AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene53311


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene53311.t1 MTR_4g027800 87.931 116 14 0 1 116 1 116 2.52e-68 201
MS.gene53311.t1 MTR_4g027840 88.696 115 13 0 1 115 1 115 2.75e-68 201
MS.gene53311.t1 MTR_4g428370 84.483 116 18 0 1 116 58 173 2.25e-66 198
MS.gene53311.t1 MTR_4g029390 64.957 117 38 2 1 115 1 116 7.98e-47 146
MS.gene53311.t1 MTR_4g029350 64.957 117 38 2 1 115 1 116 1.01e-45 144
MS.gene53311.t1 MTR_4g029210 47.321 112 59 0 1 112 1 112 1.64e-30 105
MS.gene53311.t1 MTR_7g072930 47.321 112 56 2 4 113 7 117 9.18e-30 104
MS.gene53311.t1 MTR_4g028190 46.491 114 59 2 1 112 5 118 1.68e-29 103
MS.gene53311.t1 MTR_7g072830 39.474 114 67 1 4 115 7 120 9.82e-27 95.9
MS.gene53311.t1 MTR_7g073150 45.714 105 53 3 12 113 14 117 6.37e-26 94.4
MS.gene53311.t1 MTR_4g028180 40.678 118 63 3 5 115 9 126 4.59e-25 92.0
MS.gene53311.t1 MTR_7g073170 41.593 113 62 3 4 114 7 117 6.13e-25 91.7
MS.gene53311.t1 MTR_7g072730 39.286 112 66 2 4 113 7 118 9.28e-25 92.4
MS.gene53311.t1 MTR_4g028310 39.496 119 69 1 1 116 1 119 1.73e-24 90.9
MS.gene53311.t1 MTR_2g062600 41.739 115 65 2 1 114 1 114 3.46e-24 89.4
MS.gene53311.t1 MTR_7g073120 38.938 113 67 1 1 111 5 117 3.86e-22 85.5
MS.gene53311.t1 MTR_7g072900 44.643 112 57 4 4 112 7 116 1.63e-21 82.8
MS.gene53311.t1 MTR_7g072993 43.750 112 58 3 4 111 7 117 5.19e-21 82.0
MS.gene53311.t1 MTR_4g028250 38.983 118 69 2 1 115 1 118 5.53e-20 79.0
MS.gene53311.t1 MTR_3g467100 36.607 112 70 1 5 115 3 114 2.16e-19 77.0
MS.gene53311.t1 MTR_7g072960 38.739 111 53 2 4 113 7 103 1.73e-18 75.5
MS.gene53311.t1 MTR_7g072980 38.393 112 65 3 4 112 7 117 4.84e-18 74.3
MS.gene53311.t1 MTR_7g073130 38.739 111 64 4 4 112 7 115 1.01e-17 73.2
MS.gene53311.t1 MTR_1g040335 41.964 112 62 2 5 114 8 118 3.91e-17 71.6
MS.gene53311.t1 MTR_7g073100 38.053 113 63 2 4 112 7 116 8.88e-17 71.2
MS.gene53311.t1 MTR_7g451500 36.957 92 57 1 24 114 7 98 1.51e-16 69.3
MS.gene53311.t1 MTR_7g073060 37.719 114 68 3 4 115 7 119 2.53e-16 69.3
MS.gene53311.t1 MTR_4g028360 34.513 113 71 3 4 114 1 112 5.07e-16 68.9
MS.gene53311.t1 MTR_7g072810 40.000 110 58 3 4 111 7 110 1.24e-15 67.8
MS.gene53311.t1 MTR_3g056640 34.188 117 71 3 4 115 7 122 8.06e-15 65.9
MS.gene53311.t1 MTR_3g046530 32.203 118 72 4 4 115 7 122 7.25e-14 63.2
MS.gene53311.t1 MTR_7g073030 35.455 110 68 3 4 111 7 115 9.78e-14 63.9
MS.gene53311.t1 MTR_3g046515 33.913 115 66 5 4 110 7 119 1.15e-13 62.8
MS.gene53311.t1 MTR_3g046540 33.913 115 66 5 4 110 7 119 5.52e-13 60.8
MS.gene53311.t1 MTR_3g464130 37.778 90 51 3 25 110 18 106 9.47e-13 60.1
MS.gene53311.t1 MTR_3g464110 40.244 82 44 3 33 110 92 172 3.10e-11 57.4
MS.gene53311.t1 MTR_7g072760 30.172 116 77 2 4 115 7 122 3.92e-11 56.2
MS.gene53311.t1 MTR_7g072987 47.059 68 33 2 25 90 57 123 8.13e-11 56.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene53311.t1 AT5G59320 60.185 108 41 1 8 115 10 115 1.90e-38 125
MS.gene53311.t1 AT5G59310 60.185 108 38 2 8 115 10 112 1.04e-36 121
MS.gene53311.t1 AT2G38540 61.207 116 39 6 4 115 5 118 1.42e-36 120
MS.gene53311.t1 AT2G38530 60.000 115 42 4 4 115 5 118 9.38e-34 114
MS.gene53311.t1 AT3G51600 53.043 115 50 4 4 115 5 118 2.24e-30 105
MS.gene53311.t1 AT3G51590 47.273 110 55 3 6 114 8 115 1.35e-28 100
MS.gene53311.t1 AT2G15050 42.373 118 62 4 4 115 5 122 2.56e-25 92.4
MS.gene53311.t1 AT5G01870 43.860 114 56 4 9 115 4 116 3.62e-25 92.0
MS.gene53311.t1 AT4G33355 48.387 93 48 0 23 115 27 119 1.93e-24 90.1
MS.gene53311.t1 AT4G33355 49.438 89 45 0 23 111 27 115 7.44e-24 88.6
MS.gene53311.t1 AT2G15050 42.241 116 61 4 4 113 5 120 7.84e-24 89.0
MS.gene53311.t1 AT2G15050 42.202 109 59 3 4 108 5 113 4.25e-23 86.7
MS.gene53311.t1 AT3G08770 46.392 97 48 3 22 115 18 113 2.96e-21 82.0
MS.gene53311.t1 AT3G08770 47.312 93 45 3 22 111 18 109 3.18e-20 79.3
MS.gene53311.t1 AT2G18370 36.364 110 68 2 6 114 7 115 1.89e-18 74.7
MS.gene53311.t1 AT2G15325 35.165 91 56 2 27 115 31 120 1.25e-12 60.1

Find 32 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTGCTGCTGGTGCTATTTC+TGG 0.136175 4.3:+70942497 MS.gene53311:CDS
CCATGCATTGCATATCTTAG+AGG 0.320070 4.3:+70942374 MS.gene53311:CDS
GCTATTTCTGGTTTGAATAC+AGG 0.359485 4.3:+70942509 MS.gene53311:CDS
CCATCTCCAGCATGCTGTGC+TGG 0.375274 4.3:+70942407 MS.gene53311:CDS
ATCTCATGTGGAACAGTAAC+TGG 0.426922 4.3:+70942341 MS.gene53311:CDS
TTGCAAGCAGCCTGACGGTC+AGG 0.429945 4.3:-70942464 None:intergenic
CACCACCACACCTGACCGTC+AGG 0.431390 4.3:+70942454 MS.gene53311:CDS
GTCAGGTGTGGTGGTGGCGG+CGG 0.461362 4.3:-70942447 None:intergenic
GTGCATGATTGTTGCACCTA+TGG 0.467928 4.3:+70942307 MS.gene53311:CDS
ACGGTCAGGTGTGGTGGTGG+CGG 0.483285 4.3:-70942450 None:intergenic
TTCACTCCAGCACAGCATGC+TGG 0.485039 4.3:-70942413 None:intergenic
AACTGTTTGAAAAGTGCTGC+TGG 0.487070 4.3:+70942485 MS.gene53311:CDS
TCTTCTCTCCCTGGCAAATG+TGG 0.490642 4.3:+70942539 MS.gene53311:CDS
GCATATCTTAGAGGTGGTGC+TGG 0.504129 4.3:+70942383 MS.gene53311:CDS
GTGGAGGTACTGATCTTGTA+AGG 0.508470 4.3:-70942572 None:intergenic
ATGTTAACACCACATTTGCC+AGG 0.518576 4.3:-70942548 None:intergenic
CTGACGGTCAGGTGTGGTGG+TGG 0.525863 4.3:-70942453 None:intergenic
GGCGCAGCTTCTTCTCTCCC+TGG 0.542091 4.3:+70942530 MS.gene53311:CDS
CCAGCACAGCATGCTGGAGA+TGG 0.550113 4.3:-70942407 None:intergenic
AACATACGTAGCACAGTTGG+TGG 0.554041 4.3:-70942591 None:intergenic
GAAAACAATGGCAAGCATCA+AGG 0.555387 4.3:+70942262 None:intergenic
AGCCTGACGGTCAGGTGTGG+TGG 0.572781 4.3:-70942456 None:intergenic
TTGTTATACTTACAGCATCA+GGG 0.577540 4.3:+70942972 MS.gene53311:intron
GAGATTGCAGCATCTGCCAT+AGG 0.577723 4.3:-70942323 None:intergenic
CCTCTAAGATATGCAATGCA+TGG 0.588805 4.3:-70942374 None:intergenic
AGCAGCCTGACGGTCAGGTG+TGG 0.606881 4.3:-70942459 None:intergenic
AACAGTTGCAAGCAGCCTGA+CGG 0.612786 4.3:-70942469 None:intergenic
ATAAACATACGTAGCACAGT+TGG 0.615719 4.3:-70942594 None:intergenic
TGCATTGCATATCTTAGAGG+TGG 0.623803 4.3:+70942377 MS.gene53311:CDS
ATACGTAGCACAGTTGGTGG+AGG 0.639269 4.3:-70942588 None:intergenic
TGTTAACACCACATTTGCCA+GGG 0.642773 4.3:-70942547 None:intergenic
GCAGATGCTGCAATCTCATG+TGG 0.654132 4.3:+70942329 MS.gene53311:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAAATTTTATTAAAAAAATA+TGG - chr4.3:70942844-70942863 None:intergenic 0.0%
!!! TAAATCATTCTTTTAATTTT+AGG + chr4.3:70942734-70942753 MS.gene53311:intron 10.0%
!!! TTATATTATTCAATGTTTTT+GGG + chr4.3:70942863-70942882 MS.gene53311:intron 10.0%
!!! TTTATATTATTCAATGTTTT+TGG + chr4.3:70942862-70942881 MS.gene53311:intron 10.0%
!!! AAAATTTAGTTGTTTAACTT+TGG - chr4.3:70942691-70942710 None:intergenic 15.0%
!!! TATAAATTCTTTTTTGCTTA+AGG + chr4.3:70942807-70942826 MS.gene53311:intron 15.0%
!! TAGAAAATTAATCACTGACT+AGG + chr4.3:70942939-70942958 MS.gene53311:intron 25.0%
!!! CTACGAATCTACTTTTTTAT+TGG + chr4.3:70942907-70942926 MS.gene53311:intron 25.0%
!!! TTTTATCCTCATTTTTCAAG+TGG + chr4.3:70942637-70942656 MS.gene53311:intron 25.0%
TTGTTATACTTACAGCATCA+GGG + chr4.3:70942972-70942991 MS.gene53311:intron 30.0%
! TTACCATTTGAGATTGTTGA+GGG + chr4.3:70942711-70942730 MS.gene53311:intron 30.0%
! TTTACCATTTGAGATTGTTG+AGG + chr4.3:70942710-70942729 MS.gene53311:intron 30.0%
! TTTGTTATACTTACAGCATC+AGG + chr4.3:70942971-70942990 MS.gene53311:intron 30.0%
ACTAGACCACTTGAAAAATG+AGG - chr4.3:70942646-70942665 None:intergenic 35.0%
ATAAACATACGTAGCACAGT+TGG - chr4.3:70942597-70942616 None:intergenic 35.0%
TTACCCTCAACAATCTCAAA+TGG - chr4.3:70942717-70942736 None:intergenic 35.0%
!! GCTATTTCTGGTTTGAATAC+AGG + chr4.3:70942509-70942528 MS.gene53311:CDS 35.0%
ATCTCATGTGGAACAGTAAC+TGG + chr4.3:70942341-70942360 MS.gene53311:CDS 40.0%
ATGTTAACACCACATTTGCC+AGG - chr4.3:70942551-70942570 None:intergenic 40.0%
CCATGCATTGCATATCTTAG+AGG + chr4.3:70942374-70942393 MS.gene53311:CDS 40.0%
TGCATTGCATATCTTAGAGG+TGG + chr4.3:70942377-70942396 MS.gene53311:CDS 40.0%
TGTTAACACCACATTTGCCA+GGG - chr4.3:70942550-70942569 None:intergenic 40.0%
!! AACTGTTTGAAAAGTGCTGC+TGG + chr4.3:70942485-70942504 MS.gene53311:CDS 40.0%
!! CCTCTAAGATATGCAATGCA+TGG - chr4.3:70942377-70942396 None:intergenic 40.0%
AACATACGTAGCACAGTTGG+TGG - chr4.3:70942594-70942613 None:intergenic 45.0%
GTGCATGATTGTTGCACCTA+TGG + chr4.3:70942307-70942326 MS.gene53311:CDS 45.0%
!! GTGGAGGTACTGATCTTGTA+AGG - chr4.3:70942575-70942594 None:intergenic 45.0%
AACAGTTGCAAGCAGCCTGA+CGG - chr4.3:70942472-70942491 None:intergenic 50.0%
GAGATTGCAGCATCTGCCAT+AGG - chr4.3:70942326-70942345 None:intergenic 50.0%
GCAGATGCTGCAATCTCATG+TGG + chr4.3:70942329-70942348 MS.gene53311:CDS 50.0%
GCATATCTTAGAGGTGGTGC+TGG + chr4.3:70942383-70942402 MS.gene53311:CDS 50.0%
TCTTCTCTCCCTGGCAAATG+TGG + chr4.3:70942539-70942558 MS.gene53311:CDS 50.0%
!! AGTGCTGCTGGTGCTATTTC+TGG + chr4.3:70942497-70942516 MS.gene53311:CDS 50.0%
!! ATACGTAGCACAGTTGGTGG+AGG - chr4.3:70942591-70942610 None:intergenic 50.0%
TTCACTCCAGCACAGCATGC+TGG - chr4.3:70942416-70942435 None:intergenic 55.0%
CCAGCACAGCATGCTGGAGA+TGG - chr4.3:70942410-70942429 None:intergenic 60.0%
CCATCTCCAGCATGCTGTGC+TGG + chr4.3:70942407-70942426 MS.gene53311:CDS 60.0%
TTGCAAGCAGCCTGACGGTC+AGG - chr4.3:70942467-70942486 None:intergenic 60.0%
AGCAGCCTGACGGTCAGGTG+TGG - chr4.3:70942462-70942481 None:intergenic 65.0%
AGCCTGACGGTCAGGTGTGG+TGG - chr4.3:70942459-70942478 None:intergenic 65.0%
CACCACCACACCTGACCGTC+AGG + chr4.3:70942454-70942473 MS.gene53311:CDS 65.0%
CTGACGGTCAGGTGTGGTGG+TGG - chr4.3:70942456-70942475 None:intergenic 65.0%
GGCGCAGCTTCTTCTCTCCC+TGG + chr4.3:70942530-70942549 MS.gene53311:CDS 65.0%
!! ACGGTCAGGTGTGGTGGTGG+CGG - chr4.3:70942453-70942472 None:intergenic 65.0%
!! GTCAGGTGTGGTGGTGGCGG+CGG - chr4.3:70942450-70942469 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 70942269 70942999 70942269 ID=MS.gene53311
chr4.3 mRNA 70942269 70942999 70942269 ID=MS.gene53311.t1;Parent=MS.gene53311
chr4.3 exon 70942269 70942606 70942269 ID=MS.gene53311.t1.exon1;Parent=MS.gene53311.t1
chr4.3 CDS 70942269 70942606 70942269 ID=cds.MS.gene53311.t1;Parent=MS.gene53311.t1
chr4.3 exon 70942987 70942999 70942987 ID=MS.gene53311.t1.exon2;Parent=MS.gene53311.t1
chr4.3 CDS 70942987 70942999 70942987 ID=cds.MS.gene53311.t1;Parent=MS.gene53311.t1
Gene Sequence

>MS.gene53311

ATGGCAAGCATCAAGGTAGCATGTGTTGTTTTGATGATGTGCATGATTGTTGCACCTATGGCAGATGCTGCAATCTCATGTGGAACAGTAACTGGTGCTCTTTCTCCATGCATTGCATATCTTAGAGGTGGTGCTGGTCCATCTCCAGCATGCTGTGCTGGAGTGAAGAGACTTAACGCCGCCGCCACCACCACACCTGACCGTCAGGCTGCTTGCAACTGTTTGAAAAGTGCTGCTGGTGCTATTTCTGGTTTGAATACAGGCGCAGCTTCTTCTCTCCCTGGCAAATGTGGTGTTAACATTCCTTACAAGATCAGTACCTCCACCAACTGTGCTACGTATGTTTATCTAACTTCAAACTTTCACTTTTTTATCCTCATTTTTCAAGTGGTCTAGTATTCATAACATAACAGAAGTAACCAAAGTTAAACAACTAAATTTTTTACCATTTGAGATTGTTGAGGGTAAATCATTCTTTTAATTTTAGGATCACTTTATAGATATGCTATTTTATTTTCTATAGTACGTAGTAAAATTTTATAAATTCTTTTTTGCTTAAGGATGTTTTAATACCATATTTTTTTAATAAAATTTTTATATTATTCAATGTTTTTGGGAATTTTTTTGAGATTAAGTCACTACGAATCTACTTTTTTATTGGTCTATAAAATAGAAAATTAATCACTGACTAGGTTTTTTTGTTTTGTTATACTTACAGCATCAGGGCATGA

Protein sequence

>MS.gene53311.t1

MASIKVACVVLMMCMIVAPMADAAISCGTVTGALSPCIAYLRGGAGPSPACCAGVKRLNAAATTTPDRQAACNCLKSAAGAISGLNTGAASSLPGKCGVNIPYKISTSTNCATIRA