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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactttctgatttctgatttactttctcgactagatgtcatagttatttatgataaagaaccttatttttcgttgttgaattggtgtcacacctgcgcatgcaccttcagagatccatgctttacattctcataaagatacgtgacgatgccaatctgttgtgtatatag

Basic information

species Zea mays
transcript GRMZM2G432128_T01
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G432128_T01 (Zea mays), 5'ss of exon 12
lower sequence: LOC_Os01g46610.1 (Oryza sativa), 5'ss of exon 12
GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactttctgatttctgatttactttctcgactagatgtcatagttatttatgataaagaaccttatttttcgttgttgaattggtgtcacacctgcgcatgcaccttcagagatccatgctttacattctcataaagatacgtgacgatgccaatctgttgtgtatatag
| ||||| || |||||||||||||||||||| ||||||||||  |    || |    | |||||| | |        ||||   ||  ||| | | | |   || ||||  | |||||  ||     ||       || |  |  ||    || || ||| |            || |||  ||||  | |   | ||||   ||| |||
GCTTTGGTTCATTGGGTTTGATGACATCAGTATTGgtatgtaactatgtatattacttctactttattgt-------tcatgactaaatattaaatata---ttgttttagggtgttgtcttctgtacagtggaaagccttaattttggttgaaccctgcct------------aatatatatgacactac---tttgtttaatatgtag
















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|211440945|gb|FL371134.1|FL371134
EST:     GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|60342210|gb|DN209183.1|DN209183
EST:     GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|76286555|gb|DV026123.1|DV026123
EST:     GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|148937600|gb|EC881790.2|EC881790
EST:     GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|60338834|gb|DN205807.1|DN205807
EST:     GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|37377043|gb|CF625092.1|CF625092
EST:     GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|8577413|gb|BE130050.1|BE130050
EST:     GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|21760011|gb|BQ635552.1|BQ635552
EST:     GTTTTGGGTCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|60352624|gb|DN219597.1|DN219597
EST:     GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|211106972|gb|FL115259.1|FL115259
EST:     GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|67031198|gb|CO459947.1|CO459947
EST:     GTTTTGGATCTTTGGGTTTGATGACATCAGTGGTG                         GTGTGCCCCTGATGGAAAAAACAATCGAAGCTGAAGCTGCCCATGGCACGG
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCC-TGATGGAAAAACCA-TCGAAGCTGAAGCTGCCCATGGCACGG
EST: gi|32916741|gb|CF021553.1|CF021553
EST:     GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACC
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACC
EST: gi|5915562|gb|AW053203.1|AW053203
EST:     GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAG
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAG
EST: gi|67010786|gb|CO439535.1|CO439535
EST:     GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|211106971|gb|FL115258.1|FL115258
EST:     GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|61119106|gb|DN560067.1|DN560067
EST:     AGGTTTTGGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: AGGTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|31356012|gb|CD440369.1|CD440369
EST:     GTTTTGGGTCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAAACATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|33092418|gb|CF052412.1|CF052412
EST:     G-TTTGGGTCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|60352979|gb|DN219952.1|DN219952
EST:     GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCGTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|37377787|gb|CF625533.1|CF625533
EST:     G-TTTGGATCTTNGGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTT-TGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|32849367|gb|CD989048.1|CD989048
EST:     GACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|60343928|gb|DN210901.1|DN210901
EST:     GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|67023195|gb|CO451944.1|CO451944
EST:     GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|33098319|gb|CF058279.1|CF058279
EST:     GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|60358113|gb|DN225086.1|DN225086
EST:     GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|67025371|gb|CO454120.1|CO454120
EST:     GTTTTTGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|148957373|gb|EC903423.2|EC903423
EST:     GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|74237579|gb|DT645493.1|DT645493
EST:     GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|60346852|gb|DN213825.1|DN213825
EST:     GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|60347229|gb|DN214202.1|DN214202
EST:     GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|21891602|gb|BQ744815.1|BQ744815
EST:     GTTTTGGGTCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
EST: gi|67019645|gb|CO448394.1|CO448394
EST:     GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTG                         GTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT
genomic: GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTT

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: 38 (upstream exon), 49 (downstream exon)
Score: 479

GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTTACCCGTCATTTCCGTGTCCACCAGAAAGGAGGCGAAACCAGCACGAACA


Block sizes: 39 (upstream exon), 49 (downstream exon)
Score: 1957

GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTTACCCGTCATTTCCGTGTCCACCAGAAAGGAGGCGAAACCAGCACGAACA


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 1788

GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTTACCCGTCATTTCCGTGTCCACCAGAAAGGAGGCGAAACCAGCACGAACA


Block sizes: 38 (upstream exon), 49 (downstream exon)
Score: 1575

GTTTTGGATCTTTGGGTTTGATGACATCAGTGTTGgtatgtactt ... gtgtatatagGTGTGCCCTGATGGAAAAACCATCGAAGCTGAAGCTGCCCATGGCACGGTTACCCGTCATTTCCGTGTCCACCAGAAAGGAGGCGAAACCAGCACGAACA