AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene45479


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene45479.t1 MTR_2g096610 97.297 148 4 0 1 148 1 148 1.57e-100 285
MS.gene45479.t1 MTR_4g063280 90.909 132 11 1 18 148 14 145 1.36e-79 232
MS.gene45479.t1 MTR_4g071150 86.842 152 16 2 1 148 1 152 1.14e-78 229
MS.gene45479.t1 MTR_4g064005 87.333 150 15 2 1 148 1 148 4.55e-78 228
MS.gene45479.t1 MTR_2g096570 87.023 131 13 1 22 148 23 153 1.28e-76 224
MS.gene45479.t1 MTR_4g064967 91.339 127 9 1 22 148 24 148 1.50e-76 224
MS.gene45479.t1 MTR_4g063410 84.000 150 20 2 1 148 1 148 6.11e-75 220
MS.gene45479.t1 MTR_7g113160 81.061 132 25 0 9 140 13 144 2.27e-74 218
MS.gene45479.t1 MTR_8g086640 89.394 132 12 1 1 130 1 132 7.83e-72 212
MS.gene45479.t1 MTR_7g093910 73.810 126 31 1 2 127 4 127 1.05e-60 184
MS.gene45479.t1 MTR_7g108320 74.400 125 29 1 3 127 6 127 3.64e-60 182
MS.gene45479.t1 MTR_7g114060 73.810 126 29 2 3 127 2 124 1.22e-59 181
MS.gene45479.t1 MTR_7g114040 73.810 126 29 2 3 127 2 124 1.22e-59 181
MS.gene45479.t1 MTR_2g082510 78.378 111 24 0 17 127 11 121 5.13e-59 179
MS.gene45479.t1 MTR_2g082220 79.630 108 22 0 20 127 14 121 2.02e-58 177
MS.gene45479.t1 MTR_6g005150 65.354 127 30 3 22 147 26 139 1.71e-50 158
MS.gene45479.t1 MTR_7g114050 61.029 136 42 2 5 140 4 128 4.62e-47 149
MS.gene45479.t1 MTR_4g063300 74.286 105 22 1 43 147 10 109 1.88e-45 144
MS.gene45479.t1 MTR_1g011750 60.177 113 43 2 19 130 23 134 6.88e-37 123
MS.gene45479.t1 MTR_1g011850 60.177 113 43 2 19 130 23 134 6.88e-37 123
MS.gene45479.t1 MTR_1g114050 57.983 119 48 2 9 126 10 127 9.52e-37 123
MS.gene45479.t1 MTR_1g071040 62.500 104 37 2 24 126 28 130 2.59e-35 119
MS.gene45479.t1 MTR_1g069770 48.958 96 48 1 43 137 9 104 4.63e-25 92.4
MS.gene45479.t1 MTR_4g048490 43.810 105 30 2 22 126 26 101 8.60e-17 71.2
MS.gene45479.t1 MTR_7g010440 70.588 51 15 0 76 126 122 172 1.52e-16 74.7
MS.gene45479.t1 MTR_4g005910 74.419 43 11 0 85 127 4 46 2.31e-16 68.9
MS.gene45479.t1 MTR_7g027610 41.818 110 38 3 18 126 10 94 1.02e-15 68.9
MS.gene45479.t1 MTR_2g096590 75.000 40 10 0 108 147 12 51 6.54e-14 62.4
MS.gene45479.t1 MTR_0653s0030 54.545 55 25 0 53 107 43 97 3.49e-12 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene45479.t1 AT5G02560 82.353 153 22 2 1 148 1 153 9.32e-80 233
MS.gene45479.t1 AT5G27670 77.551 147 32 1 2 148 5 150 5.26e-76 223
MS.gene45479.t1 AT5G02560 71.186 177 22 3 1 148 1 177 9.44e-75 221
MS.gene45479.t1 AT5G59870 72.667 150 39 1 1 148 1 150 5.48e-73 215
MS.gene45479.t1 AT1G51060 80.180 111 22 0 17 127 11 121 2.29e-60 182
MS.gene45479.t1 AT1G08880 72.800 125 30 1 7 127 3 127 9.11e-59 179
MS.gene45479.t1 AT4G27230 77.477 111 25 0 17 127 11 121 1.28e-58 178
MS.gene45479.t1 AT4G27230 77.477 111 25 0 17 127 11 121 1.28e-58 178
MS.gene45479.t1 AT5G54640 78.378 111 24 0 17 127 11 121 1.65e-58 178
MS.gene45479.t1 AT1G54690 73.770 122 28 1 10 127 6 127 2.29e-58 178
MS.gene45479.t1 AT3G20670 77.477 111 25 0 17 127 11 121 2.84e-58 177
MS.gene45479.t1 AT2G38810 59.292 113 44 2 15 126 21 132 7.64e-37 123
MS.gene45479.t1 AT2G38810 59.292 113 44 2 15 126 21 132 7.64e-37 123
MS.gene45479.t1 AT2G38810 59.292 113 44 2 15 126 21 132 7.64e-37 123
MS.gene45479.t1 AT2G38810 59.292 113 44 2 15 126 21 132 7.64e-37 123
MS.gene45479.t1 AT1G52740 62.857 105 37 2 23 126 27 130 1.35e-35 120
MS.gene45479.t1 AT3G54560 58.716 109 43 2 23 130 29 136 1.92e-34 117
MS.gene45479.t1 AT3G54560 58.716 109 43 2 23 130 29 136 1.92e-34 117
MS.gene45479.t1 AT4G13570 48.913 92 45 2 30 120 28 118 1.65e-20 81.3
MS.gene45479.t1 AT4G13570 48.352 91 45 2 31 120 35 124 4.62e-20 80.5

Find 47 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTAAGCCTTCTTTGGAGATT+TGG 0.253652 2.1:+6997170 None:intergenic
GAAGCCTTCTCATTCTTCTT+AGG 0.258486 2.1:+6997222 None:intergenic
AACTAAATCTAAGCCTTCTT+TGG 0.259152 2.1:+6997162 None:intergenic
TTCTTCTTAGGTAAAAGAAT+TGG 0.279364 2.1:+6997234 None:intergenic
CTTGTCACCGCCTTCTTCCT+TGG 0.286829 2.1:+6997635 None:intergenic
ACCAGCTCCTTTCTTCGTCT+TGG 0.348361 2.1:+6997673 None:intergenic
GGTAGCCTTGGATGGAGATT+TGG 0.359896 2.1:+6997191 None:intergenic
AAAAGAATTGGGTTGATGTT+TGG 0.366899 2.1:+6997246 None:intergenic
CTTTGGAGATTTGGTAGCCT+TGG 0.379306 2.1:+6997179 None:intergenic
CAATTTCCAGTTGGAAGAAT+CGG 0.397925 2.1:-6997593 MS.gene45479:CDS
AGAACAGCTGCAAGATAAAC+AGG 0.409350 2.1:+6997521 None:intergenic
TCTTCTTAGGTAAAAGAATT+GGG 0.411045 2.1:+6997235 None:intergenic
TTGTGTTCAGGTTCTTGAAT+TGG 0.420978 2.1:-6997397 MS.gene45479:intron
TACCGACCGATTCTTCCAAC+TGG 0.449917 2.1:+6997587 None:intergenic
TACGCTCAGCGTGTTGGTAC+TGG 0.452334 2.1:-6997548 MS.gene45479:CDS
CACGTGACAACAAGAAGAAC+AGG 0.464610 2.1:-6997362 MS.gene45479:CDS
TGGAAATTGAAGACCAGCTC+TGG 0.468882 2.1:+6997607 None:intergenic
AAAGGAGCTGGTGGAAGGAA+AGG 0.477487 2.1:-6997662 MS.gene45479:CDS
GCAAGCACCAAGACGAAGAA+AGG 0.482883 2.1:-6997680 MS.gene45479:CDS
GTTCAGGTTCTTGAATTGGC+TGG 0.491391 2.1:-6997393 MS.gene45479:intron
CATCCCTAGGCATTTGCTGT+TGG 0.495579 2.1:-6997337 MS.gene45479:CDS
GAACTTGGAAAGTTGCTAGC+TGG 0.514674 2.1:-6997297 MS.gene45479:CDS
GGCTACCAAATCTCCAAAGA+AGG 0.519492 2.1:-6997175 MS.gene45479:CDS
GGAGATTTGGTAGCCTTGGA+TGG 0.524077 2.1:+6997183 None:intergenic
GTGAGGAATGATGAAGAACT+TGG 0.529342 2.1:-6997312 MS.gene45479:CDS
ATCGGTCGGTACTTGAAGAA+AGG 0.536042 2.1:-6997575 MS.gene45479:CDS
GAAAGGTGGTCCAAGGAAGA+AGG 0.553269 2.1:-6997645 MS.gene45479:CDS
TTTACCTAAGAAGAATGAGA+AGG 0.555333 2.1:-6997226 MS.gene45479:CDS
CGAAGAAAGGAGCTGGTGGA+AGG 0.557443 2.1:-6997667 MS.gene45479:CDS
TCTTGAATATCTTGCTGCTG+AGG 0.561765 2.1:-6997501 MS.gene45479:intron
AAATTGAAGACCAGCTCTGG+TGG 0.562253 2.1:+6997610 None:intergenic
GTGACAAGATCCACCAGAGC+TGG 0.571539 2.1:-6997620 MS.gene45479:CDS
ACTGCCAACAGCAAATGCCT+AGG 0.578012 2.1:+6997333 None:intergenic
ACCAAGACGAAGAAAGGAGC+TGG 0.579581 2.1:-6997674 MS.gene45479:CDS
GGAAGATACGCTCAGCGTGT+TGG 0.585684 2.1:-6997554 MS.gene45479:CDS
TGCTACCAAATCTCCATCCA+AGG 0.591170 2.1:-6997196 MS.gene45479:CDS
GCTGGTCTTCAATTTCCAGT+TGG 0.598252 2.1:-6997602 MS.gene45479:CDS
GTGGAAGGAAAGGTGGTCCA+AGG 0.602831 2.1:-6997652 MS.gene45479:CDS
GGCATTTGCTGTTGGCAGTG+AGG 0.603106 2.1:-6997329 MS.gene45479:CDS
CTGCCAACAGCAAATGCCTA+GGG 0.606589 2.1:+6997334 None:intergenic
AGAAGAACAGGATCATCCCT+AGG 0.619121 2.1:-6997350 MS.gene45479:CDS
TTCCAGTTGGAAGAATCGGT+CGG 0.638316 2.1:-6997589 MS.gene45479:CDS
GGAGCTGGTGGAAGGAAAGG+TGG 0.644393 2.1:-6997659 MS.gene45479:CDS
AAGACGAAGAAAGGAGCTGG+TGG 0.662071 2.1:-6997671 MS.gene45479:CDS
GCTGGAGTTACAATTGCACA+TGG 0.698871 2.1:-6997279 MS.gene45479:CDS
AGGTGGTCCAAGGAAGAAGG+CGG 0.714301 2.1:-6997642 MS.gene45479:CDS
GGAGTTACAATTGCACATGG+TGG 0.781867 2.1:-6997276 MS.gene45479:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTTCAATTTCATCAAAATT+AGG + chr2.1:6997434-6997453 None:intergenic 15.0%
!! TTTCAATTTCATCAAAATTA+GGG + chr2.1:6997433-6997452 None:intergenic 15.0%
!! CAAATTTGAAAATCAAAAGA+GGG + chr2.1:6997401-6997420 None:intergenic 20.0%
!! TCAAATTTGAAAATCAAAAG+AGG + chr2.1:6997402-6997421 None:intergenic 20.0%
! TCTTCTTAGGTAAAAGAATT+GGG + chr2.1:6997624-6997643 None:intergenic 25.0%
! TTCTTCTTAGGTAAAAGAAT+TGG + chr2.1:6997625-6997644 None:intergenic 25.0%
!!! TTGAAATTTGATTTGTGTTC+AGG - chr2.1:6997447-6997466 MS.gene45479:intron 25.0%
TTTACCTAAGAAGAATGAGA+AGG - chr2.1:6997630-6997649 MS.gene45479:CDS 30.0%
!! AAAAGAATTGGGTTGATGTT+TGG + chr2.1:6997613-6997632 None:intergenic 30.0%
CAATTTCCAGTTGGAAGAAT+CGG - chr2.1:6997263-6997282 MS.gene45479:CDS 35.0%
! TTGTGTTCAGGTTCTTGAAT+TGG - chr2.1:6997459-6997478 MS.gene45479:intron 35.0%
AGAACAGCTGCAAGATAAAC+AGG + chr2.1:6997338-6997357 None:intergenic 40.0%
GAAGCCTTCTCATTCTTCTT+AGG + chr2.1:6997637-6997656 None:intergenic 40.0%
GTGAGGAATGATGAAGAACT+TGG - chr2.1:6997544-6997563 MS.gene45479:CDS 40.0%
TCTTGAATATCTTGCTGCTG+AGG - chr2.1:6997355-6997374 MS.gene45479:CDS 40.0%
! CTAAGCCTTCTTTGGAGATT+TGG + chr2.1:6997689-6997708 None:intergenic 40.0%
AGAAGAACAGGATCATCCCT+AGG - chr2.1:6997506-6997525 MS.gene45479:CDS 45.0%
ATCGGTCGGTACTTGAAGAA+AGG - chr2.1:6997281-6997300 MS.gene45479:CDS 45.0%
CACGTGACAACAAGAAGAAC+AGG - chr2.1:6997494-6997513 MS.gene45479:intron 45.0%
GAACTTGGAAAGTTGCTAGC+TGG - chr2.1:6997559-6997578 MS.gene45479:CDS 45.0%
GCTGGAGTTACAATTGCACA+TGG - chr2.1:6997577-6997596 MS.gene45479:CDS 45.0%
GGAGTTACAATTGCACATGG+TGG - chr2.1:6997580-6997599 MS.gene45479:CDS 45.0%
GGCTACCAAATCTCCAAAGA+AGG - chr2.1:6997681-6997700 MS.gene45479:CDS 45.0%
TGCTACCAAATCTCCATCCA+AGG - chr2.1:6997660-6997679 MS.gene45479:CDS 45.0%
TGGAAATTGAAGACCAGCTC+TGG + chr2.1:6997252-6997271 None:intergenic 45.0%
TTCCAGTTGGAAGAATCGGT+CGG - chr2.1:6997267-6997286 MS.gene45479:CDS 45.0%
! AAATTGAAGACCAGCTCTGG+TGG + chr2.1:6997249-6997268 None:intergenic 45.0%
! CTTTGGAGATTTGGTAGCCT+TGG + chr2.1:6997680-6997699 None:intergenic 45.0%
! GTTCAGGTTCTTGAATTGGC+TGG - chr2.1:6997463-6997482 MS.gene45479:intron 45.0%
!! GCTGGTCTTCAATTTCCAGT+TGG - chr2.1:6997254-6997273 MS.gene45479:CDS 45.0%
AAAGGAGCTGGTGGAAGGAA+AGG - chr2.1:6997194-6997213 MS.gene45479:CDS 50.0%
AAGACGAAGAAAGGAGCTGG+TGG - chr2.1:6997185-6997204 MS.gene45479:CDS 50.0%
ACCAAGACGAAGAAAGGAGC+TGG - chr2.1:6997182-6997201 MS.gene45479:CDS 50.0%
ACCAGCTCCTTTCTTCGTCT+TGG + chr2.1:6997186-6997205 None:intergenic 50.0%
ACTGCCAACAGCAAATGCCT+AGG + chr2.1:6997526-6997545 None:intergenic 50.0%
CTGCCAACAGCAAATGCCTA+GGG + chr2.1:6997525-6997544 None:intergenic 50.0%
GAAAGGTGGTCCAAGGAAGA+AGG - chr2.1:6997211-6997230 MS.gene45479:CDS 50.0%
GCAAGCACCAAGACGAAGAA+AGG - chr2.1:6997176-6997195 MS.gene45479:CDS 50.0%
! GGAGATTTGGTAGCCTTGGA+TGG + chr2.1:6997676-6997695 None:intergenic 50.0%
! GGTAGCCTTGGATGGAGATT+TGG + chr2.1:6997668-6997687 None:intergenic 50.0%
! TACCGACCGATTCTTCCAAC+TGG + chr2.1:6997272-6997291 None:intergenic 50.0%
!! CATCCCTAGGCATTTGCTGT+TGG - chr2.1:6997519-6997538 MS.gene45479:CDS 50.0%
AGGTGGTCCAAGGAAGAAGG+CGG - chr2.1:6997214-6997233 MS.gene45479:CDS 55.0%
CGAAGAAAGGAGCTGGTGGA+AGG - chr2.1:6997189-6997208 MS.gene45479:CDS 55.0%
CTTGTCACCGCCTTCTTCCT+TGG + chr2.1:6997224-6997243 None:intergenic 55.0%
GGAAGATACGCTCAGCGTGT+TGG - chr2.1:6997302-6997321 MS.gene45479:CDS 55.0%
GTGACAAGATCCACCAGAGC+TGG - chr2.1:6997236-6997255 MS.gene45479:CDS 55.0%
GTGGAAGGAAAGGTGGTCCA+AGG - chr2.1:6997204-6997223 MS.gene45479:CDS 55.0%
! TACGCTCAGCGTGTTGGTAC+TGG - chr2.1:6997308-6997327 MS.gene45479:CDS 55.0%
!! GGCATTTGCTGTTGGCAGTG+AGG - chr2.1:6997527-6997546 MS.gene45479:CDS 55.0%
GGAGCTGGTGGAAGGAAAGG+TGG - chr2.1:6997197-6997216 MS.gene45479:CDS 60.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 6997170 6997708 6997170 ID=MS.gene45479
chr2.1 mRNA 6997170 6997708 6997170 ID=MS.gene45479.t1;Parent=MS.gene45479
chr2.1 exon 6997502 6997708 6997502 ID=MS.gene45479.t1.exon1;Parent=MS.gene45479.t1
chr2.1 CDS 6997502 6997708 6997502 ID=cds.MS.gene45479.t1;Parent=MS.gene45479.t1
chr2.1 exon 6997170 6997409 6997170 ID=MS.gene45479.t1.exon2;Parent=MS.gene45479.t1
chr2.1 CDS 6997170 6997409 6997170 ID=cds.MS.gene45479.t1;Parent=MS.gene45479.t1
Gene Sequence

>MS.gene45479

ATGGACGCAAGCACCAAGACGAAGAAAGGAGCTGGTGGAAGGAAAGGTGGTCCAAGGAAGAAGGCGGTGACAAGATCCACCAGAGCTGGTCTTCAATTTCCAGTTGGAAGAATCGGTCGGTACTTGAAGAAAGGAAGATACGCTCAGCGTGTTGGTACTGGTGCTCCTGTTTATCTTGCAGCTGTTCTTGAATATCTTGCTGCTGAGGTATATCTCAATTTCAATTTTCCCTCTTTTGATTTTCAAATTTGAAATTCAAACCCTAATTTTGATGAAATTGAAATTTGATTTGTGTTCAGGTTCTTGAATTGGCTGGAAATGCTGCACGTGACAACAAGAAGAACAGGATCATCCCTAGGCATTTGCTGTTGGCAGTGAGGAATGATGAAGAACTTGGAAAGTTGCTAGCTGGAGTTACAATTGCACATGGTGGTGTTCTTCCAAACATCAACCCAATTCTTTTACCTAAGAAGAATGAGAAGGCTTCAACTGCTACCAAATCTCCATCCAAGGCTACCAAATCTCCAAAGAAGGCTTAG

Protein sequence

>MS.gene45479.t1

MDASTKTKKGAGGRKGGPRKKAVTRSTRAGLQFPVGRIGRYLKKGRYAQRVGTGAPVYLAAVLEYLAAEVLELAGNAARDNKKNRIIPRHLLLAVRNDEELGKLLAGVTIAHGGVLPNINPILLPKKNEKASTATKSPSKATKSPKKA