AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene050136


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050136.t1 MTR_2g095050 68.675 166 43 5 1 166 329 485 2.40e-69 221
MS.gene050136.t1 MTR_1g057790 51.205 166 60 3 1 166 248 392 1.03e-50 172
MS.gene050136.t1 MTR_8g078480 53.012 166 61 3 1 166 474 622 7.43e-50 171
MS.gene050136.t1 MTR_4g019450 54.217 166 52 4 1 166 265 406 1.48e-48 165
MS.gene050136.t1 MTR_7g065050 52.695 167 53 4 1 166 210 351 4.41e-48 162
MS.gene050136.t1 MTR_5g018860 49.398 166 66 2 1 166 423 570 6.21e-48 165
MS.gene050136.t1 MTR_8g098815 50.602 166 64 3 1 166 268 415 8.47e-48 164
MS.gene050136.t1 MTR_7g106320 50.000 166 62 3 1 166 260 404 1.02e-47 164
MS.gene050136.t1 MTR_1g023050 48.795 166 57 2 1 166 265 402 1.20e-45 158
MS.gene050136.t1 MTR_3g112300 45.783 166 62 2 1 166 254 391 1.78e-42 145
MS.gene050136.t1 MTR_4g051532 47.024 168 64 3 1 166 304 448 1.11e-41 147
MS.gene050136.t1 MTR_3g112300 45.783 166 62 2 1 166 254 391 1.85e-41 145
MS.gene050136.t1 MTR_3g112300 45.783 166 62 2 1 166 254 391 2.94e-41 145
MS.gene050136.t1 MTR_3g112290 46.386 166 71 4 1 166 247 394 8.25e-41 142
MS.gene050136.t1 MTR_3g112300 42.466 146 56 2 1 146 254 371 1.76e-31 116
MS.gene050136.t1 MTR_1g016490 31.325 166 87 5 1 166 332 470 1.63e-19 84.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050136.t1 AT2G35940 52.410 166 63 3 1 166 282 431 2.20e-53 179
MS.gene050136.t1 AT2G35940 52.410 166 63 3 1 166 282 431 2.20e-53 179
MS.gene050136.t1 AT2G35940 52.410 166 63 3 1 166 282 431 2.20e-53 179
MS.gene050136.t1 AT4G34610 50.000 166 60 3 1 166 218 360 1.74e-49 167
MS.gene050136.t1 AT4G34610 50.000 166 60 3 1 166 218 360 1.74e-49 167
MS.gene050136.t1 AT4G34610 50.000 166 60 3 1 166 218 360 1.74e-49 167
MS.gene050136.t1 AT4G34610 50.000 166 60 3 1 166 218 360 1.74e-49 167
MS.gene050136.t1 AT4G36870 51.807 166 65 4 1 166 394 544 4.21e-49 166
MS.gene050136.t1 AT4G36870 51.807 166 65 4 1 166 394 544 5.77e-49 166
MS.gene050136.t1 AT4G36870 51.807 166 65 4 1 166 394 544 2.26e-48 166
MS.gene050136.t1 AT4G36870 51.807 166 65 4 1 166 394 544 2.26e-48 166
MS.gene050136.t1 AT2G23760 51.205 166 66 3 1 166 320 470 6.42e-48 164
MS.gene050136.t1 AT2G23760 51.205 166 66 3 1 166 320 470 6.42e-48 164
MS.gene050136.t1 AT2G23760 51.205 166 66 3 1 166 320 470 6.42e-48 164
MS.gene050136.t1 AT5G02030 48.588 177 57 3 1 166 241 394 4.85e-47 161
MS.gene050136.t1 AT1G19700 46.988 166 71 3 1 166 249 397 7.04e-46 157
MS.gene050136.t1 AT1G19700 46.988 166 71 3 1 166 249 397 7.04e-46 157
MS.gene050136.t1 AT1G19700 46.988 166 71 3 1 166 249 397 7.04e-46 157
MS.gene050136.t1 AT1G19700 46.988 166 71 3 1 166 249 397 7.04e-46 157
MS.gene050136.t1 AT1G19700 46.988 166 71 3 1 166 249 397 7.04e-46 157
MS.gene050136.t1 AT1G75410 46.386 166 69 3 1 166 247 392 3.23e-45 153
MS.gene050136.t1 AT2G16400 46.386 166 70 3 1 166 185 331 3.27e-45 154
MS.gene050136.t1 AT2G27990 51.205 166 52 4 1 166 334 470 2.06e-44 154
MS.gene050136.t1 AT1G75410 46.386 166 69 3 1 166 247 392 2.92e-44 153
MS.gene050136.t1 AT1G75410 46.386 166 69 3 1 166 247 392 2.92e-44 153
MS.gene050136.t1 AT2G27220 42.771 166 58 3 1 166 146 274 8.45e-40 139
MS.gene050136.t1 AT2G27220 42.771 166 58 3 1 166 146 274 8.45e-40 139
MS.gene050136.t1 AT2G27220 42.771 166 58 3 1 166 164 292 1.09e-39 139
MS.gene050136.t1 AT2G23760 38.991 218 66 4 1 166 320 522 8.67e-39 139
MS.gene050136.t1 AT5G41410 46.108 167 73 4 1 166 287 437 1.62e-38 138
MS.gene050136.t1 AT1G75430 41.176 170 76 3 1 166 99 248 1.21e-36 128
MS.gene050136.t1 AT2G27990 45.890 146 50 4 1 146 334 450 5.71e-31 116
MS.gene050136.t1 AT1G75430 38.667 150 68 3 1 146 99 228 3.50e-26 100
MS.gene050136.t1 AT4G32980 61.702 47 18 0 120 166 372 418 1.19e-18 82.4
MS.gene050136.t1 AT4G32980 61.702 47 18 0 120 166 372 418 1.19e-18 82.4

Find 30 sgRNAs with CRISPR-Local

Find 67 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCTTTCAGGTAACCCTCTC+TGG 0.199963 4.1:+39732292 None:intergenic
AGAATTGCCACTGATCTTTC+AGG 0.234528 4.1:+39732279 None:intergenic
CCACCATTTGCATTTGTTGA+TGG 0.290812 4.1:+39732637 None:intergenic
AAACTTACATGTCAAGTATT+AGG 0.326456 4.1:-39732498 MS.gene050136:CDS
AACCTCAACAACAGCATGTT+TGG 0.326715 4.1:-39732320 MS.gene050136:CDS
AGCTACACCATACATTTCAT+TGG 0.390026 4.1:-39732580 MS.gene050136:CDS
AGCTTACAAAAGAACAAATC+TGG 0.394523 4.1:-39732372 MS.gene050136:CDS
CAGTGGCAATTCTTAAAGCT+TGG 0.440006 4.1:-39732269 MS.gene050136:CDS
CACATGTTAGCTACTCAAAC+AGG 0.444126 4.1:-39731443 MS.gene050136:CDS
TCATCATTTGAGTCAGTAGC+TGG 0.449229 4.1:-39732612 MS.gene050136:CDS
CAAAAGAACAAATCTGGAGC+TGG 0.451287 4.1:-39732366 MS.gene050136:CDS
TTACTGCTACTTGTGGTTGT+TGG 0.462089 4.1:+39732456 None:intergenic
TCTTTCAGGTAACCCTCTCT+GGG 0.462284 4.1:+39732293 None:intergenic
CTCCAAACATGCTGTTGTTG+AGG 0.475472 4.1:+39732318 None:intergenic
ATGTGTTTATCAGTGTCTGT+AGG 0.521595 4.1:+39731461 None:intergenic
ATACCATCAACAAATGCAAA+TGG 0.525199 4.1:-39732640 MS.gene050136:CDS
TGTGTTTATCAGTGTCTGTA+GGG 0.537038 4.1:+39731462 None:intergenic
CTCAACAACAGCATGTTTGG+AGG 0.557669 4.1:-39732317 MS.gene050136:CDS
AAAAGAACAAATCTGGAGCT+GGG 0.563662 4.1:-39732365 MS.gene050136:CDS
TTTAGAGCCAATGAAATGTA+TGG 0.569263 4.1:+39732573 None:intergenic
ATAATAATATGACAAGGCTA+AGG 0.584622 4.1:-39732413 MS.gene050136:CDS
ATGTTTGGAGGCCCCAGAGA+GGG 0.586157 4.1:-39732305 MS.gene050136:CDS
AAATTTATTACTGCTACTTG+TGG 0.591603 4.1:+39732449 None:intergenic
TTGATATATAGGTTACAAGA+AGG 0.611148 4.1:-39732671 None:intergenic
AACAGGTCTATCAAGAAACC+AGG 0.637050 4.1:-39731426 None:intergenic
CCATCAACAAATGCAAATGG+TGG 0.649972 4.1:-39732637 MS.gene050136:CDS
AGGGTTACCTGAAAGATCAG+TGG 0.678566 4.1:-39732286 MS.gene050136:CDS
TACATGTCAAGTATTAGGAG+AGG 0.684996 4.1:-39732493 MS.gene050136:CDS
CATGTTTGGAGGCCCCAGAG+AGG 0.701806 4.1:-39732306 MS.gene050136:CDS
CTTTCAGGTAACCCTCTCTG+GGG 0.726576 4.1:+39732294 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAATAATAATAATATGACA+AGG - chr4.1:39731668-39731687 MS.gene050136:intron 10.0%
!! TTAAATTATATAAGTATGTA+CGG - chr4.1:39731901-39731920 MS.gene050136:intron 10.0%
!!! AAAAAACATTTTTTAAAATG+GGG + chr4.1:39731991-39732010 None:intergenic 10.0%
!!! CAAAAAACATTTTTTAAAAT+GGG + chr4.1:39731992-39732011 None:intergenic 10.0%
!!! TAAAAAAATTTGTAATTTGT+AGG + chr4.1:39732154-39732173 None:intergenic 10.0%
!!! TGTTTTATGAATATAATAAA+AGG - chr4.1:39732556-39732575 MS.gene050136:CDS 10.0%
!! AAATTGTAGAAATTATTGTA+AGG - chr4.1:39732193-39732212 MS.gene050136:intron 15.0%
!!! AACATAAGATATATTGTTTT+AGG + chr4.1:39732540-39732559 None:intergenic 15.0%
!!! ACTTTGTTTTTTTGAAAATA+TGG + chr4.1:39731962-39731981 None:intergenic 15.0%
!!! ATTTCAATGCATAATTTTTT+AGG + chr4.1:39732514-39732533 None:intergenic 15.0%
!!! CCAAAAAACATTTTTTAAAA+TGG + chr4.1:39731993-39732012 None:intergenic 15.0%
!!! CCATTTTAAAAAATGTTTTT+TGG - chr4.1:39731990-39732009 MS.gene050136:intron 15.0%
!!! TTTCAATGCATAATTTTTTA+GGG + chr4.1:39732513-39732532 None:intergenic 15.0%
!!! AACAACGAGTTAATTTTATA+AGG - chr4.1:39732222-39732241 MS.gene050136:intron 20.0%
!!! CTTCTGACTTTTTTAAAATA+GGG - chr4.1:39732036-39732055 MS.gene050136:intron 20.0%
!!! TAATACTTTTTCATACAACA+TGG + chr4.1:39732447-39732466 None:intergenic 20.0%
!!! TCTTCTGACTTTTTTAAAAT+AGG - chr4.1:39732035-39732054 MS.gene050136:intron 20.0%
!!! TGTATGAAAAAGTATTATGA+AGG - chr4.1:39732450-39732469 MS.gene050136:CDS 20.0%
!!! TTCTGACTTTTTTAAAATAG+GGG - chr4.1:39732037-39732056 MS.gene050136:intron 20.0%
! AAACTTACATGTCAAGTATT+AGG - chr4.1:39731589-39731608 MS.gene050136:intron 25.0%
! ACATGGTTAAATATGGTATT+AGG + chr4.1:39732430-39732449 None:intergenic 25.0%
! ATAATAATATGACAAGGCTA+AGG - chr4.1:39731674-39731693 MS.gene050136:intron 25.0%
! ATGCAAGATTTATTTCACTT+GGG + chr4.1:39732274-39732293 None:intergenic 25.0%
! CAATTTACAAAACTACATGT+AGG + chr4.1:39732179-39732198 None:intergenic 25.0%
! CATGGTTAAATATGGTATTA+GGG + chr4.1:39732429-39732448 None:intergenic 25.0%
! TCATACAACATGGTTAAATA+TGG + chr4.1:39732437-39732456 None:intergenic 25.0%
!! AAATTTATTACTGCTACTTG+TGG + chr4.1:39731641-39731660 None:intergenic 25.0%
!! ATGTACGGATTAAATATGTT+TGG - chr4.1:39731916-39731935 MS.gene050136:intron 25.0%
!!! AATGCATAATTTTTTAGGGT+GGG + chr4.1:39732509-39732528 None:intergenic 25.0%
AGCTTACAAAAGAACAAATC+TGG - chr4.1:39731715-39731734 MS.gene050136:intron 30.0%
ATACCATCAACAAATGCAAA+TGG - chr4.1:39731447-39731466 MS.gene050136:CDS 30.0%
GAAGAAAAAAAGTGAAGTTG+AGG + chr4.1:39732017-39732036 None:intergenic 30.0%
GATGCAAGATTTATTTCACT+TGG + chr4.1:39732275-39732294 None:intergenic 30.0%
! GATCTGTGATAGCATTTTTA+AGG + chr4.1:39731564-39731583 None:intergenic 30.0%
! TGCTGTTCAATTTCATTTTC+AGG - chr4.1:39732600-39732619 MS.gene050136:CDS 30.0%
! TTTAGAGCCAATGAAATGTA+TGG + chr4.1:39731517-39731536 None:intergenic 30.0%
!!! ATGCATAATTTTTTAGGGTG+GGG + chr4.1:39732508-39732527 None:intergenic 30.0%
!!! CAATGCATAATTTTTTAGGG+TGG + chr4.1:39732510-39732529 None:intergenic 30.0%
AGAGTGACAGAGAAAACATA+CGG + chr4.1:39731865-39731884 None:intergenic 35.0%
AGCTACACCATACATTTCAT+TGG - chr4.1:39731507-39731526 MS.gene050136:intron 35.0%
ATGTGTTTATCAGTGTCTGT+AGG + chr4.1:39732629-39732648 None:intergenic 35.0%
TACATGTCAAGTATTAGGAG+AGG - chr4.1:39731594-39731613 MS.gene050136:intron 35.0%
TAGTAAAAAACACTTGCGCA+CGG - chr4.1:39732368-39732387 MS.gene050136:CDS 35.0%
TCACTTGGGCATTATAGAAT+TGG + chr4.1:39732260-39732279 None:intergenic 35.0%
TGTGTTTATCAGTGTCTGTA+GGG + chr4.1:39732628-39732647 None:intergenic 35.0%
! AAAAGAACAAATCTGGAGCT+GGG - chr4.1:39731722-39731741 MS.gene050136:intron 35.0%
!!! TGCATAATTTTTTAGGGTGG+GGG + chr4.1:39732507-39732526 None:intergenic 35.0%
AACAGGTCTATCAAGAAACC+AGG - chr4.1:39732661-39732680 MS.gene050136:CDS 40.0%
AACCTCAACAACAGCATGTT+TGG - chr4.1:39731767-39731786 MS.gene050136:intron 40.0%
AGAATTGCCACTGATCTTTC+AGG + chr4.1:39731811-39731830 None:intergenic 40.0%
CACATGTTAGCTACTCAAAC+AGG - chr4.1:39732644-39732663 MS.gene050136:CDS 40.0%
CAGTGGCAATTCTTAAAGCT+TGG - chr4.1:39731818-39731837 MS.gene050136:intron 40.0%
CCATCAACAAATGCAAATGG+TGG - chr4.1:39731450-39731469 MS.gene050136:CDS 40.0%
TCATCATTTGAGTCAGTAGC+TGG - chr4.1:39731475-39731494 MS.gene050136:intron 40.0%
! CAAAAGAACAAATCTGGAGC+TGG - chr4.1:39731721-39731740 MS.gene050136:intron 40.0%
! CCACCATTTGCATTTGTTGA+TGG + chr4.1:39731453-39731472 None:intergenic 40.0%
! TTACTGCTACTTGTGGTTGT+TGG + chr4.1:39731634-39731653 None:intergenic 40.0%
!!! TTTTTTAGGGTGGGGGAAAT+TGG + chr4.1:39732500-39732519 None:intergenic 40.0%
AGGGTTACCTGAAAGATCAG+TGG - chr4.1:39731801-39731820 MS.gene050136:intron 45.0%
CTCAACAACAGCATGTTTGG+AGG - chr4.1:39731770-39731789 MS.gene050136:intron 45.0%
CTCCAAACATGCTGTTGTTG+AGG + chr4.1:39731772-39731791 None:intergenic 45.0%
! ATCTTTCAGGTAACCCTCTC+TGG + chr4.1:39731798-39731817 None:intergenic 45.0%
! TCTTTCAGGTAACCCTCTCT+GGG + chr4.1:39731797-39731816 None:intergenic 45.0%
GGGGGAAATTGGTCAGTAGT+AGG + chr4.1:39732489-39732508 None:intergenic 50.0%
! CTTTCAGGTAACCCTCTCTG+GGG + chr4.1:39731796-39731815 None:intergenic 50.0%
ATGTTTGGAGGCCCCAGAGA+GGG - chr4.1:39731782-39731801 MS.gene050136:intron 55.0%
CATGTTTGGAGGCCCCAGAG+AGG - chr4.1:39731781-39731800 MS.gene050136:intron 60.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 39731427 39732682 39731427 ID=MS.gene050136
chr4.1 mRNA 39731427 39732682 39731427 ID=MS.gene050136.t1;Parent=MS.gene050136
chr4.1 exon 39732246 39732682 39732246 ID=MS.gene050136.t1.exon1;Parent=MS.gene050136.t1
chr4.1 CDS 39732246 39732682 39732246 ID=cds.MS.gene050136.t1;Parent=MS.gene050136.t1
chr4.1 exon 39731427 39731487 39731427 ID=MS.gene050136.t1.exon2;Parent=MS.gene050136.t1
chr4.1 CDS 39731427 39731487 39731427 ID=cds.MS.gene050136.t1;Parent=MS.gene050136.t1
Gene Sequence

>MS.gene050136

GTTACAAGAAGGTACAAGCAATACCATCAACAAATGCAAATGGTGGTTTCATCATTTGAGTCAGTAGCTGGTCTGAGTTCAGCTACACCATACATTTCATTGGCTCTAAAGTCACTATCAAGACACTTCAGATGCCTTAAAAATGCTATCACAGATCAACTCAAACTTACATGTCAAGTATTAGGAGAGGACTTTTCAATACTACCAACAACCACAAGTAGCAGTAATAAATTTGACAGTAATAATAATAATAATATGACAAGGCTAAGGTGCATGAATCATCATCTTAGCTTACAAAAGAACAAATCTGGAGCTGGGAATAGTAATGTAGACTTTGTTGAACCTCAACAACAGCATGTTTGGAGGCCCCAGAGAGGGTTACCTGAAAGATCAGTGGCAATTCTTAAAGCTTGGTTATTTGAGCATTTTCTTCATCCGTATGTTTTCTCTGTCACTCTCTCACTTTATAAACTTTTAAATTATATAAGTATGTACGGATTAAATATGTTTGGCTTATATGCATTTTTATTCTCCATATTTTCAAAAAAACAAAGTTTTAGTCCCCATTTTAAAAAATGTTTTTTGGTCCTCAACTTCACTTTTTTTCTTCTTCTGACTTTTTTAAAATAGGGGATCAAAAATGCATTTAAACTAATATATTTTCAATCTTTATAATTGTCTTGAGTTTCTTTTATTTTTTGTTAACTCTACACACTTTTTAGTTCCTACAAATTACAAATTTTTTTAATCCTACATGTAGTTTTGTAAATTGTAGAAATTATTGTAAGGTCAAAGAACAACGAGTTAATTTTATAAGGACTAAAACGAAACCAATTCTATAATGCCCAAGTGAAATAAATCTTGCATCATGCACAAGTTAATTTTATTATTAGATCAATAAATGCGCAATTTAGTTTTTGTGATGAGATTTATTGATCAAATAGTAAAAAACACTTGCGCACGGTGCAAGATTATTTTACATGAGCACATTATACAAAACCCTAATACCATATTTAACCATGTTGTATGAAAAAGTATTATGAAGGAGAGAGTTTGATGCCTACTACTGACCAATTTCCCCCACCCTAAAAAATTATGCATTGAAATTTTCCTAAAACAATATATCTTATGTTTTATGAATATAATAAAAGGATTTAAATTTGATTTTTCTTTTGCTGTTCAATTTCATTTTCAGGTACCCTACAGACACTGATAAACACATGTTAGCTACTCAAACAGGTCTATCAAGAAACCAG

Protein sequence

>MS.gene050136.t1

VTRRYKQYHQQMQMVVSSFESVAGLSSATPYISLALKSLSRHFRCLKNAITDQLKLTCQVLGEDFSILPTTTSSSNKFDSNNNNNMTRLRCMNHHLSLQKNKSGAGNSNVDFVEPQQQHVWRPQRGLPERSVAILKAWLFEHFLHPYPTDTDKHMLATQTGLSRNQ