AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene87439


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene87439.t1 MTR_8g077640 67.532 77 25 0 61 137 305 381 2.95e-30 112
MS.gene87439.t1 MTR_8g077640 76.471 51 12 0 11 61 108 158 3.50e-12 62.4
MS.gene87439.t1 MTR_8g077195 54.639 97 42 1 10 106 65 159 4.29e-20 85.1
MS.gene87439.t1 MTR_8g077195 56.757 74 31 1 64 137 328 400 3.51e-18 79.7
MS.gene87439.t1 MTR_8g077650 46.465 99 52 1 39 137 227 324 1.48e-17 77.4
MS.gene87439.t1 MTR_1g022370 53.247 77 35 1 61 137 335 410 2.30e-17 77.4
MS.gene87439.t1 MTR_1g022370 60.000 45 18 0 17 61 89 133 2.85e-11 60.1
MS.gene87439.t1 MTR_8g077675 67.308 52 17 0 10 61 60 111 6.27e-17 75.9
MS.gene87439.t1 MTR_5g020580 54.054 74 33 1 64 137 332 404 8.14e-17 75.9
MS.gene87439.t1 MTR_5g020580 63.462 52 19 0 10 61 67 118 4.44e-16 73.6
MS.gene87439.t1 MTR_8g077620 61.538 52 20 0 10 61 64 115 6.67e-15 70.5
MS.gene87439.t1 MTR_8g077620 51.948 77 31 3 66 137 306 381 4.82e-13 65.1
MS.gene87439.t1 MTR_2g076200 49.351 77 38 1 61 137 284 359 1.79e-14 68.9
MS.gene87439.t1 MTR_1g088960 42.453 106 53 4 34 137 291 390 1.67e-13 66.2
MS.gene87439.t1 MTR_2g020280 45.455 77 39 2 61 137 209 282 9.85e-13 63.9
MS.gene87439.t1 MTR_2g020280 45.455 77 39 2 61 137 308 381 1.14e-12 63.9
MS.gene87439.t1 MTR_2g007930 45.000 80 37 2 64 137 337 415 3.90e-12 62.4
MS.gene87439.t1 MTR_1g098790 55.556 45 20 0 17 61 72 116 2.23e-11 60.5
MS.gene87439.t1 MTR_1g098790 41.860 86 37 2 64 137 335 419 5.33e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene87439.t1 AT2G18280 50.000 74 36 1 64 137 309 381 6.94e-15 70.5
MS.gene87439.t1 AT2G18280 61.702 47 18 0 15 61 65 111 4.37e-14 68.2
MS.gene87439.t1 AT2G18280 50.000 74 36 1 64 137 309 381 6.94e-15 70.5
MS.gene87439.t1 AT2G18280 61.702 47 18 0 15 61 65 111 4.37e-14 68.2
MS.gene87439.t1 AT1G53320 44.444 99 52 2 39 137 272 367 8.22e-15 70.1
MS.gene87439.t1 AT3G06380 49.351 77 35 3 61 137 204 276 3.31e-14 67.8
MS.gene87439.t1 AT3G06380 49.351 77 35 3 61 137 296 368 5.92e-14 67.8
MS.gene87439.t1 AT1G47270 46.753 77 37 2 64 137 301 376 9.25e-14 67.0
MS.gene87439.t1 AT1G47270 46.753 77 37 2 64 137 325 400 9.89e-14 67.0
MS.gene87439.t1 AT1G47270 46.753 77 37 2 64 137 326 401 1.00e-13 67.0
MS.gene87439.t1 AT2G47900 46.753 77 38 2 61 137 322 395 4.14e-12 62.4
MS.gene87439.t1 AT2G47900 46.753 77 38 2 61 137 321 394 4.21e-12 62.4
MS.gene87439.t1 AT2G47900 46.753 77 38 2 61 137 321 394 4.21e-12 62.4
MS.gene87439.t1 AT5G18680 48.101 79 34 4 64 137 209 285 5.71e-12 61.6
MS.gene87439.t1 AT5G18680 48.750 80 32 4 64 137 301 377 8.90e-12 61.6
MS.gene87439.t1 AT1G25280 42.353 85 37 2 64 137 172 255 6.83e-11 58.5
MS.gene87439.t1 AT1G25280 42.353 85 37 2 64 137 172 255 6.83e-11 58.5
MS.gene87439.t1 AT1G25280 42.353 85 37 2 64 137 350 433 8.68e-11 58.5
MS.gene87439.t1 AT1G25280 48.936 47 24 0 15 61 76 122 9.94e-11 58.5

Find 35 sgRNAs with CRISPR-Local

Find 74 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCTCGTGCAGATCGAAAA+TGG 0.275180 8.3:+26610412 MS.gene87439:CDS
ATTACCTGCATCAGTGAAAT+AGG 0.310386 8.3:-26609852 None:intergenic
AATTATGTCTAAAAGCAATT+CGG 0.348399 8.3:-26609704 None:intergenic
ATTATGTCTAAAAGCAATTC+GGG 0.401390 8.3:-26609703 None:intergenic
TTAACACGCCCCATGACATC+AGG 0.446343 8.3:-26610333 None:intergenic
ATTTCCTATTTCACTGATGC+AGG 0.447311 8.3:+26609848 MS.gene87439:CDS
GTGCTTCGGTATGTAAATCA+TGG 0.451227 8.3:+26609772 MS.gene87439:CDS
ATTCGAAGGGTGAGACATCT+TGG 0.459333 8.3:+26609724 MS.gene87439:CDS
TGGTTGGTGCCCTGATGTCA+TGG 0.480715 8.3:+26610323 MS.gene87439:CDS
ATCCTTCCACATTGCTGAGT+TGG 0.504963 8.3:-26609822 None:intergenic
GGTTGGTGCCCTGATGTCAT+GGG 0.515230 8.3:+26610324 MS.gene87439:CDS
AATACAACAACAGCACGCAC+AGG 0.528271 8.3:-26609747 None:intergenic
ATCGATAAACAATGGCTACA+AGG 0.537056 8.3:-26610380 None:intergenic
CTCTCGCAGTTACCAAGGGC+TGG 0.541801 8.3:+26610438 MS.gene87439:CDS
GCCCTTGGTAACTGCGAGAG+TGG 0.543528 8.3:-26610435 None:intergenic
TCAGATGGCAAAGGCTAGGA+AGG 0.547032 8.3:-26610505 None:intergenic
GGCCACTCTCGCAGTTACCA+AGG 0.570120 8.3:+26610433 MS.gene87439:CDS
TCAATCAGATGGCAAAGGCT+AGG 0.587267 8.3:-26610509 None:intergenic
TACATATGACATCAATCAGA+TGG 0.588087 8.3:-26610520 None:intergenic
CGCCAACTCAGCAATGTGGA+AGG 0.589078 8.3:+26609820 MS.gene87439:CDS
GCCACTCTCGCAGTTACCAA+GGG 0.598257 8.3:+26610434 MS.gene87439:CDS
AAGGCTAGGAAGGCAGAGAG+TGG 0.603013 8.3:-26610495 None:intergenic
AAACAATGGCTACAAGGTCA+AGG 0.605692 8.3:-26610374 None:intergenic
ATTACAAGATCGATAAACAA+TGG 0.620701 8.3:-26610388 None:intergenic
GAGTGGATAAGTGTAGTCCA+TGG 0.637239 8.3:-26610478 None:intergenic
TGACATCAATCAGATGGCAA+AGG 0.647282 8.3:-26610514 None:intergenic
TAACACGCCCCATGACATCA+GGG 0.652203 8.3:-26610332 None:intergenic
CGATGGGATGAACAGTACAA+TGG 0.659156 8.3:+26610303 MS.gene87439:CDS
GGTATGTAAATCATGGAGGT+CGG 0.660173 8.3:+26609779 MS.gene87439:CDS
TAGAAAAGATGTATTCACCA+TGG 0.664951 8.3:+26610461 MS.gene87439:CDS
ATGTCTAAAAGCAATTCGGG+TGG 0.680227 8.3:-26609700 None:intergenic
GGGATGAACAGTACAATGGT+TGG 0.683939 8.3:+26610307 MS.gene87439:CDS
GTTGGTGCCCTGATGTCATG+GGG 0.688750 8.3:+26610325 MS.gene87439:CDS
ATTACGCCAACTCAGCAATG+TGG 0.692751 8.3:+26609816 MS.gene87439:CDS
CTTCGGTATGTAAATCATGG+AGG 0.716243 8.3:+26609775 MS.gene87439:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTATGTCTAAAAGCAATT+CGG - chr8.3:26609707-26609726 None:intergenic 20.0%
!! TACCTTTATACTAAAAAACA+AGG + chr8.3:26610275-26610294 MS.gene87439:intron 20.0%
!! TTGATATTTATACATATGAC+AGG + chr8.3:26610091-26610110 MS.gene87439:intron 20.0%
! AATAAAATTTGACCCGAAAA+TGG - chr8.3:26609889-26609908 None:intergenic 25.0%
! ATAAAATTTGACCCGAAAAT+GGG - chr8.3:26609888-26609907 None:intergenic 25.0%
! ATTACAAGATCGATAAACAA+TGG - chr8.3:26610391-26610410 None:intergenic 25.0%
! ATTATGTCTAAAAGCAATTC+GGG - chr8.3:26609706-26609725 None:intergenic 25.0%
! GAAAAAGTTTCATCAAATAC+TGG - chr8.3:26610162-26610181 None:intergenic 25.0%
!! ATTCCTTTTGTACTTAGATT+TGG + chr8.3:26610014-26610033 MS.gene87439:intron 25.0%
!!! AGCCTTGTTTTTTAGTATAA+AGG - chr8.3:26610280-26610299 None:intergenic 25.0%
AAAGTTTCATCAAATACTGG+AGG - chr8.3:26610159-26610178 None:intergenic 30.0%
AAGACAACATAAAAAACCTG+AGG - chr8.3:26609915-26609934 None:intergenic 30.0%
AGACAACATAAAAAACCTGA+GGG - chr8.3:26609914-26609933 None:intergenic 30.0%
CTTCTGATATAGCATTGTAT+CGG - chr8.3:26609976-26609995 None:intergenic 30.0%
GCAAAGTATGAATCTTACAT+TGG - chr8.3:26610213-26610232 None:intergenic 30.0%
TAGAAAAGATGTATTCACCA+TGG + chr8.3:26610461-26610480 MS.gene87439:CDS 30.0%
! ATACATTCTTCACCCATTTT+CGG + chr8.3:26609873-26609892 MS.gene87439:intron 30.0%
! ATCAAGTTGTGAAGCTTATA+AGG - chr8.3:26610076-26610095 None:intergenic 30.0%
! GCTTTTAGACATAATTCGAA+GGG + chr8.3:26609711-26609730 MS.gene87439:CDS 30.0%
! TCAAGTTGTGAAGCTTATAA+GGG - chr8.3:26610075-26610094 None:intergenic 30.0%
! TGCTTTTAGACATAATTCGA+AGG + chr8.3:26609710-26609729 MS.gene87439:CDS 30.0%
! TGTTGTTGTATTTTGTGCTT+CGG + chr8.3:26609758-26609777 MS.gene87439:CDS 30.0%
!! TTAGTATAAAGGTATCGATC+TGG - chr8.3:26610269-26610288 None:intergenic 30.0%
!!! GTCAAATTTTATTTTCCCTC+AGG + chr8.3:26609896-26609915 MS.gene87439:intron 30.0%
AAAAAACAAGGCTCTTCGAT+GGG + chr8.3:26610287-26610306 MS.gene87439:intron 35.0%
ACTGTCGTATATAGTGAACT+TGG - chr8.3:26610133-26610152 None:intergenic 35.0%
ATCGATAAACAATGGCTACA+AGG - chr8.3:26610383-26610402 None:intergenic 35.0%
ATTACCTGCATCAGTGAAAT+AGG - chr8.3:26609855-26609874 None:intergenic 35.0%
ATTTCCTATTTCACTGATGC+AGG + chr8.3:26609848-26609867 MS.gene87439:CDS 35.0%
CATTGTATCGGATGATTAGA+GGG - chr8.3:26609964-26609983 None:intergenic 35.0%
CGATACAATGCTATATCAGA+AGG + chr8.3:26609974-26609993 MS.gene87439:intron 35.0%
CGGGCTATTTATACACATAA+AGG - chr8.3:26609939-26609958 None:intergenic 35.0%
GCACCAAATCTAAGTACAAA+AGG - chr8.3:26610020-26610039 None:intergenic 35.0%
TAAAAAACAAGGCTCTTCGA+TGG + chr8.3:26610286-26610305 MS.gene87439:intron 35.0%
! TACATTCTTCACCCATTTTC+GGG + chr8.3:26609874-26609893 MS.gene87439:intron 35.0%
AAACAATGGCTACAAGGTCA+AGG - chr8.3:26610377-26610396 None:intergenic 40.0%
ATGTCTAAAAGCAATTCGGG+TGG - chr8.3:26609703-26609722 None:intergenic 40.0%
CATACTTTGCAAGCCTATCA+AGG + chr8.3:26610223-26610242 MS.gene87439:intron 40.0%
CTTCGGTATGTAAATCATGG+AGG + chr8.3:26609775-26609794 MS.gene87439:CDS 40.0%
GCATTGTATCGGATGATTAG+AGG - chr8.3:26609965-26609984 None:intergenic 40.0%
GGTATGTAAATCATGGAGGT+CGG + chr8.3:26609779-26609798 MS.gene87439:CDS 40.0%
GTGCTTCGGTATGTAAATCA+TGG + chr8.3:26609772-26609791 MS.gene87439:CDS 40.0%
GTTGTGAAGCTTATAAGGGA+TGG - chr8.3:26610071-26610090 None:intergenic 40.0%
TATCGGATGATTAGAGGGAA+CGG - chr8.3:26609959-26609978 None:intergenic 40.0%
TTTCTCGTGCAGATCGAAAA+TGG + chr8.3:26610412-26610431 MS.gene87439:CDS 40.0%
AATACAACAACAGCACGCAC+AGG - chr8.3:26609750-26609769 None:intergenic 45.0%
ATCCTTCCACATTGCTGAGT+TGG - chr8.3:26609825-26609844 None:intergenic 45.0%
ATCGGATGATTAGAGGGAAC+GGG - chr8.3:26609958-26609977 None:intergenic 45.0%
ATTACGCCAACTCAGCAATG+TGG + chr8.3:26609816-26609835 MS.gene87439:CDS 45.0%
ATTCGAAGGGTGAGACATCT+TGG + chr8.3:26609724-26609743 MS.gene87439:CDS 45.0%
CGATGGGATGAACAGTACAA+TGG + chr8.3:26610303-26610322 MS.gene87439:CDS 45.0%
GAGTGGATAAGTGTAGTCCA+TGG - chr8.3:26610481-26610500 None:intergenic 45.0%
GGGATGAACAGTACAATGGT+TGG + chr8.3:26610307-26610326 MS.gene87439:CDS 45.0%
! ACATCTTTTCTACCAGCCCT+TGG - chr8.3:26610453-26610472 None:intergenic 45.0%
!! TAAAGGTATCGATCTGGCCT+TGG - chr8.3:26610263-26610282 None:intergenic 45.0%
GCAAGCCTATCAAGGCTACA+CGG + chr8.3:26610231-26610250 MS.gene87439:intron 50.0%
TAACACGCCCCATGACATCA+GGG - chr8.3:26610335-26610354 None:intergenic 50.0%
TCAGATGGCAAAGGCTAGGA+AGG - chr8.3:26610508-26610527 None:intergenic 50.0%
TTAACACGCCCCATGACATC+AGG - chr8.3:26610336-26610355 None:intergenic 50.0%
TTTCCCTTCAGTGCAGGTGA+CGG - chr8.3:26610186-26610205 None:intergenic 50.0%
! GGATGTTTTCCCTTCAGTGC+AGG - chr8.3:26610192-26610211 None:intergenic 50.0%
! TCAGTCCGTGTAGCCTTGAT+AGG - chr8.3:26610239-26610258 None:intergenic 50.0%
AAGGCTAGGAAGGCAGAGAG+TGG - chr8.3:26610498-26610517 None:intergenic 55.0%
CGCCAACTCAGCAATGTGGA+AGG + chr8.3:26609820-26609839 MS.gene87439:CDS 55.0%
GCCACTCTCGCAGTTACCAA+GGG + chr8.3:26610434-26610453 MS.gene87439:CDS 55.0%
TCTCCGTCACCTGCACTGAA+GGG + chr8.3:26610180-26610199 MS.gene87439:intron 55.0%
TTCTCCGTCACCTGCACTGA+AGG + chr8.3:26610179-26610198 MS.gene87439:intron 55.0%
! GGTTGGTGCCCTGATGTCAT+GGG + chr8.3:26610324-26610343 MS.gene87439:CDS 55.0%
! GTTGGTGCCCTGATGTCATG+GGG + chr8.3:26610325-26610344 MS.gene87439:CDS 55.0%
! TGGTTGGTGCCCTGATGTCA+TGG + chr8.3:26610323-26610342 MS.gene87439:CDS 55.0%
CTCTCGCAGTTACCAAGGGC+TGG + chr8.3:26610438-26610457 MS.gene87439:CDS 60.0%
GGCCACTCTCGCAGTTACCA+AGG + chr8.3:26610433-26610452 MS.gene87439:CDS 60.0%
! AGGCTACACGGACTGAGCCA+AGG + chr8.3:26610243-26610262 MS.gene87439:intron 60.0%
! GCCCTTGGTAACTGCGAGAG+TGG - chr8.3:26610438-26610457 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 26609687 26610527 26609687 ID=MS.gene87439
chr8.3 mRNA 26609687 26610527 26609687 ID=MS.gene87439.t1;Parent=MS.gene87439
chr8.3 exon 26609687 26609869 26609687 ID=MS.gene87439.t1.exon1;Parent=MS.gene87439.t1
chr8.3 CDS 26609687 26609869 26609687 ID=cds.MS.gene87439.t1;Parent=MS.gene87439.t1
chr8.3 exon 26610297 26610527 26610297 ID=MS.gene87439.t1.exon2;Parent=MS.gene87439.t1
chr8.3 CDS 26610297 26610527 26610297 ID=cds.MS.gene87439.t1;Parent=MS.gene87439.t1
Gene Sequence

>MS.gene87439

ATGGGAAACTCTACCACCCGAATTGCTTTTAGACATAATTCGAAGGGTGAGACATCTTGGCCTGTGCGTGCTGTTGTTGTATTTTGTGCTTCGGTATGTAAATCATGGAGGTCGGTCACAAAAGAGACTATTACGCCAACTCAGCAATGTGGAAGGATCACATTTCCTATTTCACTGATGCAGGTAATACATTCTTCACCCATTTTCGGGTCAAATTTTATTTTCCCTCAGGTTTTTTATGTTGTCTTTCCTTTATGTGTATAAATAGCCCGTTCCCTCTAATCATCCGATACAATGCTATATCAGAAGGAACAAAATAACTTCTACATTCCTTTTGTACTTAGATTTGGTGCAATGTAAGTATTTAATTTTAGTAACATTCCATCCCTTATAAGCTTCACAACTTGATATTTATACATATGACAGGTCAAATTTCTAGAGCACCAAGTTCACTATATACGACAGTCAACCTCCAGTATTTGATGAAACTTTTTCTCCGTCACCTGCACTGAAGGGAAAACATCCAATGTAAGATTCATACTTTGCAAGCCTATCAAGGCTACACGGACTGAGCCAAGGCCAGATCGATACCTTTATACTAAAAAACAAGGCTCTTCGATGGGATGAACAGTACAATGGTTGGTGCCCTGATGTCATGGGGCGTGTTAAAGTGACATCTGTGAAAAACCTTGACCTTGTAGCCATTGTTTATCGATCTTGTAATTTTTCTCGTGCAGATCGAAAATGGCCACTCTCGCAGTTACCAAGGGCTGGTAGAAAAGATGTATTCACCATGGACTACACTTATCCACTCTCTGCCTTCCTAGCCTTTGCCATCTGA

Protein sequence

>MS.gene87439.t1

MGNSTTRIAFRHNSKGETSWPVRAVVVFCASVCKSWRSVTKETITPTQQCGRITFPISLMQALRWDEQYNGWCPDVMGRVKVTSVKNLDLVAIVYRSCNFSRADRKWPLSQLPRAGRKDVFTMDYTYPLSAFLAFAI