AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene031137

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene031137.t1 MTR_1g064570 75.197 254 58 3 12 263 150 400 4.92e-137 392
MS.gene031137.t1 MTR_5g038260 54.924 264 107 4 3 263 129 383 2.39e-95 285
MS.gene031137.t1 MTR_5g038230 49.231 260 98 5 3 261 127 353 2.44e-76 236
MS.gene031137.t1 MTR_6g023955 93.333 90 6 0 4 93 63 152 1.81e-54 175
MS.gene031137.t1 MTR_6g023955 83.871 62 10 0 202 263 149 210 1.43e-32 119
MS.gene031137.t1 MTR_5g082780 44.037 218 96 4 16 230 36 230 6.13e-51 167
MS.gene031137.t1 MTR_1g108740 42.000 250 106 7 14 261 132 344 1.11e-45 156
MS.gene031137.t1 MTR_7g076100 43.750 256 113 10 15 263 69 300 1.80e-44 152
MS.gene031137.t1 MTR_7g077660 40.824 267 103 10 14 263 140 368 9.60e-42 147
MS.gene031137.t1 MTR_7g077620 39.535 258 119 11 14 261 140 370 3.56e-39 140
MS.gene031137.t1 MTR_7g077650 38.462 273 106 12 14 263 139 372 1.23e-37 136
MS.gene031137.t1 MTR_7g076110 37.931 261 123 11 15 263 80 313 6.40e-36 130
MS.gene031137.t1 MTR_5g082770 47.977 173 75 4 15 187 133 290 1.62e-35 128
MS.gene031137.t1 MTR_7g076130 36.552 145 73 4 33 170 16 148 2.21e-16 74.7
MS.gene031137.t1 MTR_3g114990 28.444 225 139 9 15 235 174 380 3.27e-14 72.0
MS.gene031137.t1 MTR_1g016150 46.154 78 26 2 122 199 175 236 1.24e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 48 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTATGTCGGCTTCGTATTT+TGG 0.208690 6.2:+8896870 MS.gene031137:CDS
AATGTTAAAGCTTGATAGTT+TGG 0.243559 6.2:+8896809 MS.gene031137:CDS
TAAAAGCTGGACAAAAGTTT+TGG 0.255927 6.2:+8896436 MS.gene031137:CDS
TATGTTGTAGTTGCAATTTA+TGG 0.256703 6.2:+8896390 MS.gene031137:CDS
TGGCTTGTAAGGAAATTTAT+TGG 0.269879 6.2:+8896675 MS.gene031137:CDS
TTCATATCAAATGGTCCATT+AGG 0.289459 6.2:-8896960 None:intergenic
CTAACTCTTCTATATATATC+TGG 0.344601 6.2:-8896303 None:intergenic
TCATATCAAATGGTCCATTA+GGG 0.347171 6.2:-8896959 None:intergenic
CGAAGTGTATAAGTTGGAAT+TGG 0.356208 6.2:+8896761 MS.gene031137:CDS
ATGTTAAAGCTTGATAGTTT+GGG 0.382709 6.2:+8896810 MS.gene031137:CDS
TCCTAATGTTGTTTCACCAT+GGG 0.397638 6.2:+8896599 MS.gene031137:CDS
AGGGAGACTTGTGGCTTGTA+AGG 0.407147 6.2:+8896664 MS.gene031137:CDS
AGCTATTATTCCCACTGAAA+TGG 0.434392 6.2:-8897074 None:intergenic
TTATGAATGTAACGTTCATA+AGG 0.448018 6.2:+8896329 MS.gene031137:CDS
TGTCTTGCTTTCATAAAAGC+TGG 0.450654 6.2:+8896423 MS.gene031137:CDS
AAAATCTATAATGTAAAAGA+TGG 0.455567 6.2:+8896981 MS.gene031137:CDS
TATCGGCAAATCCTACAATC+AGG 0.460348 6.2:+8896358 MS.gene031137:CDS
GTTCACACGGATGCCACCTT+CGG 0.463341 6.2:+8897037 MS.gene031137:CDS
AAGATTCGAAGTGTATAAGT+TGG 0.476468 6.2:+8896755 MS.gene031137:CDS
GCACCGGATCCTTACCCTAA+TGG 0.478062 6.2:+8896945 MS.gene031137:CDS
TAATCGTGAGGCCTGATTGT+AGG 0.479756 6.2:-8896369 None:intergenic
CCCCATGGTGAAACAACATT+AGG 0.481080 6.2:-8896600 None:intergenic
AGCATTGCAATTTCGAACAT+TGG 0.498979 6.2:+8897015 MS.gene031137:CDS
TCATCATCAGTGTCATCATC+GGG 0.504068 6.2:-8896702 None:intergenic
TTCATCATCAGTGTCATCAT+CGG 0.513248 6.2:-8896703 None:intergenic
GGTTCTTCCACCATTTCAGT+GGG 0.514018 6.2:+8897064 MS.gene031137:CDS
GGGTTCTTCCACCATTTCAG+TGG 0.530111 6.2:+8897063 MS.gene031137:CDS
TAATGTTGTTTCACCATGGG+GGG 0.533333 6.2:+8896602 MS.gene031137:CDS
CACGGATGCCACCTTCGGTG+TGG 0.534966 6.2:+8897042 MS.gene031137:CDS
TAGTCTATGCTGCGGGACGA+TGG 0.540068 6.2:+8896514 MS.gene031137:CDS
TCAAATGGTCCATTAGGGTA+AGG 0.543154 6.2:-8896954 None:intergenic
TTCCTAATGTTGTTTCACCA+TGG 0.544368 6.2:+8896598 MS.gene031137:CDS
ACGGATGCCACCTTCGGTGT+GGG 0.551054 6.2:+8897043 MS.gene031137:CDS
TGATTATTTCGAAGAAGCAC+CGG 0.565311 6.2:+8896929 MS.gene031137:CDS
GGTCCATTAGGGTAAGGATC+CGG 0.584997 6.2:-8896948 None:intergenic
GGAAGAACCCACACCGAAGG+TGG 0.585668 6.2:-8897050 None:intergenic
AAAGGGTTAGTCTATGCTGC+GGG 0.586027 6.2:+8896507 MS.gene031137:CDS
TAGTGATTCTGTATCTATGT+CGG 0.590343 6.2:+8896857 MS.gene031137:CDS
CCTAATGTTGTTTCACCATG+GGG 0.597547 6.2:+8896600 MS.gene031137:CDS
ATTTCGAACATTGGTTCACA+CGG 0.602276 6.2:+8897024 MS.gene031137:CDS
GATAGTAACTTGCCTAGTAG+TGG 0.603948 6.2:+8896726 MS.gene031137:CDS
TATTATTCCCACTGAAATGG+TGG 0.613749 6.2:-8897071 None:intergenic
TAAAGGGTTAGTCTATGCTG+CGG 0.625231 6.2:+8896506 MS.gene031137:CDS
AATCATTGGAGGGAGACTTG+TGG 0.640759 6.2:+8896655 MS.gene031137:CDS
GGTGGAAGAACCCACACCGA+AGG 0.641630 6.2:-8897053 None:intergenic
TTGGAATTGGATCTTCAAAG+TGG 0.643699 6.2:+8896774 MS.gene031137:CDS
CTAATGTTGTTTCACCATGG+GGG 0.657132 6.2:+8896601 MS.gene031137:CDS
GCAACTACAACATAATCGTG+AGG 0.708433 6.2:-8896381 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAATCTATAATGTAAAAGA+TGG + chr6.2:8896981-8897000 MS.gene031137:CDS 15.0%
!!! TTATAGATTTTCATATCAAA+TGG - chr6.2:8896972-8896991 None:intergenic 15.0%
!!! AGCGATGTTATATTTTATAA+AGG + chr6.2:8896489-8896508 MS.gene031137:CDS 20.0%
!!! GCGATGTTATATTTTATAAA+GGG + chr6.2:8896490-8896509 MS.gene031137:CDS 20.0%
!!! TTTTGGTAATTATCTACAAA+AGG + chr6.2:8896887-8896906 MS.gene031137:CDS 20.0%
! CTAACTCTTCTATATATATC+TGG - chr6.2:8896306-8896325 None:intergenic 25.0%
! TATGTTGTAGTTGCAATTTA+TGG + chr6.2:8896390-8896409 MS.gene031137:CDS 25.0%
! TTATGAATGTAACGTTCATA+AGG + chr6.2:8896329-8896348 MS.gene031137:CDS 25.0%
!! AATGTTAAAGCTTGATAGTT+TGG + chr6.2:8896809-8896828 MS.gene031137:CDS 25.0%
!! AGCATATTTTGTGAAATCAT+TGG + chr6.2:8896641-8896660 MS.gene031137:CDS 25.0%
!! ATATTTTGTGAAATCATTGG+AGG + chr6.2:8896644-8896663 MS.gene031137:CDS 25.0%
!! ATGTTAAAGCTTGATAGTTT+GGG + chr6.2:8896810-8896829 MS.gene031137:CDS 25.0%
!! TATTTTGTGAAATCATTGGA+GGG + chr6.2:8896645-8896664 MS.gene031137:CDS 25.0%
!! TTTTGATATTTGTAACTCGA+AGG + chr6.2:8896551-8896570 MS.gene031137:CDS 25.0%
!!! CGTTCATAAGGTTATTTTAT+CGG + chr6.2:8896341-8896360 MS.gene031137:CDS 25.0%
AAGATTCGAAGTGTATAAGT+TGG + chr6.2:8896755-8896774 MS.gene031137:CDS 30.0%
TAGTGATTCTGTATCTATGT+CGG + chr6.2:8896857-8896876 MS.gene031137:CDS 30.0%
TCATATCAAATGGTCCATTA+GGG - chr6.2:8896962-8896981 None:intergenic 30.0%
TTCATATCAAATGGTCCATT+AGG - chr6.2:8896963-8896982 None:intergenic 30.0%
! AATCTTTTAGTACCACTACT+AGG - chr6.2:8896741-8896760 None:intergenic 30.0%
! TAAAAGCTGGACAAAAGTTT+TGG + chr6.2:8896436-8896455 MS.gene031137:CDS 30.0%
! TGGCTTGTAAGGAAATTTAT+TGG + chr6.2:8896675-8896694 MS.gene031137:CDS 30.0%
!!! GGAGACAATGTTTTATTTGT+GGG + chr6.2:8896831-8896850 MS.gene031137:CDS 30.0%
AGCATTGCAATTTCGAACAT+TGG + chr6.2:8897015-8897034 MS.gene031137:CDS 35.0%
TGTCTTGCTTTCATAAAAGC+TGG + chr6.2:8896423-8896442 MS.gene031137:CDS 35.0%
TTCATCATCAGTGTCATCAT+CGG - chr6.2:8896706-8896725 None:intergenic 35.0%
TTGGAATTGGATCTTCAAAG+TGG + chr6.2:8896774-8896793 MS.gene031137:CDS 35.0%
! CGAAGTGTATAAGTTGGAAT+TGG + chr6.2:8896761-8896780 MS.gene031137:CDS 35.0%
! TGATTATTTCGAAGAAGCAC+CGG + chr6.2:8896929-8896948 MS.gene031137:CDS 35.0%
!! ATTTCGAACATTGGTTCACA+CGG + chr6.2:8897024-8897043 MS.gene031137:CDS 35.0%
!! TCCTAATGTTGTTTCACCAT+GGG + chr6.2:8896599-8896618 MS.gene031137:CDS 35.0%
!! TTCCTAATGTTGTTTCACCA+TGG + chr6.2:8896598-8896617 MS.gene031137:CDS 35.0%
!!! GGGAGACAATGTTTTATTTG+TGG + chr6.2:8896830-8896849 MS.gene031137:CDS 35.0%
GCAACTACAACATAATCGTG+AGG - chr6.2:8896384-8896403 None:intergenic 40.0%
TATCGGCAAATCCTACAATC+AGG + chr6.2:8896358-8896377 MS.gene031137:CDS 40.0%
TCAAATGGTCCATTAGGGTA+AGG - chr6.2:8896957-8896976 None:intergenic 40.0%
TCATCATCAGTGTCATCATC+GGG - chr6.2:8896705-8896724 None:intergenic 40.0%
! GATAGTAACTTGCCTAGTAG+TGG + chr6.2:8896726-8896745 MS.gene031137:CDS 40.0%
!! CCTAATGTTGTTTCACCATG+GGG + chr6.2:8896600-8896619 MS.gene031137:CDS 40.0%
!! CTAATGTTGTTTCACCATGG+GGG + chr6.2:8896601-8896620 MS.gene031137:CDS 40.0%
!! TAAAGGGTTAGTCTATGCTG+CGG + chr6.2:8896506-8896525 MS.gene031137:CDS 40.0%
!! TAATGTTGTTTCACCATGGG+GGG + chr6.2:8896602-8896621 MS.gene031137:CDS 40.0%
!!! TCTATGTCGGCTTCGTATTT+TGG + chr6.2:8896870-8896889 MS.gene031137:CDS 40.0%
AATCATTGGAGGGAGACTTG+TGG + chr6.2:8896655-8896674 MS.gene031137:CDS 45.0%
CCCCATGGTGAAACAACATT+AGG - chr6.2:8896603-8896622 None:intergenic 45.0%
GGTTCTTCCACCATTTCAGT+GGG + chr6.2:8897064-8897083 MS.gene031137:CDS 45.0%
TAATCGTGAGGCCTGATTGT+AGG - chr6.2:8896372-8896391 None:intergenic 45.0%
!! AAAGGGTTAGTCTATGCTGC+GGG + chr6.2:8896507-8896526 MS.gene031137:CDS 45.0%
GGGTTCTTCCACCATTTCAG+TGG + chr6.2:8897063-8897082 MS.gene031137:CDS 50.0%
GGTCCATTAGGGTAAGGATC+CGG - chr6.2:8896951-8896970 None:intergenic 50.0%
TGAGCAAAATCATCCCCCCA+TGG - chr6.2:8896618-8896637 None:intergenic 50.0%
! AGGGAGACTTGTGGCTTGTA+AGG + chr6.2:8896664-8896683 MS.gene031137:CDS 50.0%
GCACCGGATCCTTACCCTAA+TGG + chr6.2:8896945-8896964 MS.gene031137:CDS 55.0%
GTTCACACGGATGCCACCTT+CGG + chr6.2:8897037-8897056 MS.gene031137:CDS 55.0%
TAGTCTATGCTGCGGGACGA+TGG + chr6.2:8896514-8896533 MS.gene031137:CDS 55.0%
GGAAGAACCCACACCGAAGG+TGG - chr6.2:8897053-8897072 None:intergenic 60.0%
GGTGGAAGAACCCACACCGA+AGG - chr6.2:8897056-8897075 None:intergenic 60.0%
! ACGGATGCCACCTTCGGTGT+GGG + chr6.2:8897043-8897062 MS.gene031137:CDS 60.0%
CACGGATGCCACCTTCGGTG+TGG + chr6.2:8897042-8897061 MS.gene031137:CDS 65.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 8896300 8897091 8896300 ID=MS.gene031137
chr6.2 mRNA 8896300 8897091 8896300 ID=MS.gene031137.t1;Parent=MS.gene031137
chr6.2 exon 8896300 8897091 8896300 ID=MS.gene031137.t1.exon1;Parent=MS.gene031137.t1
chr6.2 CDS 8896300 8897091 8896300 ID=cds.MS.gene031137.t1;Parent=MS.gene031137.t1
Gene Sequence

>MS.gene031137

ATGCCAGATATATATAGAAGAGTTAGATATTATGAATGTAACGTTCATAAGGTTATTTTATCGGCAAATCCTACAATCAGGCCTCACGATTATGTTGTAGTTGCAATTTATGGTATGCGTAAATGTCTTGCTTTCATAAAAGCTGGACAAAAGTTTTGGACTTACGTTGATGACGACTATTTTTGCTTCAGCGATGTTATATTTTATAAAGGGTTAGTCTATGCTGCGGGACGATGGAATAACATTGTCTCTTTTGATATTTGTAACTCGAAGGATTCTTTTGATTGTGAGAAGATCATTCCTAATGTTGTTTCACCATGGGGGGATGATTTTGCTCATCGAGCATATTTTGTGAAATCATTGGAGGGAGACTTGTGGCTTGTAAGGAAATTTATTGGTTTTCCCGATGATGACACTGATGATGAAGATAGTAACTTGCCTAGTAGTGGTACTAAAAGATTCGAAGTGTATAAGTTGGAATTGGATCTTCAAAGTGGTAAGCTTATACAAATGTTAAAGCTTGATAGTTTGGGAGACAATGTTTTATTTGTGGGTGATAGTGATTCTGTATCTATGTCGGCTTCGTATTTTGGTAATTATCTACAAAAGGATTCAATTTATTACACTGATGATTATTTCGAAGAAGCACCGGATCCTTACCCTAATGGACCATTTGATATGAAAATCTATAATGTAAAAGATGGAAGCTTTAGTAAGCATTGCAATTTCGAACATTGGTTCACACGGATGCCACCTTCGGTGTGGGTTCTTCCACCATTTCAGTGGGAATAA
Protein sequence

>MS.gene031137.t1

MPDIYRRVRYYECNVHKVILSANPTIRPHDYVVVAIYGMRKCLAFIKAGQKFWTYVDDDYFCFSDVIFYKGLVYAAGRWNNIVSFDICNSKDSFDCEKIIPNVVSPWGDDFAHRAYFVKSLEGDLWLVRKFIGFPDDDTDDEDSNLPSSGTKRFEVYKLELDLQSGKLIQMLKLDSLGDNVLFVGDSDSVSMSASYFGNYLQKDSIYYTDDYFEEAPDPYPNGPFDMKIYNVKDGSFSKHCNFEHWFTRMPPSVWVLPPFQWE