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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCGTATGTCTTCAGGGTGTTCGCCGCAGCAGGGTCGCGTCCTGCCGCGTGCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGCgtaagctctcgctcgcactgaatccgtaacctctcgtgtagagttcgcgtcggagtctgacctgttttattggtggatgccgcag

Basic information

species Zea mays
transcript GRMZM5G856734_T01
intron # 1
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|211236490|gb|FK950766.1|FK950766
EST:     GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTTCCTGCGAAGC                         TGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
genomic: GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGCgtaagctctc ... gatgccgcagTGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
EST: gi|211237681|gb|FL238796.1|FL238796
EST:     GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGC                         TGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
genomic: GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGCgtaagctctc ... gatgccgcagTGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
EST: gi|211237680|gb|FL238795.1|FL238795
EST:     GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGC                         TGGCGGANCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
genomic: GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGCgtaagctctc ... gatgccgcagTGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
EST: gi|148986679|gb|EE030460.2|EE030460
EST:     CGGTGTAGCGCCGGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGC                         TGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
genomic: CGGTGTAGCGCC-GGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGCgtaagctctc ... gatgccgcagTGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
EST: gi|211236493|gb|FK950769.1|FK950769
EST:     GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGC                         TGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
genomic: GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGCgtaagctctc ... gatgccgcagTGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
EST: gi|71442989|gb|DR824039.1|DR824039
EST:     GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGC                         TGGCGGAGCTGTGGTCGGCGGCGAAGAGCGCGCCTCCCCTGGCCGTGCTCG
genomic: GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGCgtaagctctc ... gatgccgcagTGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
EST: gi|211236488|gb|FK950764.1|FK950764
EST:     GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGC                         TGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
genomic: GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGCgtaagctctc ... gatgccgcagTGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
EST: gi|211235447|gb|FL238785.1|FL238785
EST:     GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGC                         TGGCGGANCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
genomic: GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGCgtaagctctc ... gatgccgcagTGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
EST: gi|211236494|gb|FK950770.1|FK950770
EST:     GCGGTGTWGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTTCCTGCGAAGC                         TGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
genomic: GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGCgtaagctctc ... gatgccgcagTGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
EST: gi|211236492|gb|FK950768.1|FK950768
EST:     GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGC                         TGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
genomic: GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGCgtaagctctc ... gatgccgcagTGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
EST: gi|211237682|gb|FL238797.1|FL238797
EST:     GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGC                         TGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
genomic: GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGCgtaagctctc ... gatgccgcagTGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
EST: gi|211347001|gb|FK981668.1|FK981668
EST:     GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGC                         TGGCGCGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTC
genomic: GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGCgtaagctctc ... gatgccgcagTGGCG-GAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTC
EST: gi|148941737|gb|EC886692.2|EC886692
EST:     GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGC                         TGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
genomic: GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGCgtaagctctc ... gatgccgcagTGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
EST: gi|211236489|gb|FK950765.1|FK950765
EST:     GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGC                         TGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
genomic: GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGCgtaagctctc ... gatgccgcagTGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
EST: gi|211237687|gb|FL238802.1|FL238802
EST:     GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGC                         TGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
genomic: GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGCgtaagctctc ... gatgccgcagTGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
EST: gi|149103627|gb|EE289029.2|EE289029
EST:     GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGC                         TGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
genomic: GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGCgtaagctctc ... gatgccgcagTGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
EST: gi|211236491|gb|FK950767.1|FK950767
EST:     GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGC                         TGGCGGANCTGTGGTCGGCGGCGAANGGCGCGCCTCCTCTGGCCGTGCTCG
genomic: GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGCgtaagctctc ... gatgccgcagTGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
EST: gi|211236487|gb|FK950763.1|FK950763
EST:     GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGC                         TGGCGGANCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
genomic: GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGCgtaagctctc ... gatgccgcagTGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG
EST: gi|211235445|gb|FL238783.1|FL238783
EST:     GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGC                         TGGCGGAGCTGTGGTCGGCGGCGAAGAGCGCGCCTCCCCTGGCCGTGCTCG
genomic: GCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGCgtaagctctc ... gatgccgcagTGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCG

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), 44 (downstream exon)
Score: 37

GCCGTATGTCTTCAGGGTGTTCGCCGCAGCAGGGTCGCGTCCTGCCGCGTGCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGCgtaagctctc ... gatgccgcagTGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCGCGGGTGTGGCGGCGGCGGTGGCGATATACAAGGTCGGGTCCAGTCTCCT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 60

GCCGTATGTCTTCAGGGTGTTCGCCGCAGCAGGGTCGCGTCCTGCCGCGTGCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGCgtaagctctc ... gatgccgcagTGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCGCGGGTGTGGCGGCGGCGGTGGCGATATACAAGGTCGGGTCCAGTCTCCT


Block sizes: 48 (upstream exon), 43 (downstream exon)
Score: 18

GCCGTATGTCTTCAGGGTGTTCGCCGCAGCAGGGTCGCGTCCTGCCGCGTGCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGCgtaagctctc ... gatgccgcagTGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCGCGGGTGTGGCGGCGGCGGTGGCGATATACAAGGTCGGGTCCAGTCTCCT


Block sizes: 48 (upstream exon), 47 (downstream exon)
Score: 175

GCCGTATGTCTTCAGGGTGTTCGCCGCAGCAGGGTCGCGTCCTGCCGCGTGCGGTGTAGCGCCGGGGCCGGGCAGGGCGGGGTCAAGGTCCCTGCGAAGCgtaagctctc ... gatgccgcagTGGCGGAGCTGTGGTCGGCGGCGAAGGGCGCGCCTCCTCTGGCCGTGCTCGCGGGTGTGGCGGCGGCGGTGGCGATATACAAGGTCGGGTCCAGTCTCCT