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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttagtagttttccgatgactttacagtttgtcagaaatgcggctgcctattttctgggtgctgtctgtctttctaggctctagaatgttctgctgcaagatgacacttttttgttttgttttgtacattgtgcttgcagACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCTCCCGGATGCAACATGGAAAGCAACAATCCCCCAGAAAAGACAGCTAATG

Basic information

species Zea mays
transcript GRMZM5G823750_T05
intron # 5
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|78116573|gb|DV534960.1|DV534960
EST:     ATCAATTTCAAGAGAGACAATTACAAACACT                         ACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
genomic: ATCAATTTCAAGAGAGACAATTACAAACACTgtgagttagt ... gtgcttgcagACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
EST: gi|6056596|gb|AW091001.1|AW091001
EST:     ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACT                         ACACCATTTGGAGAAATGATGGAGGATTCAC
genomic: ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACTgtgagttagt ... gtgcttgcagACACCATTTGGAGAAATGATGGAGGATTCAC
EST: gi|60345643|gb|DN212616.1|DN212616
EST:     ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACT                         ACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
genomic: ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACTgtgagttagt ... gtgcttgcagACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
EST: gi|60338165|gb|DN205138.1|DN205138
EST:     ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACT                         ACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
genomic: ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACTgtgagttagt ... gtgcttgcagACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
EST: gi|5791479|gb|AI978271.1|AI978271
EST:     ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACT                         ACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
genomic: ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACTgtgagttagt ... gtgcttgcagACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
EST: gi|60395120|gb|DN227989.1|DN227989
EST:     ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACT                         ACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
genomic: ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACTgtgagttagt ... gtgcttgcagACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
EST: gi|60342423|gb|DN209396.1|DN209396
EST:     ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACT                         ACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
genomic: ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACTgtgagttagt ... gtgcttgcagACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
EST: gi|6022643|gb|AW067455.1|AW067455
EST:     ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACT                         ACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGNATACTGGGTTCT
genomic: ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACTgtgagttagt ... gtgcttgcagACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
EST: gi|76013571|gb|DT940741.1|DT940741
EST:     ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACT                         ACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
genomic: ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACTgtgagttagt ... gtgcttgcagACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
EST: gi|211478590|gb|FL369717.1|FL369717
EST:     ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACT                         ACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
genomic: ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACTgtgagttagt ... gtgcttgcagACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
EST: gi|116816691|gb|EC859456.1|EC859456
EST:     ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACT                         ACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
genomic: ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACTgtgagttagt ... gtgcttgcagACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
EST: gi|78116157|gb|DV534545.1|DV534545
EST:     ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACT                         ACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
genomic: ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACTgtgagttagt ... gtgcttgcagACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
EST: gi|76011113|gb|DT938283.1|DT938283
EST:     ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACT                         ACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
genomic: ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACTgtgagttagt ... gtgcttgcagACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
EST: gi|5917410|gb|AW054201.1|AW054201
EST:     ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACT                         ACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
genomic: ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACTgtgagttagt ... gtgcttgcagACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
EST: gi|211362094|gb|FL443138.1|FL443138
EST:     ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACT                         ACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
genomic: ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACTgtgagttagt ... gtgcttgcagACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
EST: gi|211084172|gb|FL469478.1|FL469478
EST:     ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACT                         ACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
genomic: ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACTgtgagttagt ... gtgcttgcagACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
EST: gi|94477438|gb|EB706396.1|EB706396
EST:     ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACT                         ACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
genomic: ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACTgtgagttagt ... gtgcttgcagACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
EST: gi|76011927|gb|DT939097.1|DT939097
EST:     ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACT                         ACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
genomic: ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACTgtgagttagt ... gtgcttgcagACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
EST: gi|166433201|gb|EG125169.1|EG125169
EST:     ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACT                         ACACCATTTGGAGAAATGA
genomic: ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACTgtgagttagt ... gtgcttgcagACACCATTTGGAGAAATGA
EST: gi|29544924|gb|CB605532.1|CB605532
EST:     ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACT                         ACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT
genomic: ACTCTGATGATGTGGCTAGATCAATTTCAAGAGAGACAATTACAAACACTgtgagttagt ... gtgcttgcagACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgttctgctgcaagatgacacttttttgttttgttttgtacattgtgcttgcagACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCTCCCGGATGCAACATGGAAAGCAACAATCCCCCAGAAAAGACAGCTAATG
                      ttttttgttttgtttt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagttagtagttttccgatgactttacagtttgtcagaaatgcggctgcctattttctgggtgctgtctgtctttctaggctctagaatgttctgctgcaagatgacacttttttgttttgttttgtacattgtgcttgcagACACCATTTGGAGAAATGATGGAGGATTCACTGGCTTGTATACTGGGTTCTCCCGGATGCAACATGGAAAGCAACAATCCCCCAGAAAAGACAGCTAATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA