AGG + chr7.2:18278730-18278749 None:intergenic 40.0%
ATTACCGTTTGATCTTCACC+GGG + chr7.2:18278826-18278845 None:intergenic 40.0%
ATTGGACCAGAGACTATTCT+TGG - chr7.2:18279171-18279190 MS.gene014037:CDS 40.0%
CACATCAAGATCTCAGATAG+AGG + chr7.2:18279907-18279926 None:intergenic 40.0%
CTCAGATAGAGGAATCTTGT+AGG + chr7.2:18279896-18279915 None:intergenic 40.0%
CTTCTTGGCCATAAGTTTAG+GGG + chr7.2:18278728-18278747 None:intergenic 40.0%
GCTTCTTGGCCATAAGTTTA+GGG + chr7.2:18278729-18278748 None:intergenic 40.0%
GTTGATCCAAGAATAGTCTC+TGG + chr7.2:18279180-18279199 None:intergenic 40.0%
TCTCATACTCAAACATGGGA+TGG - chr7.2:18278572-18278591 MS.gene014037:CDS 40.0%
TGCCCCCCACTATATTATTA+TGG - chr7.2:18280456-18280475 MS.gene014037:CDS 40.0%
TTTCATCATCAGACCAACCA+TGG + chr7.2:18278990-18279009 None:intergenic 40.0%
AAACATGGGATGGCTCTTAG+AGG - chr7.2:18278582-18278601 MS.gene014037:CDS 45.0%
GATCACGTTCACTAGCATTG+TGG + chr7.2:18278756-18278775 None:intergenic 45.0%
GTGCTCACGATTTCTGTGTT+TGG - chr7.2:18279063-18279082 MS.gene014037:CDS 45.0%
TCACTTCGTTCACTTCTTCC+CGG - chr7.2:18278805-18278824 MS.gene014037:intron 45.0%
TCTTCCCGGTGAAGATCAAA+CGG - chr7.2:18278819-18278838 MS.gene014037:intron 45.0%
TTGGCCATAAGTTTAGGGGA+TGG + chr7.2:18278724-18278743 None:intergenic 45.0%
! GCACGGGTTAATTAGAAGCT+TGG - chr7.2:18280418-18280437 MS.gene014037:CDS 45.0%
!! CTTCTAAAACCTTTGGAGGG+AGG - chr7.2:18279965-18279984 MS.gene014037:intron 45.0%
ATAGAAGAGCCTCCCTCCAA+AGG + chr7.2:18279977-18279996 None:intergenic 50.0%
GCCACCATCCCCTAAACTTA+TGG - chr7.2:18278717-18278736 MS.gene014037:intron 50.0%
GCCATAAGTTTAGGGGATGG+TGG + chr7.2:18278721-18278740 None:intergenic 50.0%
GGGATGGCTCTTAGAGGAGT+TGG - chr7.2:18278588-18278607 MS.gene014037:CDS 55.0%
TTTATTGGACCCCGCTCGAG+TGG - chr7.2:18279113-18279132 MS.gene014037:CDS 55.0%
AACCCCACCATCCACTCGAG+CGG + chr7.2:18279127-18279146 None:intergenic 60.0%
ACCCCACCATCCACTCGAGC+GGG + chr7.2:18279126-18279145 None:intergenic 65.0%
ACCCCGCTCGAGTGGATGGT+GGG - chr7.2:18279121-18279140 MS.gene014037:CDS 65.0%
TTGGACCCCGCTCGAGTGGA+TGG - chr7.2:18279117-18279136 MS.gene014037:CDS 65.0%
!! GCTCGAGTGGATGGTGGGGT+TGG - chr7.2:18279126-18279145 MS.gene014037:CDS 65.0%
!! GGATGGTGGGGTTGGTCCTC+TGG - chr7.2:18279134-18279153 MS.gene014037:CDS 65.0%
CCCCACCATCCACTCGAGCG+GGG + chr7.2:18279125-18279144 None:intergenic 70.0%
CCCCGCTCGAGTGGATGGTG+GGG - chr7.2:18279122-18279141 MS.gene014037:CDS 70.0%
GACCCCGCTCGAGTGGATGG+TGG - chr7.2:18279120-18279139 MS.gene014037:CDS 70.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 18278547 18280481 18278547 ID=MS.gene014037
chr7.2 mRNA 18278547 18280481 18278547 ID=MS.gene014037.t1;Parent=MS.gene014037
chr7.2 exon 18280188 18280481 18280188 ID=MS.gene014037.t1.exon1;Parent=MS.gene014037.t1
chr7.2 CDS 18280188 18280481 18280188 ID=cds.MS.gene014037.t1;Parent=MS.gene014037.t1
chr7.2 exon 18279017 18279376 18279017 ID=MS.gene014037.t1.exon2;Parent=MS.gene014037.t1
chr7.2 CDS 18279017 18279376 18279017 ID=cds.MS.gene014037.t1;Parent=MS.gene014037.t1
chr7.2 exon 18278547 18278609 18278547 ID=MS.gene014037.t1.exon3;Parent=MS.gene014037.t1
chr7.2 CDS 18278547 18278609 18278547 ID=cds.MS.gene014037.t1;Parent=MS.gene014037.t1
Gene Sequence

>MS.gene014037

ATGGTTGCATTCTGCCCACCTAAGTTCTCATACTCAAACATGGGATGGCTCTTAGAGGAGTTGGAGCAAGAGTCCTTAATTAGTCAAAAAGAGAACAACTATGCATCTTTAGAGTACTCGTTACCGTATCATCAATTCTCTTCACCAAAGGAACATGTTGAGATTGAAAGGCCACCATCCCCTAAACTTATGGCCAAGAAGCTTAACCACAATGCTAGTGAACGTGATCGTCGCAAGAAGATTAATAGCTTGATTTCTTCACTTCGTTCACTTCTTCCCGGTGAAGATCAAACGGTAATAATTCATCTCTCTCCTTCCAATTTTCTATAAATTGGTATCTAATTAACAACTTAACTAATGTAAAAAACAATTTCAAGAACTTGTGACAAAAGATAAGCTATTTTTTAAAATGATAGGTTTATATTTAGCTTTATATAACTCCATGGTTGGTCTGATGATGAAAGTTTGAGACCTATGAGTATGCTTATCTCTAGGTTTCATTTTCGATTCTCTTAAGTGCTCACGATTTCTGTGTTTGGTTACTCTATAAGAGTTTTAATCTGACTTTTATTGGACCCCGCTCGAGTGGATGGTGGGGTTGGTCCTCTGGATTAATCATCTATCATTGGACCAGAGACTATTCTTGGATCAACATTCTGACTAATTTTGTCCAAAATAAAAATCTAACCAAAATGTTTGCAAAATAAATTTAAACAACAAATGTTTAGTATTGTTTGCAAAGATATTAAATTATGAAATTTGTCTATAATTTATGTGCAAAAAATTAGAGATGGATTTATTTTTCAAATTCTCATTTTGATAGCTAATTATTCTTTTAAAGGAATTATTCTCTTTTTTTAGCTGTAACCTACTTTAAGAAAAAAGGGTGTGTTAGTTCTTCTATAACTGTTGTTTTTACTGTTTGTTTCGTAATGTTTTGGAACTATGTCACGGTATAAATTGAAAATGACATTTTCTTTTATTGAAATGAAAGTGACGTATTCATAATATGAATGGAATCATATCAATATAAAAACGAAAAAATGAAACTTTGCACATAAAATATTGTCATTAATATATATTTTATTCCATGTTGATGTTGCAGAAAAAAATGAGCATTCCGGTAACAATTTCACGTGTCTTAAAGTACATACCGGATTTACAAAAGCAAGTGCAAGGATTAACTAAGAAAAAAGAAGAGCTTCTATCAAGAATTTCTCGACAAGAATATGCAGTTAACAAAGAATCGCAAAGGAAGAAAATTCCAAGTTACAATTCTGCTTTTGTAGTTTCGACAAGTAGGCTTAATGATACTGAGCTTATTGTTCATATTTCGTCTTATGAGACCTACAAGATTCCTCTATCTGAGATCTTGATGTGTTTAGAAAATAATGGACTTCTTCTATTAAACTCTTCTTCTTCTAAAACCTTTGGAGGGAGGCTCTTCTATAACTTGCATTTTCAGGTAATATTATTATCTTTATCTCTAAATATAAGTCTATATTTGTAAGAAAAATATTATCTTTAATAATAAGTTTAATTATATTCTCAAATTATCAGACGCATAAATTATATTTTTACAGAAATTAGCCCTAATTGTTTACTATTAAGGGACATATGTAGTATTTGTTTGTTATTGTTGTTGTTAAAATTTTTGCTTTGATTTATTTATTTATTTTGCAATGTTTGCAGGTGGATAAAACTCAAAGATATGAGTGTGATGATCTGATTCAAAAGCTTTCGTCAATATATGAGAAGCAGAAAAATAATCATTTGGGCACTATGGATCAAACGATCAATAGTGTTCTGATATATTAATTAAAAGTTTAGGATTTGGCTCTTAGTAGTATTTTGTAGTACATATTTTAATAGCACGGGTTAATTAGAAGCTTGGAAAGGAGCAACAACATGCCCCCCACTATATTATTATGGTAA

Protein sequence

>MS.gene014037.t1

MVAFCPPKFSYSNMGWLLEELEQESLISQKENNYASLEYSLPYHQFSSPKEHVEIERPPSPKLMAKKLNHNASERDRRKKINSLISSLRSLLPGEDQTKKMSIPVTISRVLKYIPDLQKQVQGLTKKKEELLSRISRQEYAVNKESQRKKIPSYNSAFVVSTSRLNDTELIVHISSYETYKIPLSEILMCLENNGLLLLNSSSSKTFGGRLFYNLHFQHGLIRSLERSNNMPPTILLW