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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCTCGGGGTACTAGTTGGAAAGGGCGGTCTGCATGGTAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaagttctcaagtccagaaaaaaaaaacttcaagttaccgcattgcgcgcacaaactaacaaaaatgctgttatcacag

Basic information

species Zea mays
transcript GRMZM2G124353_T01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G124353_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os03g07570.1 (Oryza sativa), 5'ss of exon 8
ATCTCGGGGTACTAGTTGGAAAGGGCGGTCTGCATGGTAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaagttctcaagtccagaaaaaaaaaacttcaagttaccgcattgcgcgcaca--aactaacaaaaatgctgttatcacag--
|||||    |  |||||||||| || |||||||||||||| |||||||| ||||||||||| ||||||||| | | ||| |||||||||||| |      | || |     ||| ||||  ||    |||| ||||||| |  | |  ||||||   |||| ||  | |||     
ATCTCAACATTTTAGTTGGAAAAGGTGGTCTGCATGGTAATGTCTTCAGGATAAAACCACCAATGTGCTTTACAAGGGATGATGCAGgttcgta------tgaactgtctcaaacaaaactttgccattactgcattgcccatagagtaactaaaggaaattctactttcatgcag
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|7216798|gb|AW562920.1|AW562920
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|6540601|gb|AW225263.1|AW225263
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|6194732|gb|AW146836.1|AW146836
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|32807198|gb|CD959432.1|CD959432
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|31910695|gb|CD651553.1|CD651553
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|5123999|gb|AI745840.1|AI745840
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|60350662|gb|DN217635.1|DN217635
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|32799586|gb|CD951822.1|CD951822
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|30031576|gb|CB833427.1|CB833427
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|148955021|gb|EC900524.2|EC900524
EST:     TAACGTTTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGTTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|60338215|gb|DN205188.1|DN205188
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|60349531|gb|DN216504.1|DN216504
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|211311886|gb|FK975957.1|FK975957
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|60398309|gb|DN231125.1|DN231125
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|5871627|gb|AW018098.1|AW018098
EST:     TAACGTCTTCAGAATAAAACCACCTATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|211061643|gb|FL451762.1|FL451762
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|44900211|gb|CK826756.1|CK826756
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|211311888|gb|FK975959.1|FK975959
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|67014041|gb|CO442790.1|CO442790
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|13562273|gb|BG550493.1|BG550493
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|113701983|gb|EE679487.1|EE679487
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|78025401|gb|DV493788.1|DV493788
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|60356418|gb|DN223391.1|DN223391
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|8383318|gb|BE056261.1|BE056261
EST:     TAACGTCTTCAGAATAAAACCCCCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|32791917|gb|CD944153.1|CD944153
EST:     AGAATAAAACCACCGATGCGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: AGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|6564029|gb|AW231651.1|AW231651
EST:     TAACGTCTTCAGAATAAAACCCCCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|4776049|gb|AI665052.1|AI665052
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|32809905|gb|CD962139.1|CD962139
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|148931506|gb|EC874539.2|EC874539
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTGGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGTTTTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|5439282|gb|AI820203.1|AI820203
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|37390746|gb|CF632607.1|CF632607
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
EST: gi|37399847|gb|CF637263.1|CF637263
EST:     TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAG                         ACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA
genomic: TAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACA

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 369

ATCTCGGGGTACTAGTTGGAAAGGGCGGTCTGCATGGTAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACATGCTCTGAGTTGACAATGTGTCTGCGTGGAAACAACACTTCCTGCAACC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 567

ATCTCGGGGTACTAGTTGGAAAGGGCGGTCTGCATGGTAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACATGCTCTGAGTTGACAATGTGTCTGCGTGGAAACAACACTTCCTGCAACC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 963

ATCTCGGGGTACTAGTTGGAAAGGGCGGTCTGCATGGTAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACATGCTCTGAGTTGACAATGTGTCTGCGTGGAAACAACACTTCCTGCAACC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 251

ATCTCGGGGTACTAGTTGGAAAGGGCGGTCTGCATGGTAACGTCTTCAGAATAAAACCACCGATGTGCTTTTCGAAGGACGATGCAGgttcgaaaag ... gttatcacagACTTCTTGGTGGACTCCATGGACTACGCAATGTCAAGGCTCTGAAGGAACATGCTCTGAGTTGACAATGTGTCTGCGTGGAAACAACACTTCCTGCAACC