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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattgtttctgtcttatctattgaatatagaagatgcgggagttaggagatacttgtcatttattgtaagacttccttttatttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATACCTAGTGCTGCTGGGAGCTGAATGTGCTTTATTTGCCTTAGATTTTGGA

Basic information

species Oryza sativa
transcript LOC_Os04g56646.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g56646.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G061745_T02 (Zea mays), 3'ss of exon 8
--------------------------------------------------gtaaattgtttc-tgtcttatc--tattgaatatagaagatgcgggagttaggagatactt--gtcatttattgtaagacttccttttatttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATACCTAGTGCTGCTGGGAGCTGAATGTGCTTTATTTGCCTTAGATTTTGGA--
                                                  ||| || | ||  |  ||||     |||||  |      |||     | |      | ||   | |||  | | |      |   ||  | |||||||||||||||||||||||||| ||||| |||||||||||||| ||||||||||| |||| |||||| || |||| || |||||||  |   |   ||||   |   
gttgattcatatctgtttctgatactgtttcagtcatgtatgcattccttgtagataggttgataccttagtgacattgatcacttgtaatggaatcgctcaattttgctgtggacatgaaatcttgtctgttaattgctgtgattccagATGCTAAACAAGGAGCACGAGAAGGCCGAGGATTCGAAACCAACCGCCATTCCTACTGCTGCCGGAAGCTAAACGTGCTTT--TGATCACTGATTGGTGGCT

upper sequence: LOC_Os04g56646.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G368908_T02 (Zea mays), 3'ss of exon 8
------------------------------------------------------gtaaattgtttctgtcttatc--tattgaatatagaagatgcgggagttaggagatactt--gtcatttattgtaagacttccttttatttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATACCTAGTGCTGCTGGGAGCTGAATGTGCTTTATTTGCCTTAGATTTTGGA-
                                                      ||| ||| ||  ||||||      |||||  |      |||       |      | ||     |||  | | |      |   ||  | |||||||||||||||||||||||||||||||| || ||||||||||| ||| ||||||| || | |||||| ||  |  |   | |||  ||  || || |||     | 
gttggttgtttttatctgcttctggtgctgtttcagtcccttggtgcatcccttgtagatt-ttgatgtctttgtgacattgaccactagtaatgaaatcactcaattttgctgtgagcatgaaatctggtctgttaattgctgtgattccagATGCTAAACAAGGAGCATGAGAAGGCTGAGGATTCGAAACCAGCCGCCATTCCAACTGCTGCCGGTGGA-GGGGGAGCTAAATGAGCTTTTGATCACTTAT

upper sequence: LOC_Os04g56646.1 (Oryza sativa), 3'ss of exon 9
lower sequence: Vv08s0007g01980.t01 (Vitis vinifera), 3'ss of exon 9
----------gtaaattgtttctgtcttatctattgaatatagaagatgcgggagttaggagatacttgtcatttattgtaagacttccttttatttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATACCTAGTGCTGCTGGGAGCTGAATGTGCTTTATTTGCCTTAGATTTTGGA-
           |  ||| ||| | | ||  || ||  ||        |        ||| | |    | |  || ||  | | ||   |   | || | || |||||||| ||||| |||||||||||||| |||||| | |||||| | ||| | ||    | |||||| |||||||  ||   | |||   || |  | |||| 
gctcctgtagttggatttttttttttttccctttttgatgctttctctctta----tagaaaaagtatctagttgatctttacacactcaaat-ttggttttcagATGCTTAACAAAGAGCATGAGAAAGCTGAGGATGCAAAGCCAGCAGCCGTCCCGGCCGTTGCTGGAAGCTGAACATGGACT-TTTTTATTGGTCTCTGGAG

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|88455285|gb|CI519306.1|CI519306
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|86251786|gb|CI018978.1|CI018978
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|86866140|gb|CI336843.1|CI336843
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88980730|gb|CI022426.1|CI022426
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88438925|gb|CI531105.1|CI531105
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|89197866|gb|CI013856.1|CI013856
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88508110|gb|CI435616.1|CI435616
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88975644|gb|CI021726.1|CI021726
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|86487268|gb|CI129901.1|CI129901
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAGGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|29619208|gb|CB624220.1|CB624220
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88429950|gb|CI562761.1|CI562761
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88509685|gb|CI437191.1|CI437191
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88842979|gb|CI371879.1|CI371879
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGTATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|29619248|gb|CB624260.1|CB624260
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88985211|gb|CI006865.1|CI006865
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88429832|gb|CI560057.1|CI560057
EST:     GGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: GGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|86414901|gb|CI069304.1|CI069304
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88995871|gb|CI037176.1|CI037176
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88965771|gb|CI006636.1|CI006636
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|86423679|gb|CI062440.1|CI062440
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88505833|gb|CI433339.1|CI433339
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|86594361|gb|CI251233.1|CI251233
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|2312192|gb|C28347.1|C28347
EST:     NTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88437424|gb|CI528783.1|CI528783
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88296015|gb|CI535178.1|CI535178
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88295971|gb|CI535134.1|CI535134
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|94362834|gb|CI052995.1|CI052995
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88960772|gb|CI382453.1|CI382453
EST:     CTTCTCTTATCCGGAGTGTCATCCCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88695477|gb|CI737515.1|CI737515
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88245125|gb|CI244974.1|CI244974
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|86903357|gb|CI313720.1|CI313720
EST:     CTTGTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAGACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCCCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88717102|gb|CI740612.1|CI740612
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|86252997|gb|CI057922.1|CI057922
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|86835442|gb|CI347899.1|CI347899
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|89168011|gb|CI109215.1|CI109215
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACTAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88277330|gb|CI398132.1|CI398132
EST:     ATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCNCCATA
genomic: ATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|86484401|gb|CI127034.1|CI127034
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88264112|gb|CI367886.1|CI367886
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|86876162|gb|CI325628.1|CI325628
EST:     CTTCTGTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88503694|gb|CI431200.1|CI431200
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|86873285|gb|CI341510.1|CI341510
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|86839715|gb|CI343647.1|CI343647
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGGCCGAGGATTCGAAGCCAACCGCCAT
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAA-GCCGAGGATTCGAAGCCAACCGCCAT
EST: gi|86421022|gb|CI057011.1|CI057011
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|86422198|gb|CI059771.1|CI059771
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88270531|gb|CI385789.1|CI385789
EST:     CTTCTCTTATCCGGAGTGTCATCCCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCCCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|86419860|gb|CI054661.1|CI054661
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|86511450|gb|CI154083.1|CI154083
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88263755|gb|CI366656.1|CI366656
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88273229|gb|CI388685.1|CI388685
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88958196|gb|CI095715.1|CI095715
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|86489123|gb|CI131756.1|CI131756
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88286324|gb|CI522624.1|CI522624
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88464145|gb|CI532080.1|CI532080
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|86426915|gb|CI072012.1|CI072012
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|89174923|gb|CI111121.1|CI111121
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|29619285|gb|CB624297.1|CB624297
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|12623184|gb|AU173397.1|AU173397
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTTNAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|86835221|gb|CI346696.1|CI346696
EST:     CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: CTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
EST: gi|88297400|gb|CI547878.1|CI547878
EST:     GATCAATAACAAG                         ATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA
genomic: GATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATA

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 1 RNA-Seqlibrary.


Block sizes: 72 (upstream exon), 73 (downstream exon)
Score: 98

TTAAAACAAACGATATGATGTTGGTCATATACTTGTCTTCTCTTATCCGGAGTGTCATCGCACTCCATAACTTGATCAATAACAAGgtaaattgtt ... ttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATACCTAGTGCTGCTGGGAGCTGAATGTGCTTTATTTGCCTTAGATTTTGGA




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggagttaggagatacttgtcatttattgtaagacttccttttatttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATACCTAGTGCTGCTGGGAGCTGAATGTGCTTTATTTGCCTTAGATTTTGGA
                                           atttgat  putative branch site (score: 98)
                                  cttccttttattt  CT-rich tract
                                       ttttatttgatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaattgtttctgtcttatctattgaatatagaagatgcgggagttaggagatacttgtcatttattgtaagacttccttttatttgattccagATGCTAAACAAGGAGCATGAGAAAGCCGAGGATTCGAAGCCAACCGCCATACCTAGTGCTGCTGGGAGCTGAATGTGCTTTATTTGCCTTAGATTTTGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA