Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctacttacgtattctccggtcctgcttccgttttatacttgttccctgtactgactgaccatatatgttccgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGACAGACCGATGTAATCGTCTTCTGTAGCGGCGGGTTCGAGAATCCAGGCA

Basic information

species Zea mays
transcript GRMZM2G179737_T03
intron # 6
splice site 3'
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|18385139|gb|BM418338.1|BM418338
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGTCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|110515503|gb|EE020091.1|EE020091
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCCAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|93012420|gb|EB637940.1|EB637940
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|91054011|gb|EB164429.1|EB164429
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|19351534|gb|BM896066.1|BM896066
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGTCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|149014431|gb|EE044038.2|EE044038
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|20507208|gb|BQ279531.1|BQ279531
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGTCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|71432608|gb|DR813658.1|DR813658
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|19350892|gb|BM895424.1|BM895424
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGCCAGGGGTAGCGTCAAGGAGAGTCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|149110590|gb|EE294202.2|EE294202
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
EST: gi|4610088|gb|AI600927.1|AI600927
EST:     CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAAT                         GACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA
genomic: CGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGA

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), 49 (downstream exon)
Score: 252

CGAGAACTGCAACAATGGTTTCGGAAGAAACCGCATCACCTACACAGACACGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGACAGACCGATGTAATCGTCTTCTGTAGCGGCGGGTTCGAGAATCCAGGCA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 512

CGAGAACTGCAACAATGGTTTCGGAAGAAACCGCATCACCTACACAGACACGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGACAGACCGATGTAATCGTCTTCTGTAGCGGCGGGTTCGAGAATCCAGGCA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 328

CGAGAACTGCAACAATGGTTTCGGAAGAAACCGCATCACCTACACAGACACGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGACAGACCGATGTAATCGTCTTCTGTAGCGGCGGGTTCGAGAATCCAGGCA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 539

CGAGAACTGCAACAATGGTTTCGGAAGAAACCGCATCACCTACACAGACACGTGTACCGGTCAAGATCTGAAGAAATACCACAACATGGATGCCATCAATgtaagctact ... cgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGACAGACCGATGTAATCGTCTTCTGTAGCGGCGGGTTCGAGAATCCAGGCA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttccgttttatacttgttccctgtactgactgaccatatatgttccgcacggcagGACCTGGTAGTGTCAGGGGTAGCGTCAAGGAGAGCCAACCACCCAAGTGGACAGACCGATGTAATCGTCTTCTGTAGCGGCGGGTTCGAGAATCCAGGCA
     ttttatactt  TA-rich tract