Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCCGAACAACGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAGgtacgcgattcgacatcacgcttcgcgtctcgttctgtctgaatctcgttccctatcgttctgaatctcgctttttctcgtttcctctcgttcttcgctgttcag

Basic information

species Zea mays
transcript GRMZM2G007057_T02
intron # 2
splice site 5'
intron type U2

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|149100662|gb|EE186750.2|EE186750
EST:     CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAG                         AGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
genomic: CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAGgtacgcgatt ... cgctgttcagAGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
EST: gi|60350762|gb|DN217735.1|DN217735
EST:     CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAG                         AGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
genomic: CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAGgtacgcgatt ... cgctgttcagAGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
EST: gi|91873078|gb|EB403035.1|EB403035
EST:     CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAG                         AGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
genomic: CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAGgtacgcgatt ... cgctgttcagAGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
EST: gi|211355606|gb|FL276171.1|FL276171
EST:     CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAG                         AGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
genomic: CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAGgtacgcgatt ... cgctgttcagAGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
EST: gi|18166640|gb|BM336479.1|BM336479
EST:     CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAG                         AGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
genomic: CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAGgtacgcgatt ... cgctgttcagAGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
EST: gi|60350951|gb|DN217924.1|DN217924
EST:     CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAG                         AGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
genomic: CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAGgtacgcgatt ... cgctgttcagAGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
EST: gi|14243313|gb|BG841009.2|BG841009
EST:     CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAG                         AGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
genomic: CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAGgtacgcgatt ... cgctgttcagAGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
EST: gi|149090232|gb|EE179534.2|EE179534
EST:     CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAG                         AGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
genomic: CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAGgtacgcgatt ... cgctgttcagAGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
EST: gi|211335744|gb|FL462852.1|FL462852
EST:     CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAG                         AGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
genomic: CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAGgtacgcgatt ... cgctgttcagAGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
EST: gi|211175138|gb|FL206851.1|FL206851
EST:     CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAG                         AGTTCAGGAAGATGGT
genomic: CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAGgtacgcgatt ... cgctgttcagAGTTCAGGAAGATGGT
EST: gi|8930153|gb|BE224797.1|BE224797
EST:     CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAG                         AGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAAGACAG
genomic: CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAGgtacgcgatt ... cgctgttcagAGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
EST: gi|50323598|gb|CO518724.1|CO518724
EST:     CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAG                         AGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
genomic: CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAGgtacgcgatt ... cgctgttcagAGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
EST: gi|16927027|gb|BM080095.1|BM080095
EST:     CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAG                         AGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
genomic: CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAGgtacgcgatt ... cgctgttcagAGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
EST: gi|60351551|gb|DN218524.1|DN218524
EST:     CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAG                         AGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
genomic: CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAGgtacgcgatt ... cgctgttcagAGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
EST: gi|50323597|gb|CO518723.1|CO518723
EST:     CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAG                         AGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
genomic: CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAGgtacgcgatt ... cgctgttcagAGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
EST: gi|78086671|gb|DV515064.1|DV515064
EST:     CAGGCGGCGGCGCTTTGGGCGAACCAGGAAG                         AGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
genomic: CAGGCGGCGGCGCTTTGGGCGAACCAGGAAGgtacgcgatt ... cgctgttcagAGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
EST: gi|18162022|gb|BM331861.1|BM331861
EST:     CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAG                         AGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG
genomic: CGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAGgtacgcgatt ... cgctgttcagAGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAG

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: 48 (upstream exon), 49 (downstream exon)
Score: 193

AGCCGAACAACGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAGgtacgcgatt ... cgctgttcagAGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAGCACACGGCGCAGATGCCGACTCAGGTTCTTCAAGCACCGATCTCACTTG


Block sizes: 48 (upstream exon), 47 (downstream exon)
Score: 17

AGCCGAACAACGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAGgtacgcgatt ... cgctgttcagAGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAGCACACGGCGCAGATGCCGACTCAGGTTCTTCAAGCACCGATCTCACTTG


Block sizes: 44 (upstream exon), 49 (downstream exon)
Score: 35

AGCCGAACAACGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAGgtacgcgatt ... cgctgttcagAGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAGCACACGGCGCAGATGCCGACTCAGGTTCTTCAAGCACCGATCTCACTTG


Block sizes: 45 (upstream exon), 49 (downstream exon)
Score: 53

AGCCGAACAACGACTCGCCGCTCAACACGCAGGCGGCGGCGCTTTGGGCGAACCAGGAAGgtacgcgatt ... cgctgttcagAGTTCAGGAAGATGGTGGAGAAGCTCTACAAGGCCGCCGCGTAGAGGACAGCACACGGCGCAGATGCCGACTCAGGTTCTTCAAGCACCGATCTCACTTG