Skip to another splice site:
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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCGCGCCCGTGCCGCACGACCTCGTCCTGCCGCTCCGCCTCGCCACCGGCGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGCgtacgcccccgcgcgcttctctcctcccccctccctcatcgagttcccgcgctcgtgttttacactcatcgtcgatagatagtcgtcgtcgctgacgagtctgtacgtgccccgcgcgcgcag

Basic information

species Zea mays
transcript GRMZM2G067743_T03
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|211232355|gb|FL302930.1|FL302930
EST:     CGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGC                         TGGCGTACTGGGGCTGCTATGGCGCGGGGGCGCCGTTCGGCCGCAAGGCGG
genomic: CGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGCgtacgccccc ... gcgcgcgcagTGGCGTACTGGGGCTGCTATGGCGCGGGGGCGCCGTTCGGCCGCAAGGCGG
EST: gi|211232354|gb|FL302929.1|FL302929
EST:     CGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGC                         TGGCGTACTGGGGCTGCTATGGCGCGGGGGCGCCGTTCGGCCGCAAGGCGG
genomic: CGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGCgtacgccccc ... gcgcgcgcagTGGCGTACTGGGGCTGCTATGGCGCGGGGGCGCCGTTCGGCCGCAAGGCGG
EST: gi|37424124|gb|CF649792.1|CF649792
EST:     CGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGC                         TGGCGTACTGGGGCTGCTATGGCGCGGGGGCGCCGTT
genomic: CGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGCgtacgccccc ... gcgcgcgcagTGGCGTACTGGGGCTGCTATGGCGCGGGGGCGCCGTT
EST: gi|211232358|gb|FL302933.1|FL302933
EST:     CGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGC                         TGGCGTACTGGGGCTGCTATGGCGCGGGGGCGCCGTTCGGCCGCAAGGCGG
genomic: CGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGCgtacgccccc ... gcgcgcgcagTGGCGTACTGGGGCTGCTATGGCGCGGGGGCGCCGTTCGGCCGCAAGGCGG
EST: gi|211232356|gb|FL302931.1|FL302931
EST:     CGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGC                         TGGCGTACTGGGGCTGCTATGGCGCGGGGGCGCCGTTCGGCCGCAAGGCGG
genomic: CGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGCgtacgccccc ... gcgcgcgcagTGGCGTACTGGGGCTGCTATGGCGCGGGGGCGCCGTTCGGCCGCAAGGCGG
EST: gi|101395870|gb|EB819862.1|EB819862
EST:     CGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGC                         TGGCGTACTGGGGCTGCTATGGCGCGGGGGCGCCGTTCGGCCGCAAGGCGG
genomic: CGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGCgtacgccccc ... gcgcgcgcagTGGCGTACTGGGGCTGCTATGGCGCGGGGGCGCCGTTCGGCCGCAAGGCGG
EST: gi|78104884|gb|DV523302.1|DV523302
EST:     CGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGC                         TGGCGTACTGGGGCTGCTATGGCGCGGGGGCGCCGTTCGGCCGCAAGGCGG
genomic: CGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGCgtacgccccc ... gcgcgcgcagTGGCGTACTGGGGCTGCTATGGCGCGGGGGCGCCGTTCGGCCGCAAGGCGG
EST: gi|211232357|gb|FL302932.1|FL302932
EST:     CGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGC                         TGGCGTACTGGGGCTGCTATGGCGCGGGGGCGC-GTTCGGCCGCAAGGCGG
genomic: CGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGCgtacgccccc ... gcgcgcgcagTGGCGTACTGGGGCTGCTATGGCGCGGGGGCGCCGTTCGGCCGCAAGGCGG
EST: gi|76015070|gb|DT942240.1|DT942240
EST:     CGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGC                         TGGCGTAATGGGGCTGCTATGGAGCGGGGGCGCCGTTCGGCCGCAAGGGGG
genomic: CGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGCgtacgccccc ... gcgcgcgcagTGGCGTACTGGGGCTGCTATGGCGCGGGGGCGCCGTTCGGCCGCAAGGCGG
EST: gi|50339441|gb|CO534567.1|CO534567
EST:     CGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGC                         TGGCGTACTGGGGCTGCTATGGCGCGGGGGCGCCGTTCGGCCGCAAGGCGG
genomic: CGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGCgtacgccccc ... gcgcgcgcagTGGCGTACTGGGGCTGCTATGGCGCGGGGGCGCCGTTCGGCCGCAAGGCGG
EST: gi|91877772|gb|EB407729.1|EB407729
EST:     CGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGC                         TGGCGTACTGGGGCTGCTATGGCGCGGGGGCGCCGTTCGGCCGCAAGGCGG
genomic: CGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGCgtacgccccc ... gcgcgcgcagTGGCGTACTGGGGCTGCTATGGCGCGGGGGCGCCGTTCGGCCGCAAGGCGG

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: 40

GGCGCGCCCGTGCCGCACGACCTCGTCCTGCCGCTCCGCCTCGCCACCGGCGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGCgtacgccccc ... gcgcgcgcagTGGCGTACTGGGGCTGCTATGGCGCGGGGGCGCCGTTCGGCCGCAAGGCGGAGGACCCGGAGCCCGGGCGGTGCCGGCGGACGGACGGCAAGAAGTGGCG


Block sizes: 28 (upstream exon), 22 (downstream exon)
Score: 2

GGCGCGCCCGTGCCGCACGACCTCGTCCTGCCGCTCCGCCTCGCCACCGGCGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGCgtacgccccc ... gcgcgcgcagTGGCGTACTGGGGCTGCTATGGCGCGGGGGCGCCGTTCGGCCGCAAGGCGGAGGACCCGGAGCCCGGGCGGTGCCGGCGGACGGACGGCAAGAAGTGGCG


Block sizes: 16 (upstream exon), 34 (downstream exon)
Score: 1

GGCGCGCCCGTGCCGCACGACCTCGTCCTGCCGCTCCGCCTCGCCACCGGCGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGCgtacgccccc ... gcgcgcgcagTGGCGTACTGGGGCTGCTATGGCGCGGGGGCGCCGTTCGGCCGCAAGGCGGAGGACCCGGAGCCCGGGCGGTGCCGGCGGACGGACGGCAAGAAGTGGCG


Block sizes: 48 (upstream exon), 46 (downstream exon)
Score: 22

GGCGCGCCCGTGCCGCACGACCTCGTCCTGCCGCTCCGCCTCGCCACCGGCGTCGACACCGCGCCCTCCCTCGCCTTCCCGCCCCAGCCTTCGCCGTCGCgtacgccccc ... gcgcgcgcagTGGCGTACTGGGGCTGCTATGGCGCGGGGGCGCCGTTCGGCCGCAAGGCGGAGGACCCGGAGCCCGGGCGGTGCCGGCGGACGGACGGCAAGAAGTGGCG