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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacttgatattgatattacagcttagatgaaagtaacttgtttatggtagcgagcgtggaactgatgtttgatcctgtgcaatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGAGTCCACCGGTGTCTTCACTGACAAGGAGAAGGCTGCTGCTCACTTGAAG

Basic information

species Oryza sativa
transcript LOC_Os08g03290.3
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g03290.3 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G046804_T02 (Zea mays), 3'ss of exon 4
gtaacttgatattgatattacagcttagatgaaagtaacttgtttatggtagcgagcgtggaactgatgtttgatcctgtgcaatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGAGTCCACCGGTGTCTTCACTGACAAGGAGAAGGCTGCTGCTCACTTGAAG
||  ||      |  |  | | |   ||| |           |||  | |  |||||   || || |||| | | |   ||| |||  | ||||||||||| || || ||||||| ||||||||| |||||||||||||||||||||||||| ||||||||||||||||| ||||||||||| ||  | |||
gtg-ctcccctctcctgcttc-gtccagacgtggactgagcttttgcgtt--cgagctgtgagctaatgtattaactgctgcgattctacagGAACCCTGAGGAAATCCCGTGGGGTGAGGCTGGCGCTGAGTATGTCGTGGAGTCCACCGGCGTCTTCACTGACAAGGACAAGGCTGCTGCACATCTCAAG

upper sequence: LOC_Os08g03290.3 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G180625_T02 (Zea mays), 3'ss of exon 4
gtaacttgatattgatattacagcttagatgaaagtaacttgtttatggtagcgagcgtggaactgatgtttgatcctgtgcaatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGAGTCCACCGGTGTCTTCACTGACAAGGAGAAGGCTGCTGCTCACTTGAAG
||          |     | |  |  |||   | | |    ||||| |    | |||   || ||  ||||||| ||  ||| | |  | |||||||| || ||||| ||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||| ||  |||||
gtgctccccctctcccgctccttcc-agagacacggattgcgtttacgtgttctagctgtgagctagtgtttgaaccgctgcgagtctacagGAACCCCGAGGAGATCCCGTGGGGTGAGGCTGGTGCTGAGTATGTCGTGGAGTCCACCGGTGTCTTCACTGACAAGGACAAGGCTGCTGCACATCTGAAG

upper sequence: LOC_Os08g03290.3 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA11G37360.1 (Glycine max), 3'ss of exon 4
gtaacttgatattgatattacagcttagatgaaagtaacttgtttatggtagcgagcgtggaactgatgt-ttgatcctgtgcaatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGAGTCCACCGGTGTCTTCACTGACAAGGAGAAGGCTGCTGCTCACTTGAAG
||||    ||     | |      ||  |   |||    |  || ||| |  |     |  | || ||   ||||||   |    |     ||||||||||| || ||||| |||| ||||| ||||||||| ||||| || ||||| || || || |||||||||||||| |||||||||||||||||||||
gtaaaac-atgcctctttcttgtgttttacttaagcctatgattcatgtt--ctttttttaatctaattcgttgatctaatttgttgcctcagGAACCCTGAGGAAATTCCATGGGGTGAGGTTGGTGCTGATTATGTTGTTGAGTCAACTGGCGTATTCACTGACAAGGACAAGGCTGCTGCTCACTTGAAG

upper sequence: LOC_Os08g03290.3 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA18G01330.1 (Glycine max), 3'ss of exon 4
---------------------gtaacttgatattgatattacagcttagatgaaagtaacttgtttatggtagcgagcgtggaactgatgtttgatcctgtgcaatttgaa-------------agGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGAGTCCACCGGTGTCTTCACTGACAAGGAGAAGGCTGCTGCTCACTTGAAG
                     ||   ||  | || ||  || | ||  |||    ||  || |    | | |     | ||   ||  | | |  |    |  |||| |               ||||||||||| || ||||| |||| ||||| ||||||||| ||||| || ||||| || ||||| |||||||||||||| |||||||||||||||||||||
gtaaactgatgcctctttcttgtgttttacttttaat--taaatctatgatttgtgtccctggacactaggactttacatgttccttttttcttttttaatctaattcgttgtcttgttgcctcagGAACCCTGAGGAAATTCCATGGGGTGAGGTTGGTGCTGATTATGTTGTTGAGTCAACTGGTGTATTCACTGACAAGGACAAGGCTGCTGCTCACTTGAAG

upper sequence: LOC_Os08g03290.3 (Oryza sativa), 3'ss of exon 3
lower sequence: AT3G04120.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaacttgat--attgatattacagct---tagatgaaagtaacttgtttatggtagcgagcgtggaactgatgtttgatcctgtgcaatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGAGTCCACCGGTGTCTTCACTGACAAGGAGAAGGCTGCTGCTCACTTGAAG
|||  || ||  |    |  |    ||   |   || |   |  ||    |  || | ||   |  | || ||   |  |  |  | | ||   |||||||||||| || || || ||||| |||||||| ||||| || || || ||||| || ||||||||||||||||| || |||||||| ||||||||||||
gtacatttatcaaccagttctctgtctctttgcgtgtatacatattacaaactgttgtgaatttcaatctcat---tagtttttggtatttgtgaagGAACCCTGAGGATATCCCATGGGCCGAGGCTGGAGCTGACTACGTTGTTGAGTCTACTGGTGTCTTCACTGACAAAGACAAGGCTGCAGCTCACTTGAAG

upper sequence: LOC_Os08g03290.3 (Oryza sativa), 3'ss of exon 3
lower sequence: AT1G13440.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaacttgatattgatattacagcttagatgaaagtaacttgtt-tatggtagcgagc-gtggaactgatgtttgatcctgtgcaatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGAGTCCACCGGTGTCTTCACTGACAAGGAGAAGGCTGCTGCTCACTTGAAG
|||  |    || |||  |     |   ||    ||    |||| | |  | | |||  ||| || |    ||||      |  | |||  |||||||||||| || || || |||| ||||||||| ||||| | ||| || ||||| || ||||||||||||||||| || |||||||||||||||||||||
gtacataatcatggatgattttatt---atagtggttctctgttatgttattgagagttgtgaaattctgatttgtggtgttttatttttgaagGAACCCTGAGGACATCCCATGGGGTGAGGCTGGAGCTGACTTTGTTGTTGAGTCTACTGGTGTCTTCACTGACAAAGACAAGGCTGCTGCTCACTTGAAG

upper sequence: LOC_Os08g03290.3 (Oryza sativa), 3'ss of exon 3
lower sequence: Vv17s0000g10430.t01 (Vitis vinifera), 3'ss of exon 4
gtaacttgatattgatattacagcttagatgaaagtaacttgtttatggtagcgagcgtggaactgat--gtttgatcctgtg-caatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGAGTCCACCGGTGTCTTCACTGACAAGGAGAAGGCTGCTGCTCACTTGAAG
|||  ||  | |  || |  ||  |  |||   | ||  || ||  |  ||| ||       | |  |     | || ||||  | ||||   |||||||| || |||||||| |||| |||| | || ||||| | ||| || ||||| || ||||| |||||||||||||| ||||||||||| || ||||||
gta--ttattctcaatttcccaagtgggatattatta--ttattatt--tagtgacttccagatttgttaagatcatgctgtatccatttttcagGAACCCAGAGGAGATTCCATGGGGTGAGACCGGAGCTGAATTTGTTGTTGAGTCAACTGGTGTGTTCACTGACAAGGACAAGGCTGCTGCCCATTTGAAG

upper sequence: LOC_Os08g03290.3 (Oryza sativa), 3'ss of exon 3
lower sequence: Vv14s0171g00440.t01 (Vitis vinifera), 3'ss of exon 3
gtaacttgat--attgatattacagcttagatgaaagtaacttgtttatggtagcgagcgtggaactgatgtttgatcctgtgcaatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGAGTCCACCGGTGTCTTCACTGACAAGGAGAAGGCTGCTGCTCACTTGAAG
||||   |    |||    | |    |    || | | ||   | ||  | |    ||  ||    || ||| |  |    | || ||    ||||||||||| ||||| || |||| ||||||||| || || ||||| || |||||||| ||||| |||||||| ||||| || |||||    || ||||||
gtaatgaggataattctcttcatgtttcttttggatgaaaagggatttagatcctcagt-tgatgatgttgtcttctttctttca-ttgtctagGAACCCTGAGGAGATCCCATGGGGTGAGGCTGGAGCCGAATATGTGGTCGAGTCCACTGGTGTTTTCACTGATAAGGACAAAGCTGCCCTGCATTTGAAG

upper sequence: LOC_Os08g03290.3 (Oryza sativa), 3'ss of exon 3
lower sequence: Vv01s0010g02460.t01 (Vitis vinifera), 3'ss of exon 4
------------gtaacttgatattgatattacagcttagatgaaagtaacttgtttatggtagcgagcgtggaact-gatgtttgatcctgtgcaatt---tgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGAGTCCACCGGTGTCTTCACTGACAAGGAGAAGGCTGCTGCTCACTTGAAG
             |  ||||| |||| |||  | | ||   || |    |  ||      |    |||  ||| | |  ||||   |   | |    ||   |   |||||||| || ||||| || ||||||||| | |||||||| ||||| ||||| || || || || |||||||||||||| ||||| ||||| |||||||||
gtggggtttgaattttcttga-attg-tatggctgtttgattggagaagaagtg---ggagatttgagtttgggattcaatgtgctactttttttggttgattttcagGAACCCAGAAGAGATCCCATGGGCTGAGACCGGTGCTGACTATGTTGTGGAATCTACTGGAGTGTTCACTGACAAGGACAAGGCCGCTGCCCACTTGAAG

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|58669365|gb|CK058051.1|CK058051
EST:     TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|29612744|gb|CB617757.1|CB617757
EST:     TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|218501531|gb|FG968460.1|FG968460
EST:     TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|33793468|gb|CF322616.1|CF322616
EST:     TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|11172167|gb|AU164149.1|AU164149
EST:     TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|58592989|gb|CF991297.1|CF991297
EST:     TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|5851015|gb|AU078187.1|AU078187
EST:     TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|29612772|gb|CB617785.1|CB617785
EST:     TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|568853|gb|D39702.1|D39702
EST:     TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|38477397|gb|CF961530.1|CF961530
EST:     CTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: CTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|218500788|gb|FG960828.1|FG960828
EST:     TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|55828142|gb|AU062584.3|AU062584
EST:     CCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: CCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|58679933|gb|CK068620.1|CK068620
EST:     TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|58674916|gb|CK063603.1|CK063603
EST:     TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|56158068|gb|C72316.2|C72316
EST:     TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTNCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|33794940|gb|CF323350.1|CF323350
EST:     TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|58595573|gb|CK006101.1|CK006101
EST:     CCAAGACTCTGCTCTTGTGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: CCAAGACTCTGCTCTTG-GGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|218494958|gb|FG965713.1|FG965713
EST:     AAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: AAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|218489362|gb|FG964814.1|FG964814
EST:     TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|58696025|gb|CK084712.1|CK084712
EST:     TCCAAGACTCTGCTCTTGGGCGAGAAG-CGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|29612742|gb|CB617755.1|CB617755
EST:     TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|29617660|gb|CB622672.1|CB622672
EST:     TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|33795521|gb|CF323630.1|CF323630
EST:     TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|11442807|gb|BF430706.1|BF430706
EST:     CTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: CTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|58689282|gb|CK077969.1|CK077969
EST:     TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|218498172|gb|FG949784.1|FG949784
EST:     TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|218499384|gb|FG947815.1|FG947815
EST:     TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
EST: gi|29612746|gb|CB617759.1|CB617759
EST:     TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAG                         GAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA
genomic: TCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGA

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: 74 (upstream exon), 75 (downstream exon)
Score: 329

ACGATACCGTGCACGGCCAATGGAAGCACAGCGACATCAAGATCAAGGACTCCAAGACTCTGCTCTTGGGCGAGAAGCCGGTCACCGTTTTCGGCATCAGgtaacttgat ... aatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGAGTCCACCGGTGTCTTCACTGACAAGGAGAAGGCTGCTGCTCACTTGAAG




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttgtttatggtagcgagcgtggaactgatgtttgatcctgtgcaatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGAGTCCACCGGTGTCTTCACTGACAAGGAGAAGGCTGCTGCTCACTTGAAG
                                             aatttgaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaacttgatattgatattacagcttagatgaaagtaacttgtttatggtagcgagcgtggaactgatgtttgatcctgtgcaatttgaaagGAACCCTGACGAGATTCCGTGGGCTGAGGCTGGTGCTGAGTATGTCGTGGAGTCCACCGGTGTCTTCACTGACAAGGAGAAGGCTGCTGCTCACTTGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG