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

gtgagtattttctaatgaaaagccctcacttatttttatgaacaattttactatattttcattgttaattacttcgttgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACGCCAGGTTGGTGGAGACTGAAGATGCTGATCTACTTGGCATGGAAAGGAT

Basic information

species Zea mays
transcript GRMZM2G013600_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G013600_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g38960.1 (Oryza sativa), 3'ss of exon 5
gtgagtattttctaatgaaaagccctcacttatttttatgaacaattttactatattttcattgttaattacttcgttgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACGCCAGGTTGGTGGAGACTGAA--GATGCTGAT-CTACTTGGCATGGAAAGGAT
|||||    ||  ||| |||  |  | |  | |||      |   | | ||   ||| | || ||| | |   | ||| | | | || ||||| |||||||| || |||||||| |||||||||||||||||||||||||||||||| || | || |   |   ||||  |||||    | | | ||   
gtgaga---tttgaataaaagacatttatgtgtttcct--gattttgtaacctcattataatagtttactgtgt-gttcaaatatagCTATGAGGACTGGGGCGTTGACGAGCTTATTGTGGAGGACTCCTGGAAACGCCAGGTTGGAGGCGGCTAAGCTGTGACTGAGGCTACTCAAAACGAACAG---

upper sequence: GRMZM2G013600_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA10G38350.2 (Glycine max), 3'ss of exon 5
--------------gtgagtattttctaatgaaaagccctcacttatttttatgaacaattttactatattttc-attgttaattacttcgttgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACGCCAGGTTGGTGGAGACTGAAGATGCTGATCTACTTGGCATGGAAAGGAT--
               | |   |||| |  ||    |       | |  || || |   ||| | | ||| |  |  |  | | ||  | |     |  ||||||||||||| |||||||| || || || |||||||| |||||||||||  | || || ||||| || ||| |||  ||| ||    ||  |||  ||     
gtaaaatagtggccattatacttttttcttggttgggggaggttaaggttgataa--cattatgccatactgactgtcatcattttttgcaaaattctacagTTATGAAGATTGGGGAGTCGATGAACTGATTGTGGAAGACTCCTGGAAGAGGCAAGTGGGTGGTGATTGATGAT--TGAACTGACAGGTGTGGGGAGAGGAG
















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|211199640|gb|FL066446.1|FL066446
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTC
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTC
EST: gi|211199631|gb|FL066437.1|FL066437
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGC
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGC
EST: gi|211133103|gb|FL066425.1|FL066425
EST:     AGAGCGCGCAAGATACCCTTCAYKATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGARGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|149086214|gb|EE175754.2|EE175754
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|211202196|gb|FL066454.1|FL066454
EST:     ANAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGG
EST: gi|211204764|gb|FL066465.1|FL066465
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|149071159|gb|EE159556.2|EE159556
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|211133109|gb|FL066431.1|FL066431
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|211199637|gb|FL066443.1|FL066443
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATT
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATT
EST: gi|211306499|gb|FL467490.1|FL467490
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|148979713|gb|EE026786.2|EE026786
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|15426720|gb|BI542542.1|BI542542
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|78107711|gb|DV526129.1|DV526129
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|60397946|gb|DN230762.1|DN230762
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|60399144|gb|DN231958.1|DN231958
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|32908904|gb|CF013717.1|CF013717
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|33771068|gb|CF273362.1|CF273362
EST:     ANAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|78107710|gb|DV526128.1|DV526128
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|211202197|gb|FL066455.1|FL066455
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|71764952|gb|DR962889.1|DR962889
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|6636953|gb|AW261225.1|AW261225
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|211132176|gb|FL066413.1|FL066413
EST:     AGAGCGCGCAWGATACCCTTCACGATCAGACGGTACCTACCTGATGGAMG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|18170633|gb|BM340473.1|BM340473
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|211133100|gb|FL066422.1|FL066422
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGCGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|211202193|gb|FL066451.1|FL066451
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|60347864|gb|DN214837.1|DN214837
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTANACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|211131245|gb|FL066397.1|FL066397
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCAKTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|211133104|gb|FL066426.1|FL066426
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCA
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCA
EST: gi|60352879|gb|DN219852.1|DN219852
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGA
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGA
EST: gi|60350323|gb|DN217296.1|DN217296
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|60357727|gb|DN224700.1|DN224700
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|93017559|gb|EB643079.1|EB643079
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|211502196|gb|FK951723.1|FK951723
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|60396800|gb|DN229628.1|DN229628
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|149102013|gb|EE287504.2|EE287504
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|74235059|gb|DT642973.1|DT642973
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|84977260|gb|DW475682.1|DW475682
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|211199639|gb|FL066445.1|FL066445
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|149086215|gb|EE175755.2|EE175755
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|211502195|gb|FK951722.1|FK951722
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|211202192|gb|FL066450.1|FL066450
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|211199641|gb|FL066447.1|FL066447
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCA
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCA
EST: gi|211199629|gb|FL066435.1|FL066435
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAAGACGAGCTC
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTA-GACGAGCTC
EST: gi|32855906|gb|CD995587.1|CD995587
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|6601607|gb|AW256153.1|AW256153
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|15426767|gb|BI542589.1|BI542589
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAA
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAA
EST: gi|211132177|gb|FL066414.1|FL066414
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|211132173|gb|FL066410.1|FL066410
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGGTGGAGGACTCCTGGAAAC
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTG-TGGAGGACTCCTGGAAAC
EST: gi|211132170|gb|FL066407.1|FL066407
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|211377054|gb|FK951720.1|FK951720
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|110968125|gb|EE188025.1|EE188025
EST:     GAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTCCCTGATGGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAAC
genomic: GAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGAT-GGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAAC
EST: gi|33771081|gb|CF272742.1|CF272742
EST:     ANAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|149071158|gb|EE159555.2|EE159555
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|37426097|gb|CF650799.1|CF650799
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|211199634|gb|FL066440.1|FL066440
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACT
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACT
EST: gi|71764951|gb|DR962888.1|DR962888
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
EST: gi|211377055|gb|FK951721.1|FK951721
EST:     AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAG                         TTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG
genomic: AGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACG

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: 34 (upstream exon), 49 (downstream exon)
Score: 1476

ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACGCCAGGTTGGTGGAGACTGAAGATGCTGATCTACTTGGCATGGAAAGGAT


Block sizes: 34 (upstream exon), 49 (downstream exon)
Score: 437

ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACGCCAGGTTGGTGGAGACTGAAGATGCTGATCTACTTGGCATGGAAAGGAT


Block sizes: 34 (upstream exon), 48 (downstream exon)
Score: 286

ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACGCCAGGTTGGTGGAGACTGAAGATGCTGATCTACTTGGCATGGAAAGGAT


Block sizes: 34 (upstream exon), 48 (downstream exon)
Score: 558

ATTGCGATGAAGGAGCTTAGAGCGCGCAAGATACCCTTCACGATCAGACGGTACCTACCTGATGGAAGgtgagtattt ... tgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACGCCAGGTTGGTGGAGACTGAAGATGCTGATCTACTTGGCATGGAAAGGAT




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttatgaacaattttactatattttcattgttaattacttcgttgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACGCCAGGTTGGTGGAGACTGAAGATGCTGATCTACTTGGCATGGAAAGGAT
                                       cttcgtt  CT-rich tract
     atgaacaattttacta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtattttctaatgaaaagccctcacttatttttatgaacaattttactatattttcattgttaattacttcgttgataaacagTTATGAAGACTGGGGAGTAGACGAGCTCATTGTGGAGGACTCCTGGAAACGCCAGGTTGGTGGAGACTGAAGATGCTGATCTACTTGGCATGGAAAGGAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA