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'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAAGAAAATCATTGGATTCTCAATTGCAGCTGATGGGAGCATTATTGTCATCTGAAAGCATTTCTCTCTCTGATAACATTCATGATACATTCAAAAAATgtaaggtatcttttatggtgaaatatttattgccaataattagactgctatctaaatgtcttatggtcatgattgcatgcctagcag

Basic information

species Zea mays
transcript GRMZM2G047894_T02
intron # 15
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|78021557|gb|DV489944.1|DV489944
EST:     GATAACATTCATGATACATTCAAAAAAT                         TATGGGTTGAGCACGGTGATGAGCTGAGCCTGGAGTATGCTGGCTCTTATG
genomic: GATAACATTCATGATACATTCAAAAAATgtaaggtatc ... tgcctagcagTATGGGTTGAGCACGGTGATGAGCTGAGCCTGGAGTATGCTGGCTCTTATG
EST: gi|71428422|gb|DR809472.1|DR809472
EST:     ATACATTCAAAAAAT                         TATGGGTTGAGCACGGTGATGAGCTGAGCCTGGAGTATGCTGGCTCTTATG
genomic: ATACATTCAAAAAATgtaaggtatc ... tgcctagcagTATGGGTTGAGCACGGTGATGAGCTGAGCCTGGAGTATGCTGGCTCTTATG
EST: gi|32934739|gb|CF039551.1|CF039551
EST:     ATCTGAAAGCATTTCTCTCTCTGATAACATTCATGATACATTCAAAAAAT                         TATGGGTTGAGCACGGTGATGAGCTGAGCCTGGAGTATGCTGGCTCTTATG
genomic: ATCTGAAAGCATTTCTCTCTCTGATAACATTCATGATACATTCAAAAAATgtaaggtatc ... tgcctagcagTATGGGTTGAGCACGGTGATGAGCTGAGCCTGGAGTATGCTGGCTCTTATG
EST: gi|5296286|gb|AI783056.1|AI783056
EST:     ATCTGAAAGCATTTCTCTCTCTGATAACATTCATGATACATTCAAAAAAT                         TATGGGTTGAGCACGGTGATGAGCTGAGCCTGGAGTATGCTGGCTCTTATG
genomic: ATCTGAAAGCATTTCTCTCTCTGATAACATTCATGATACATTCAAAAAATgtaaggtatc ... tgcctagcagTATGGGTTGAGCACGGTGATGAGCTGAGCCTGGAGTATGCTGGCTCTTATG
EST: gi|31348859|gb|CD433216.1|CD433216
EST:     ATCTGAAAGCATTTCTCTCTCTGATAACATTCATGATACATTCAAAAAAT                         TATGGGTTGAGCACGGTGATGAGCTGAGCCTGGAGTATGCTGGCTCTTATG
genomic: ATCTGAAAGCATTTCTCTCTCTGATAACATTCATGATACATTCAAAAAATgtaaggtatc ... tgcctagcagTATGGGTTGAGCACGGTGATGAGCTGAGCCTGGAGTATGCTGGCTCTTATG
EST: gi|40335862|gb|CK369932.1|CK369932
EST:     ATCTGAAAGCATTTCTCTCTCTGATAACATTCATGATACATTCNAAAAAT                         TATGGGTTGAGCACGGTGATGAGCTGAGCCT
genomic: ATCTGAAAGCATTTCTCTCTCTGATAACATTCATGATACATTCAAAAAATgtaaggtatc ... tgcctagcagTATGGGTTGAGCACGGTGATGAGCTGAGCCT
EST: gi|71325384|gb|DR799369.1|DR799369
EST:     ATCTGAAAGCATTTCTCTCTCTGATAACATTCATGATACATTCAAAAAAT                         TATGGGTTGAGCACGGTGATGAGCTGAGCCTGGAGTATGCTGGCTCTTATG
genomic: ATCTGAAAGCATTTCTCTCTCTGATAACATTCATGATACATTCAAAAAATgtaaggtatc ... tgcctagcagTATGGGTTGAGCACGGTGATGAGCTGAGCCTGGAGTATGCTGGCTCTTATG
EST: gi|71311517|gb|DR792122.1|DR792122
EST:     ATCTGAAAGCATTTCTCTCTCTGATAACATTCATGATACATTCAAAAAAT                         TATGGGTTGAGCACGGTGATGAGCTGAGCCTGGAGTATGCTGGCTCTTATG
genomic: ATCTGAAAGCATTTCTCTCTCTGATAACATTCATGATACATTCAAAAAATgtaaggtatc ... tgcctagcagTATGGGTTGAGCACGGTGATGAGCTGAGCCTGGAGTATGCTGGCTCTTATG
EST: gi|60343346|gb|DN210319.1|DN210319
EST:     ATCTGAAAGCATTTCTCTCTCTGATAACATTCATGATACATTCAAAAAAT                         TATGGGTTGAGCACGGTGATGAGCTGAGCCTGGAGTATGCTGGCTCTTATG
genomic: ATCTGAAAGCATTTCTCTCTCTGATAACATTCATGATACATTCAAAAAATgtaaggtatc ... tgcctagcagTATGGGTTGAGCACGGTGATGAGCTGAGCCTGGAGTATGCTGGCTCTTATG
EST: gi|5846902|gb|AI999985.1|AI999985
EST:     ATCTGAAAGCATTTCTCTCTCTGATAACATTCATGATACATTCAAAAAAT                         TATGGGTTGAGCACGGTGATGAGCTGAGCCTGGAGTATGCTGGCTCTTATG
genomic: ATCTGAAAGCATTTCTCTCTCTGATAACATTCATGATACATTCAAAAAATgtaaggtatc ... tgcctagcagTATGGGTTGAGCACGGTGATGAGCTGAGCCTGGAGTATGCTGGCTCTTATG
EST: gi|32850672|gb|CD990353.1|CD990353
EST:     ATCTGAAAGCATTTCTCTCTCTGATAACATTCGTGATACATTCAAAAAAT                         TATGGGTTGAGCACGGTGATGAGCTGAGCCTGGAGTATGCTGGCTCTTATG
genomic: ATCTGAAAGCATTTCTCTCTCTGATAACATTCATGATACATTCAAAAAATgtaaggtatc ... tgcctagcagTATGGGTTGAGCACGGTGATGAGCTGAGCCTGGAGTATGCTGGCTCTTATG

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: 130

GCAAGAAAATCATTGGATTCTCAATTGCAGCTGATGGGAGCATTATTGTCATCTGAAAGCATTTCTCTCTCTGATAACATTCATGATACATTCAAAAAATgtaaggtatc ... tgcctagcagTATGGGTTGAGCACGGTGATGAGCTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 115

GCAAGAAAATCATTGGATTCTCAATTGCAGCTGATGGGAGCATTATTGTCATCTGAAAGCATTTCTCTCTCTGATAACATTCATGATACATTCAAAAAATgtaaggtatc ... tgcctagcagTATGGGTTGAGCACGGTGATGAGCTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 127

GCAAGAAAATCATTGGATTCTCAATTGCAGCTGATGGGAGCATTATTGTCATCTGAAAGCATTTCTCTCTCTGATAACATTCATGATACATTCAAAAAATgtaaggtatc ... tgcctagcagTATGGGTTGAGCACGGTGATGAGCTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 176

GCAAGAAAATCATTGGATTCTCAATTGCAGCTGATGGGAGCATTATTGTCATCTGAAAGCATTTCTCTCTCTGATAACATTCATGATACATTCAAAAAATgtaaggtatc ... tgcctagcagTATGGGTTGAGCACGGTGATGAGCTGAGCCTGGAGTATGCTGGCTCTTATGCTTTGAAAGGGGATCTAGTGAG