AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene81444

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene81444.t1 MTR_6g053200 79.798 198 28 2 90 287 351 536 2.51e-103 311
MS.gene81444.t1 MTR_6g053200 87.356 87 11 0 3 89 177 263 3.89e-16 78.6
MS.gene81444.t1 MTR_2g024380 48.241 199 102 1 90 287 272 470 3.40e-55 185
MS.gene81444.t1 MTR_2g024350 45.729 199 107 1 90 287 29 227 1.43e-54 177
MS.gene81444.t1 MTR_7g104980 50.739 203 98 2 86 287 14 215 7.42e-52 169
MS.gene81444.t1 MTR_8g067650 37.755 196 81 5 90 283 360 516 3.52e-29 116
MS.gene81444.t1 MTR_8g067635 38.919 185 78 5 90 272 370 521 1.33e-25 106
MS.gene81444.t1 MTR_8g069935 60.417 48 19 0 90 137 352 399 1.89e-12 67.4
MS.gene81444.t1 MTR_1g099600 50.000 54 26 1 91 144 207 259 1.36e-11 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 0 sgRNAs with CRISPR-Local

Find 130 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACTAAAAATATATGTTTATT+TGG - 43392:75942-75961 MS.gene81444:intergenic 10.0%
!!! TATCAAAATTAATGTATTTT+TGG + 43392:75677-75696 MS.gene81444:intron 10.0%
!! AACAAGTAGAAAAAATAAAA+AGG - 43392:75785-75804 MS.gene81444:intergenic 15.0%
!! AAGGATTAATATGAATATTC+AGG - 43392:75852-75871 MS.gene81444:intergenic 20.0%
!! TTACAGAAAAATTAACAACA+AGG + 43392:75269-75288 MS.gene81444:intron 20.0%
!!! TAACAATCAAAACTTTTACA+TGG - 43392:75738-75757 MS.gene81444:intergenic 20.0%
!!! TTTTTGGTTTAAGTACAAAA+TGG + 43392:75693-75712 MS.gene81444:intron 20.0%
! AATTAACAACAAGGTAACTT+TGG + 43392:75278-75297 MS.gene81444:intron 25.0%
! CAAATCATAATTCAAGAATC+AGG + 43392:75149-75168 MS.gene81444:intron 25.0%
! CTATAAGTTCAGTTTCTAAA+GGG - 43392:76346-76365 MS.gene81444:intergenic 25.0%
! GATATATTTGTTCAGGAATA+AGG - 43392:75871-75890 MS.gene81444:intergenic 25.0%
! TATGGACAAAAAAACATTAG+CGG + 43392:75354-75373 MS.gene81444:intron 25.0%
! TCTATAAGTTCAGTTTCTAA+AGG - 43392:76347-76366 MS.gene81444:intergenic 25.0%
!! GAAAACAAGTTTTCAACATT+AGG - 43392:76407-76426 MS.gene81444:intergenic 25.0%
!! TTTAAAGTGATACGATTTAG+AGG + 43392:75976-75995 MS.gene81444:intron 25.0%
!!! ATACCTTGAGTTTTAAATAG+TGG + 43392:75480-75499 MS.gene81444:intron 25.0%
AACACTTGACTGTTATTGTT+TGG - 43392:75010-75029 MS.gene81444:intergenic 30.0%
AACATTATCACTAGTGTTCA+TGG + 43392:74923-74942 MS.gene81444:CDS 30.0%
AACGAGTGATATATTTGTTC+AGG - 43392:75878-75897 MS.gene81444:intergenic 30.0%
ACAAATATATCACTCGTTTC+AGG + 43392:75880-75899 MS.gene81444:intron 30.0%
ATGGACAAAAAAACATTAGC+GGG + 43392:75355-75374 MS.gene81444:intron 30.0%
ATTTGGTAAAATCCTAGATC+TGG - 43392:75113-75132 MS.gene81444:intergenic 30.0%
CAAATATATCACTCGTTTCA+GGG + 43392:75881-75900 MS.gene81444:intron 30.0%
GAAATAGAAAACCAACATTG+AGG - 43392:76610-76629 MS.gene81444:intergenic 30.0%
TATGTCAGAGGATTTCTTAT+TGG + 43392:76574-76593 MS.gene81444:CDS 30.0%
TGATTGATTGAGCTTTCTTA+GGG - 43392:75071-75090 MS.gene81444:intergenic 30.0%
TTGAAACACAAACAAAACCT+AGG - 43392:75551-75570 MS.gene81444:intergenic 30.0%
! AGACCACTATTTAAAACTCA+AGG - 43392:75486-75505 MS.gene81444:intergenic 30.0%
! AGTGATAATGTTAGTCAAGT+TGG - 43392:74915-74934 MS.gene81444:intergenic 30.0%
! ATTGCATAATCTGAAATGGT+AGG - 43392:74962-74981 MS.gene81444:intergenic 30.0%
! CAATCCTTGAATGATTTTTC+AGG + 43392:76015-76034 MS.gene81444:intron 30.0%
! GAGTATTGCATAATCTGAAA+TGG - 43392:74966-74985 MS.gene81444:intergenic 30.0%
! GCTTTTTGTGAATCTGAATT+TGG - 43392:75130-75149 MS.gene81444:intergenic 30.0%
! TTTTGAATGTGAAAAGACCT+TGG - 43392:75390-75409 MS.gene81444:intergenic 30.0%
!! GGAGTATTGAAATTATTGGT+TGG - 43392:74767-74786 MS.gene81444:intergenic 30.0%
AAAATCCTAGATCTGGTGTT+GGG - 43392:75106-75125 MS.gene81443:intergenic 35.0%
AAACATGACTGATATGTCAG+AGG + 43392:76562-76581 MS.gene81444:CDS 35.0%
AAAGGGATTTCTGATTGACT+AGG - 43392:76329-76348 MS.gene81444:intergenic 35.0%
AAGGGATTTCTGATTGACTA+GGG - 43392:76328-76347 MS.gene81444:intergenic 35.0%
ACAAAAAAGTGACACCAAAG+AGG + 43392:76088-76107 MS.gene81444:CDS 35.0%
ACTTGAATATTCCTACTCTC+TGG - 43392:76302-76321 MS.gene81444:intergenic 35.0%
AGCTCCTGAAAAATCATTCA+AGG - 43392:76022-76041 MS.gene81444:intergenic 35.0%
ATAGAAAACCAACATTGAGG+TGG - 43392:76607-76626 MS.gene81444:intergenic 35.0%
ATGAAAAACCAGCAGGTAAA+CGG + 43392:76147-76166 MS.gene81444:CDS 35.0%
CAAACAAGCTTTCAGAAGAT+TGG + 43392:75316-75335 MS.gene81444:intron 35.0%
CCAATAAGTATGTTTCCTGA+AGG - 43392:76509-76528 MS.gene81444:intergenic 35.0%
CCTTCAGGAAACATACTTAT+TGG + 43392:76506-76525 MS.gene81444:CDS 35.0%
GAGTGAAAAAAGTTGTTGTG+GGG - 43392:74856-74875 MS.gene81444:intergenic 35.0%
GATTGATTGAGCTTTCTTAG+GGG - 43392:75070-75089 MS.gene81444:intergenic 35.0%
GGAGTGAAAAAAGTTGTTGT+GGG - 43392:74857-74876 MS.gene81444:intergenic 35.0%
GTGATTGATTGAGCTTTCTT+AGG - 43392:75072-75091 MS.gene81444:intergenic 35.0%
TAAAATCCTAGATCTGGTGT+TGG - 43392:75107-75126 MS.gene81444:intergenic 35.0%
TAAGACCACAATTAGTGCAA+TGG - 43392:75527-75546 MS.gene81444:intergenic 35.0%
TAAGTATGTTTCCTGAAGGA+AGG - 43392:76505-76524 MS.gene81444:intergenic 35.0%
TCTGACATATCAGTCATGTT+TGG - 43392:76563-76582 MS.gene81444:intergenic 35.0%
TGAAATGGTAGGATATTGAC+TGG - 43392:74951-74970 MS.gene81444:intergenic 35.0%
TGATTCAATTTCTCTAGCAG+CGG - 43392:76381-76400 MS.gene81444:intergenic 35.0%
TGGAGTGAAAAAAGTTGTTG+TGG - 43392:74858-74877 MS.gene81444:intergenic 35.0%
! AAAGCTTGTTTGTTCTCACA+TGG - 43392:75308-75327 MS.gene81444:intergenic 35.0%
! ACTAATTGTGGTCTTAACCT+AGG + 43392:75531-75550 MS.gene81444:intron 35.0%
!! ACTTTTGTTGTGACGTTTGT+TGG + 43392:76113-76132 MS.gene81444:CDS 35.0%
!! GATAATGTTAGTCAAGTTGG+TGG - 43392:74912-74931 MS.gene81444:intergenic 35.0%
!! GGTGGGAGTATTGAAATTAT+TGG - 43392:74771-74790 MS.gene81444:intergenic 35.0%
!! TAGTCTTTGATGACTTGTTC+TGG - 43392:76193-76212 MS.gene81444:intergenic 35.0%
AATTACCCAACACCAGATCT+AGG + 43392:75098-75117 MS.gene81444:intron 40.0%
AATTAGTGCAATGGCAAGGA+TGG - 43392:75518-75537 MS.gene81444:intergenic 40.0%
ACAAGCTTTCAGAAGATTGG+TGG + 43392:75319-75338 MS.gene81444:intron 40.0%
AGGAAGGATTTGTGATTCAC+CGG - 43392:76489-76508 MS.gene81444:intergenic 40.0%
ATATATCACTCGTTTCAGGG+AGG + 43392:75884-75903 MS.gene81444:intron 40.0%
ATGTGAAAAGACCTTGGATG+TGG - 43392:75384-75403 MS.gene81444:intergenic 40.0%
CGACTTGAAATTTCCAACAG+CGG - 43392:76222-76241 MS.gene81444:intergenic 40.0%
GAATCACAAATCCTTCCTTC+AGG + 43392:76491-76510 MS.gene81444:CDS 40.0%
GACTTGAAATTTCCAACAGC+GGG - 43392:76221-76240 MS.gene81444:intergenic 40.0%
GATTCAATTTCTCTAGCAGC+GGG - 43392:76380-76399 MS.gene81444:intergenic 40.0%
GTAAACGGAACTCTATTGGT+GGG + 43392:76162-76181 MS.gene81444:CDS 40.0%
TATATCACTCGTTTCAGGGA+GGG + 43392:75885-75904 MS.gene81444:intron 40.0%
TCACCAAACATTTCAAAGCC+AGG + 43392:76242-76261 MS.gene81444:CDS 40.0%
TCATGGGAGTAAGTCTAGTT+GGG - 43392:74811-74830 MS.gene81444:intergenic 40.0%
TGTGAAAAGACCTTGGATGT+GGG - 43392:75383-75402 MS.gene81444:intergenic 40.0%
!! AATGTTAGTCAAGTTGGTGG+TGG - 43392:74909-74928 MS.gene81444:intergenic 40.0%
!! ATCGTCACATTTTGAGAACC+TGG - 43392:76263-76282 MS.gene81444:intergenic 40.0%
!! CACAACAAAAGTGTCCTCTT+TGG - 43392:76105-76124 MS.gene81444:intergenic 40.0%
!! CTTTGATGACTTGTTCTGGT+AGG - 43392:76189-76208 MS.gene81444:intergenic 40.0%
!! GAACCTGGCTTTGAAATGTT+TGG - 43392:76248-76267 MS.gene81444:intergenic 40.0%
!! GATTTTGACCACCTCAATGT+TGG + 43392:76596-76615 MS.gene81444:CDS 40.0%
!!! GTTTACCTGCTGGTTTTTCA+TGG - 43392:76148-76167 MS.gene81444:intergenic 40.0%
AAGACTAGATTACCCGCTGT+TGG + 43392:76206-76225 MS.gene81444:CDS 45.0%
AGCTTTCTTAGGGGTTGTTG+TGG - 43392:75061-75080 MS.gene81444:intergenic 45.0%
ATAGAGTTCCGTTTACCTGC+TGG - 43392:76158-76177 MS.gene81444:intergenic 45.0%
ATGTCGATCATCCAGAGAGT+AGG + 43392:76288-76307 MS.gene81444:CDS 45.0%
CACAACCATGAAAAACCAGC+AGG + 43392:76140-76159 MS.gene81444:CDS 45.0%
CATGGGAGTAAGTCTAGTTG+GGG - 43392:74810-74829 MS.gene81444:intergenic 45.0%
CCACAATTAGTGCAATGGCA+AGG - 43392:75522-75541 MS.gene81444:intergenic 45.0%
CCTTGCCATTGCACTAATTG+TGG + 43392:75519-75538 MS.gene81444:intron 45.0%
GCAGGTAAACGGAACTCTAT+TGG + 43392:76158-76177 MS.gene81444:CDS 45.0%
GGTAAACGGAACTCTATTGG+TGG + 43392:76161-76180 MS.gene81444:CDS 45.0%
GTCATGGGAGTAAGTCTAGT+TGG - 43392:74812-74831 MS.gene81444:intergenic 45.0%
GTGAAAAGACCTTGGATGTG+GGG - 43392:75382-75401 MS.gene81444:intergenic 45.0%
TGATTCACCGGAGTAAACCT+GGG - 43392:76477-76496 MS.gene81444:intergenic 45.0%
TGGTGGTCGTGGACAAAATA+TGG + 43392:75336-75355 MS.gene81444:intron 45.0%
TTCTCTAGCAGCGGGTAAAT+GGG - 43392:76372-76391 MS.gene81444:intergenic 45.0%
TTTCTCTAGCAGCGGGTAAA+TGG - 43392:76373-76392 MS.gene81444:intergenic 45.0%
! TTTCAGAAGATTGGTGGTCG+TGG + 43392:75325-75344 MS.gene81444:intron 45.0%
! TTTTTCACTCCAACCACCAC+TGG + 43392:74866-74885 MS.gene81444:CDS 45.0%
!!! TTAAGATAAATAAATTTTAT+GGG - 43392:75821-75840 MS.gene81444:intergenic 5.0%
!!! TTTAAGATAAATAAATTTTA+TGG - 43392:75822-75841 MS.gene81444:intergenic 5.0%
AGCAATGCCCAGGTTTACTC+CGG + 43392:76467-76486 MS.gene81444:CDS 50.0%
CTAATAGGTCCAGTGGTGGT+TGG - 43392:74878-74897 MS.gene81444:intergenic 50.0%
GTAAGTCTAGTTGGGGTGCA+AGG - 43392:74803-74822 MS.gene81444:intergenic 50.0%
GTGATTCACCGGAGTAAACC+TGG - 43392:76478-76497 MS.gene81444:intergenic 50.0%
! ACCTGGGCATTGCTACTCAT+TGG - 43392:76461-76480 MS.gene81444:intergenic 50.0%
! AGTTGTTGTGGGGTTAGCGA+AGG - 43392:74846-74865 MS.gene81444:intergenic 50.0%
!! AAGGCGTTGGTAGTGGTCAT+GGG - 43392:74827-74846 MS.gene81444:intergenic 50.0%
!! TCAAGTTGGTGGTGGTGCTA+GGG - 43392:74901-74920 MS.gene81444:intergenic 50.0%
ACTCGTTTCAGGGAGGGAGT+TGG + 43392:75891-75910 MS.gene81444:intron 55.0%
AGGGCTAATAGGTCCAGTGG+TGG - 43392:74882-74901 MS.gene81444:intergenic 55.0%
CTCGTTTCAGGGAGGGAGTT+GGG + 43392:75892-75911 MS.gene81444:intron 55.0%
GCCAATGAGTAGCAATGCCC+AGG + 43392:76457-76476 MS.gene81444:CDS 55.0%
GCTAGGGCTAATAGGTCCAG+TGG - 43392:74885-74904 MS.gene81444:intergenic 55.0%
TCTAGTTGGGGTGCAAGGAG+TGG - 43392:74798-74817 MS.gene81444:intergenic 55.0%
! GTGGTGGTGCTAGGGCTAAT+AGG - 43392:74893-74912 MS.gene81444:intergenic 55.0%
!! GAAGGCGTTGGTAGTGGTCA+TGG - 43392:74828-74847 MS.gene81444:intergenic 55.0%
!! GTCAAGTTGGTGGTGGTGCT+AGG - 43392:74902-74921 MS.gene81444:intergenic 55.0%
!! GTTAGCGAAGGCGTTGGTAG+TGG - 43392:74834-74853 MS.gene81444:intergenic 55.0%
GTGCAAGGAGTGGTGAGGGT+GGG - 43392:74788-74807 MS.gene81444:intergenic 60.0%
TGGGGTGCAAGGAGTGGTGA+GGG - 43392:74792-74811 MS.gene81444:intergenic 60.0%
TTGGGGTGCAAGGAGTGGTG+AGG - 43392:74793-74812 MS.gene81444:intergenic 60.0%
! TGTGGGGTTAGCGAAGGCGT+TGG - 43392:74840-74859 MS.gene81444:intergenic 60.0%
! TTAGCGGGTCCCCACATCCA+AGG + 43392:75370-75389 MS.gene81444:intron 60.0%
GGTGCAAGGAGTGGTGAGGG+TGG - 43392:74789-74808 MS.gene81444:intergenic 65.0%


Chromosome Type Strat End Strand Name
43392 gene 74761 76634 74761 ID=MS.gene81444
43392 mRNA 74761 76634 74761 ID=MS.gene81444.t1;Parent=MS.gene81444
43392 exon 74761 75026 74761 ID=MS.gene81444.t1.exon1;Parent=MS.gene81444.t1
43392 CDS 74761 75026 74761 ID=cds.MS.gene81444.t1;Parent=MS.gene81444.t1
43392 exon 76037 76634 76037 ID=MS.gene81444.t1.exon2;Parent=MS.gene81444.t1
43392 CDS 76037 76634 76037 ID=cds.MS.gene81444.t1;Parent=MS.gene81444.t1
Gene Sequence

>MS.gene81444

ATGCCAACCAATAATTTCAATACTCCCACCCTCACCACTCCTTGCACCCCAACTAGACTTACTCCCATGACCACTACCAACGCCTTCGCTAACCCCACAACAACTTTTTTCACTCCAACCACCACTGGACCTATTAGCCCTAGCACCACCACCAACTTGACTAACATTATCACTAGTGTTCATGGAACCAGTCAATATCCTACCATTTCAGATTATGCAATACTCATCAAACAACAACAAATTCAACCAAACAATAACAGTCAAGTGTTTGATCATGCATACAACTATTCATTTGTTCCACAACAACCCCTAAGAAAGCTCAATCAATCACAAATTCAATTACCCAACACCAGATCTAGGATTTTACCAAATTCAGATTCACAAAAAGCAAATCATAATTCAAGAATCAGGTAAATCATTTATTATTTTGATTTAAATTATTTTTATTATAAATCAATCTTAATGCATTTTAATAATCGAAACATTTAAATGATTTATCTTTCTTATCTTACAGAAAAATTAACAACAAGGTAACTTTGGAATGCCATGTGAGAACAAACAAGCTTTCAGAAGATTGGTGGTCGTGGACAAAATATGGACAAAAAAACATTAGCGGGTCCCCACATCCAAGGTCTTTTCACATTCAAAAATCTAACTTTTACGTATTCTTGTTTTATTTCATAATAAAAACAATAATTATGTGATCTAATACAGACATGATACCTTGAGTTTTAAATAGTGGTCTCTAGCATTACCATCCTTGCCATTGCACTAATTGTGGTCTTAACCTAGGTTTTGTTTGTGTTTCAATTTCAAAAAGATAATAAATTAGTACTCTATTCTAAAAAATGCGTAACATATTTAAAAAATAAAAAGTATGTTATAAAATGAGTGTCATTTTCAATATTCTATGTAATATCAAAATTAATGTATTTTTGGTTTAAGTACAAAATGGATCACTTTCTTCGTCTAATCCATGTAAAAGTTTTGATTGTTACTTTTATTCATTGCAAATATAACACCTTTTTATTTTTTCTACTTGTTGTTTGTTTTTGTTCCCATAAAATTTATTTATCTTAAAATTAGTTCCTGAATATTCATATTAATCCTTATTCCTGAACAAATATATCACTCGTTTCAGGGAGGGAGTTGGGTTGTAACATTTATGTAAAACTTGACCAAATAAACATATATTTTTAGTATATGATTTTAGCTTTTAAAGTGATACGATTTAGAGGTGTTTGATATAGAAAACAATCCTTGAATGATTTTTCAGGAGCTACTTTAAATGTAGCAGTTCTAAAGATTGTTCAGCAAAAAAACTAGTACAAAAAAGTGACACCAAAGAGGACACTTTTGTTGTGACGTTTGTTGGAGCACACAACCATGAAAAACCAGCAGGTAAACGGAACTCTATTGGTGGGACCTACCAGAACAAGTCATCAAAGACTAGATTACCCGCTGTTGGAAATTTCAAGTCGTCACCAAACATTTCAAAGCCAGGTTCTCAAAATGTGACGATGATGCATGTCGATCATCCAGAGAGTAGGAATATTCAAGTTCTCCCTAGTCAATCAGAAATCCCTTTAGAAACTGAACTTATAGAGACCCATTTACCCGCTGCTAGAGAAATTGAATCATCTCCTAATGTTGAAAACTTGTTTTCATATGATGTGACGATGCTATTGTTTGATGAGCCAATGAGTAGCAATGCCCAGGTTTACTCCGGTGAATCACAAATCCTTCCTTCAGGAAACATACTTATTGGAAACTCTGATGATGATGAAGAAATTATGATACCAAACATGACTGATATGTCAGAGGATTTCTTATTGGATTTTGACCACCTCAATGTTGGTTTTCTATTTCCTTAG
Protein sequence

>MS.gene81444.t1

MPTNNFNTPTLTTPCTPTRLTPMTTTNAFANPTTTFFTPTTTGPISPSTTTNLTNIITSVHGTSQYPTISDYAILIKQQQIQPNNNSQVSYFKCSSSKDCSAKKLVQKSDTKEDTFVVTFVGAHNHEKPAGKRNSIGGTYQNKSSKTRLPAVGNFKSSPNISKPGSQNVTMMHVDHPESRNIQVLPSQSEIPLETELIETHLPAAREIESSPNVENLFSYDVTMLLFDEPMSSNAQVYSGESQILPSGNILIGNSDDDEEIMIPNMTDMSEDFLLDFDHLNVGFLFP