AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene61570

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene61570.t1 MTR_8g005900 94.602 352 18 1 1 352 1 351 0.0 618
MS.gene61570.t1 MTR_5g012680 58.632 307 114 3 29 332 40 336 9.32e-125 363
MS.gene61570.t1 MTR_5g036410 46.580 307 151 5 39 337 54 355 6.16e-94 285
MS.gene61570.t1 MTR_8g062770 46.552 290 136 5 38 313 47 331 1.95e-80 250
MS.gene61570.t1 MTR_6g008480 38.796 299 145 7 37 307 41 329 2.64e-60 197
MS.gene61570.t1 MTR_5g036080 35.563 284 162 6 31 310 55 321 6.82e-49 167
MS.gene61570.t1 MTR_5g036087 33.133 332 179 13 7 312 7 321 9.21e-37 136
MS.gene61570.t1 MTR_5g036083 34.545 275 139 10 45 312 38 278 2.40e-36 134
MS.gene61570.t1 MTR_5g036093 32.226 301 170 9 53 343 35 311 2.46e-34 129
MS.gene61570.t1 MTR_5g036360 32.210 267 147 8 51 309 81 321 4.30e-33 126
MS.gene61570.t1 MTR_5g036290 31.818 264 154 8 51 309 89 331 2.06e-31 122
MS.gene61570.t1 MTR_5g036270 28.882 322 162 10 48 312 2 313 3.69e-29 115
MS.gene61570.t1 MTR_5g036310 28.391 317 158 10 3 312 26 280 1.29e-22 97.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene61570.t1 AT2G45040 50.432 347 153 6 6 350 10 339 5.32e-119 348
MS.gene61570.t1 AT4G16640 56.338 284 113 4 33 314 51 325 3.22e-110 326
MS.gene61570.t1 AT1G70170 45.329 289 139 5 39 313 46 329 4.14e-85 263
MS.gene61570.t1 AT1G59970 46.067 267 132 5 46 307 54 313 6.65e-80 248
MS.gene61570.t1 AT1G24140 42.173 313 154 7 39 330 48 354 8.60e-79 246

Find 68 sgRNAs with CRISPR-Local

Find 82 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGGTGTACAATCTCTTTA+TGG 0.178172 8.2:+83891716 MS.gene61570:CDS
TTGAATATTGATGATATTAA+AGG 0.231900 8.2:+83891698 MS.gene61570:CDS
AAAGATACCTATCTCGTTTC+GGG 0.242215 8.2:+83890982 MS.gene61570:CDS
AGTTTGGAGTTGACACTTTC+GGG 0.242633 8.2:+83891807 MS.gene61570:CDS
GAGAAATGTGAAGGAGTATC+TGG 0.292363 8.2:-83890829 None:intergenic
ATGGTTTGTGATGGATATTT+TGG 0.295126 8.2:-83890898 None:intergenic
CTTGAAGTCCAAGATTTCTT+TGG 0.299528 8.2:-83891073 None:intergenic
ACAAATCATGGTGCAAAGTT+TGG 0.322005 8.2:+83891791 MS.gene61570:CDS
GAGCCATTTGATGGAGTTCT+TGG 0.328970 8.2:+83891458 MS.gene61570:CDS
ATACAGGGATATTGCAATAA+TGG 0.329798 8.2:-83891846 None:intergenic
AAGTTTGGAGTTGACACTTT+CGG 0.334864 8.2:+83891806 MS.gene61570:CDS
ATCAAATACCAAAGAAATCT+TGG 0.341782 8.2:+83891065 MS.gene61570:CDS
GACCACTGAGATCTAAAATT+AGG 0.342679 8.2:-83891746 None:intergenic
AAAAGATACCTATCTCGTTT+CGG 0.355227 8.2:+83890981 MS.gene61570:CDS
ACATGAGATTGGACATTTGT+TGG 0.375194 8.2:+83891604 MS.gene61570:CDS
AAATGTTCAAATTATAATAC+AGG 0.380865 8.2:-83891862 None:intergenic
TAGATGGAGTTCAGTTATTC+CGG 0.381227 8.2:+83891358 MS.gene61570:CDS
TAGATCTCAGTGGTCTTCAT+TGG 0.382448 8.2:+83891754 MS.gene61570:CDS
AATCTTGGACTTCAAGTAAC+TGG 0.389374 8.2:+83891080 MS.gene61570:CDS
CATGAGATTGGACATTTGTT+GGG 0.392912 8.2:+83891605 MS.gene61570:CDS
TCAAACGAGCATTCTCTAGA+TGG 0.397604 8.2:+83891342 MS.gene61570:CDS
GAGACTTGGACGGTTGATTT+CGG 0.401503 8.2:+83891536 MS.gene61570:CDS
AAACTTTGCACCATGATTTG+TGG 0.402827 8.2:-83891789 None:intergenic
ACTTTCGGGTTCTCTATGAT+TGG 0.405044 8.2:+83891821 MS.gene61570:CDS
TAATGTACCCGAAACGAGAT+AGG 0.407063 8.2:-83890989 None:intergenic
AAGCCATAGGTTAGTGTCAT+TGG 0.410592 8.2:-83891266 None:intergenic
TCTGATTCGACAAAACTTAC+CGG 0.414194 8.2:-83891377 None:intergenic
TTATCTCTTGGCCTCAAACT+TGG 0.420331 8.2:-83891665 None:intergenic
CATTCGTTCTCACCGGAGAT+AGG 0.424201 8.2:+83891491 MS.gene61570:CDS
GTCACATAGTTCTTTGAAAG+AGG 0.449261 8.2:+83891631 MS.gene61570:CDS
TGAAGGAGTATCTGGGTGAT+AGG 0.455918 8.2:-83890821 None:intergenic
TGATTTCGGTGTAACGAAAT+CGG 0.459611 8.2:+83891550 MS.gene61570:CDS
ACCTCGATGCAGCCGAGACT+TGG 0.460543 8.2:+83891522 MS.gene61570:CDS
GGTGATGGTGAGCCATTTGA+TGG 0.470162 8.2:+83891449 MS.gene61570:CDS
TTTGTCGAATCAGAGGATTA+TGG 0.472195 8.2:+83891386 MS.gene61570:CDS
TCTGATATCTCCACAAATCA+TGG 0.490593 8.2:+83891779 MS.gene61570:CDS
ATTCATAGCTTCACCAATGC+TGG 0.494960 8.2:+83890924 MS.gene61570:CDS
TCAGTAGCAACACATGAGAT+TGG 0.504027 8.2:+83891593 MS.gene61570:CDS
AGCTTCACCAATGCTGGCAG+AGG 0.514014 8.2:+83890930 MS.gene61570:CDS
ACACCAAGAACTCCATCAAA+TGG 0.514511 8.2:-83891461 None:intergenic
CGGTGTAACGAAATCGGAGG+TGG 0.518632 8.2:+83891556 MS.gene61570:CDS
GTTGTTGCCTCTGCCAGCAT+TGG 0.520249 8.2:-83890937 None:intergenic
CTATCTCCGGTGAGAACGAA+TGG 0.521976 8.2:-83891490 None:intergenic
ATCAGAGGATTATGGTTTCG+CGG 0.530317 8.2:+83891394 MS.gene61570:CDS
ACTTGAGCATACAAGAGATA+AGG 0.535220 8.2:+83891312 MS.gene61570:CDS
AGAAATGTGAAGGAGTATCT+GGG 0.543003 8.2:-83890828 None:intergenic
GATCATTTGAGAAACTGTAT+TGG 0.546404 8.2:-83891114 None:intergenic
GTGTCTGGGACACCACATCT+TGG 0.546997 8.2:-83891140 None:intergenic
CAGTAATGTATCCAAGTTTG+AGG 0.553005 8.2:+83891654 MS.gene61570:CDS
AGGTGAAGTCTTCCTATCTC+CGG 0.553302 8.2:-83891503 None:intergenic
ATGCCAATGACACTAACCTA+TGG 0.555029 8.2:+83891263 MS.gene61570:CDS
TATCTCCGGTGAGAACGAAT+GGG 0.562042 8.2:-83891489 None:intergenic
GAAATCAACCGTCCAAGTCT+CGG 0.567339 8.2:-83891534 None:intergenic
AGTAGTGAAGAGAAATGTGA+AGG 0.574185 8.2:-83890838 None:intergenic
GGCAGAGGCAACAACATCAC+AGG 0.587313 8.2:+83890945 MS.gene61570:CDS
GTTAGCCCATTCGTTCTCAC+CGG 0.599027 8.2:+83891484 MS.gene61570:CDS
TATAGTGGTGACCATGGTGA+TGG 0.605121 8.2:+83891434 MS.gene61570:CDS
ATGAATGTCATGGTTTGTGA+TGG 0.608360 8.2:-83890907 None:intergenic
GTAGTCACTTGAGAAGCCAT+AGG 0.626586 8.2:-83891279 None:intergenic
CAAATGATCACACCAAGATG+TGG 0.640519 8.2:+83891128 MS.gene61570:CDS
TGGTGAAGCTATGAATGTCA+TGG 0.644473 8.2:-83890917 None:intergenic
AATGTTCAAATTATAATACA+GGG 0.646103 8.2:-83891861 None:intergenic
CGATGCAGCCGAGACTTGGA+CGG 0.657273 8.2:+83891526 MS.gene61570:CDS
TCCAAGTCTCGGCTGCATCG+AGG 0.696377 8.2:-83891523 None:intergenic
TTTCGGTGTAACGAAATCGG+AGG 0.702180 8.2:+83891553 MS.gene61570:CDS
CAAATGGCTCACCATCACCA+TGG 0.702776 8.2:-83891445 None:intergenic
GTGAAGATGATGATAATGTG+AGG 0.703519 8.2:-83890866 None:intergenic
GGCATGTCACGTGACCAACG+TGG 0.753244 8.2:-83891245 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATGTTCAAATTATAATAC+AGG - chr8.2:83891865-83891884 None:intergenic 15.0%
!! AATGTTCAAATTATAATACA+GGG - chr8.2:83891864-83891883 None:intergenic 15.0%
!!! ATAAAAATAGGATTTTATAG+TGG + chr8.2:83891419-83891438 MS.gene61570:CDS 15.0%
!!! TTGAATATTGATGATATTAA+AGG + chr8.2:83891698-83891717 MS.gene61570:CDS 15.0%
!!! TGTTATGAATATGATTTTGA+TGG - chr8.2:83891196-83891215 None:intergenic 20.0%
! ATCAAATACCAAAGAAATCT+TGG + chr8.2:83891065-83891084 MS.gene61570:CDS 25.0%
!!! ACGAATTTTGTTTATTTTCC+TGG + chr8.2:83891218-83891237 MS.gene61570:CDS 25.0%
AAAAGATACCTATCTCGTTT+CGG + chr8.2:83890981-83891000 MS.gene61570:CDS 30.0%
ATACAGGGATATTGCAATAA+TGG - chr8.2:83891849-83891868 None:intergenic 30.0%
GATCATTTGAGAAACTGTAT+TGG - chr8.2:83891117-83891136 None:intergenic 30.0%
! AAAGGTGTACAATCTCTTTA+TGG + chr8.2:83891716-83891735 MS.gene61570:CDS 30.0%
! AAATCAGCTCTTTTATCTCT+TGG - chr8.2:83891680-83891699 None:intergenic 30.0%
! ATCCTAATTTTAGATCTCAG+TGG + chr8.2:83891744-83891763 MS.gene61570:CDS 30.0%
!!! ATGGTTTGTGATGGATATTT+TGG - chr8.2:83890901-83890920 None:intergenic 30.0%
AAACTTTGCACCATGATTTG+TGG - chr8.2:83891792-83891811 None:intergenic 35.0%
AAAGATACCTATCTCGTTTC+GGG + chr8.2:83890982-83891001 MS.gene61570:CDS 35.0%
AATCTTGGACTTCAAGTAAC+TGG + chr8.2:83891080-83891099 MS.gene61570:CDS 35.0%
ACAAATCATGGTGCAAAGTT+TGG + chr8.2:83891791-83891810 MS.gene61570:CDS 35.0%
ACATGAGATTGGACATTTGT+TGG + chr8.2:83891604-83891623 MS.gene61570:CDS 35.0%
ACTTGAGCATACAAGAGATA+AGG + chr8.2:83891312-83891331 MS.gene61570:CDS 35.0%
AGTAGTGAAGAGAAATGTGA+AGG - chr8.2:83890841-83890860 None:intergenic 35.0%
CAGTAATGTATCCAAGTTTG+AGG + chr8.2:83891654-83891673 MS.gene61570:CDS 35.0%
CATGAGATTGGACATTTGTT+GGG + chr8.2:83891605-83891624 MS.gene61570:CDS 35.0%
CTTGAAGTCCAAGATTTCTT+TGG - chr8.2:83891076-83891095 None:intergenic 35.0%
GGTTTCGCGGATATAAAAAT+AGG + chr8.2:83891407-83891426 MS.gene61570:CDS 35.0%
TAGATGGAGTTCAGTTATTC+CGG + chr8.2:83891358-83891377 MS.gene61570:CDS 35.0%
TCTGATATCTCCACAAATCA+TGG + chr8.2:83891779-83891798 MS.gene61570:CDS 35.0%
TTTGTCGAATCAGAGGATTA+TGG + chr8.2:83891386-83891405 MS.gene61570:CDS 35.0%
! AAGTTTGGAGTTGACACTTT+CGG + chr8.2:83891806-83891825 MS.gene61570:CDS 35.0%
! ATGAATGTCATGGTTTGTGA+TGG - chr8.2:83890910-83890929 None:intergenic 35.0%
! GACCACTGAGATCTAAAATT+AGG - chr8.2:83891749-83891768 None:intergenic 35.0%
! GTCACATAGTTCTTTGAAAG+AGG + chr8.2:83891631-83891650 MS.gene61570:CDS 35.0%
! GTGAAGATGATGATAATGTG+AGG - chr8.2:83890869-83890888 None:intergenic 35.0%
! TCTGATTCGACAAAACTTAC+CGG - chr8.2:83891380-83891399 None:intergenic 35.0%
! TGATTTCGGTGTAACGAAAT+CGG + chr8.2:83891550-83891569 MS.gene61570:CDS 35.0%
!! AGAAATGTGAAGGAGTATCT+GGG - chr8.2:83890831-83890850 None:intergenic 35.0%
!! GATGAGTTTTTGTTGTGTCT+GGG - chr8.2:83891157-83891176 None:intergenic 35.0%
!! TGATGAGTTTTTGTTGTGTC+TGG - chr8.2:83891158-83891177 None:intergenic 35.0%
!!! GTTTGTGATGGATATTTTGG+TGG - chr8.2:83890898-83890917 None:intergenic 35.0%
AAGCCATAGGTTAGTGTCAT+TGG - chr8.2:83891269-83891288 None:intergenic 40.0%
ACACCAAGAACTCCATCAAA+TGG - chr8.2:83891464-83891483 None:intergenic 40.0%
ATCAGAGGATTATGGTTTCG+CGG + chr8.2:83891394-83891413 MS.gene61570:CDS 40.0%
ATGCCAATGACACTAACCTA+TGG + chr8.2:83891263-83891282 MS.gene61570:CDS 40.0%
ATTCATAGCTTCACCAATGC+TGG + chr8.2:83890924-83890943 MS.gene61570:CDS 40.0%
CAAATGATCACACCAAGATG+TGG + chr8.2:83891128-83891147 MS.gene61570:CDS 40.0%
TAATGTACCCGAAACGAGAT+AGG - chr8.2:83890992-83891011 None:intergenic 40.0%
TAGATCTCAGTGGTCTTCAT+TGG + chr8.2:83891754-83891773 MS.gene61570:CDS 40.0%
TCAAACGAGCATTCTCTAGA+TGG + chr8.2:83891342-83891361 MS.gene61570:CDS 40.0%
TCAGTAGCAACACATGAGAT+TGG + chr8.2:83891593-83891612 MS.gene61570:CDS 40.0%
TGGTGAAGCTATGAATGTCA+TGG - chr8.2:83890920-83890939 None:intergenic 40.0%
TTATCTCTTGGCCTCAAACT+TGG - chr8.2:83891668-83891687 None:intergenic 40.0%
! AGTTTGGAGTTGACACTTTC+GGG + chr8.2:83891807-83891826 MS.gene61570:CDS 40.0%
! ATTTTCCTGGAAAACCACGT+TGG + chr8.2:83891231-83891250 MS.gene61570:CDS 40.0%
! GGATTTTATAGTGGTGACCA+TGG + chr8.2:83891428-83891447 MS.gene61570:CDS 40.0%
!! ACTTTCGGGTTCTCTATGAT+TGG + chr8.2:83891821-83891840 MS.gene61570:CDS 40.0%
!! GAGAAATGTGAAGGAGTATC+TGG - chr8.2:83890832-83890851 None:intergenic 40.0%
!! GGTAAGTTTTGTCGAATCAG+AGG + chr8.2:83891379-83891398 MS.gene61570:CDS 40.0%
!!! ATGGATATTTTGGTGGCTAG+TGG - chr8.2:83890891-83890910 None:intergenic 40.0%
AGGTGAAGTCTTCCTATCTC+CGG - chr8.2:83891506-83891525 None:intergenic 45.0%
GAAATCAACCGTCCAAGTCT+CGG - chr8.2:83891537-83891556 None:intergenic 45.0%
GAGCCATTTGATGGAGTTCT+TGG + chr8.2:83891458-83891477 MS.gene61570:CDS 45.0%
GTAGTCACTTGAGAAGCCAT+AGG - chr8.2:83891282-83891301 None:intergenic 45.0%
TATAGTGGTGACCATGGTGA+TGG + chr8.2:83891434-83891453 MS.gene61570:CDS 45.0%
TATCTCCGGTGAGAACGAAT+GGG - chr8.2:83891492-83891511 None:intergenic 45.0%
! GAGACTTGGACGGTTGATTT+CGG + chr8.2:83891536-83891555 MS.gene61570:CDS 45.0%
! TTTCGGTGTAACGAAATCGG+AGG + chr8.2:83891553-83891572 MS.gene61570:CDS 45.0%
!! TGAAGGAGTATCTGGGTGAT+AGG - chr8.2:83890824-83890843 None:intergenic 45.0%
CAAATGGCTCACCATCACCA+TGG - chr8.2:83891448-83891467 None:intergenic 50.0%
CATTCGTTCTCACCGGAGAT+AGG + chr8.2:83891491-83891510 MS.gene61570:CDS 50.0%
CTATCTCCGGTGAGAACGAA+TGG - chr8.2:83891493-83891512 None:intergenic 50.0%
GTTAGCCCATTCGTTCTCAC+CGG + chr8.2:83891484-83891503 MS.gene61570:CDS 50.0%
! GGTGATGGTGAGCCATTTGA+TGG + chr8.2:83891449-83891468 MS.gene61570:CDS 50.0%
AGCTTCACCAATGCTGGCAG+AGG + chr8.2:83890930-83890949 MS.gene61570:CDS 55.0%
CGGTGTAACGAAATCGGAGG+TGG + chr8.2:83891556-83891575 MS.gene61570:CDS 55.0%
GGCAGAGGCAACAACATCAC+AGG + chr8.2:83890945-83890964 MS.gene61570:CDS 55.0%
GTTGTTGCCTCTGCCAGCAT+TGG - chr8.2:83890940-83890959 None:intergenic 55.0%
! CGTGACCAACGTGGTTTTCC+AGG - chr8.2:83891239-83891258 None:intergenic 55.0%
! GTGTCTGGGACACCACATCT+TGG - chr8.2:83891143-83891162 None:intergenic 55.0%
ACCTCGATGCAGCCGAGACT+TGG + chr8.2:83891522-83891541 MS.gene61570:CDS 60.0%
CGATGCAGCCGAGACTTGGA+CGG + chr8.2:83891526-83891545 MS.gene61570:CDS 60.0%
GGCATGTCACGTGACCAACG+TGG - chr8.2:83891248-83891267 None:intergenic 60.0%
TCCAAGTCTCGGCTGCATCG+AGG - chr8.2:83891526-83891545 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 83890816 83891889 83890816 ID=MS.gene61570
chr8.2 mRNA 83890816 83891889 83890816 ID=MS.gene61570.t1;Parent=MS.gene61570
chr8.2 exon 83890816 83891889 83890816 ID=MS.gene61570.t1.exon1;Parent=MS.gene61570.t1
chr8.2 CDS 83890816 83891889 83890816 ID=cds.MS.gene61570.t1;Parent=MS.gene61570.t1
Gene Sequence

>MS.gene61570

ATGTTCCTATCACCCAGATACTCCTTCACATTTCTCTTCACTACTCTTCTCCTCACATTATCATCATCTTCACCACTAGCCACCAAAATATCCATCACAAACCATGACATTCATAGCTTCACCAATGCTGGCAGAGGCAACAACATCACAGGAATATCACAATTCAAAAGATACCTATCTCGTTTCGGGTACATTAAAAACAATGACACATTCAGCGACGAATTTGATGCGAATTTTGAATCAGCTATCATCAAATACCAAAGAAATCTTGGACTTCAAGTAACTGGTAAACTCGATTCCAATACAGTTTCTCAAATGATCACACCAAGATGTGGTGTCCCAGACACAACAAAAACTCATCATCATCATCATAATCACCATCAAAATCATATTCATAACATGACGAATTTTGTTTATTTTCCTGGAAAACCACGTTGGTCACGTGACATGCCAATGACACTAACCTATGGCTTCTCAAGTGACTACATGATTCATAACTTGAGCATACAAGAGATAAGGAAAGCATTCAAACGAGCATTCTCTAGATGGAGTTCAGTTATTCCGGTAAGTTTTGTCGAATCAGAGGATTATGGTTTCGCGGATATAAAAATAGGATTTTATAGTGGTGACCATGGTGATGGTGAGCCATTTGATGGAGTTCTTGGTGTGTTAGCCCATTCGTTCTCACCGGAGATAGGAAGACTTCACCTCGATGCAGCCGAGACTTGGACGGTTGATTTCGGTGTAACGAAATCGGAGGTGGCAATTGATTTAGAGTCAGTAGCAACACATGAGATTGGACATTTGTTGGGTTTGTCACATAGTTCTTTGAAAGAGGCAGTAATGTATCCAAGTTTGAGGCCAAGAGATAAAAGAGCTGATTTGAATATTGATGATATTAAAGGTGTACAATCTCTTTATGGTTCTAATCCTAATTTTAGATCTCAGTGGTCTTCATTGGAATCTGATATCTCCACAAATCATGGTGCAAAGTTTGGAGTTGACACTTTCGGGTTCTCTATGATTGGTTCCATTATTGCAATATCCCTGTATTATAATTTGAACATTTTTTAA
Protein sequence

>MS.gene61570.t1

MFLSPRYSFTFLFTTLLLTLSSSSPLATKISITNHDIHSFTNAGRGNNITGISQFKRYLSRFGYIKNNDTFSDEFDANFESAIIKYQRNLGLQVTGKLDSNTVSQMITPRCGVPDTTKTHHHHHNHHQNHIHNMTNFVYFPGKPRWSRDMPMTLTYGFSSDYMIHNLSIQEIRKAFKRAFSRWSSVIPVSFVESEDYGFADIKIGFYSGDHGDGEPFDGVLGVLAHSFSPEIGRLHLDAAETWTVDFGVTKSEVAIDLESVATHEIGHLLGLSHSSLKEAVMYPSLRPRDKRADLNIDDIKGVQSLYGSNPNFRSQWSSLESDISTNHGAKFGVDTFGFSMIGSIIAISLYYNLNIF