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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cagagggagtatgtgctacagaaacatttctttctttgtgcaaagtgatacggttcaatctactatgctatatctaataatgactttgcgatacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCTTGCTGCTGGAATGGGGATGCCTGACAATGGCCTGAAGCTCATGTCCATG

Basic information

species Oryza sativa
transcript LOC_Os08g45040.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g45040.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G491632_T01 (Zea mays), 3'ss of exon 2
cagagggagtatgtgctacagaaacatttctttctttgtgcaaagtgatacggttcaatctactatg--------ctatatctaataatgactttgcgatacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCTTGCTGCTGGAATGGGGATGCCTGACAATGGCCTGAAGCTCATGTCCATG
          ||||| || || | ||  |  |  |    |  |   ||     | | | || || ||        || | |||||| |     ||  |||  ||||||| | |||  |||||| || || ||||| || || || ||||||||||| || ||||| || ||||| | ||||||||| |||||||||||||||||||||
-------gaaatgtggtatagga-caggttctggtacacgtgagtggaataattccgacctgctgtggcgtgtgcctgtctctaatcacaggcttcggatgattgtagGGTTAAGGTAATGTCTGGACCGGCCCCGCACACGCAGCTTGATGCAGAACTCGCTGCAGGGATGGGAAAGCCTGACAACGGCCTGAAGCTCATGTCCATG

upper sequence: LOC_Os08g45040.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA13G20550.1 (Glycine max), 3'ss of exon 2
-cagagggagtatgtgctacagaaacatttctttctttgtgcaaagtgatacggttcaatctact-atgctatatctaataatgactttgcgatacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCTTGCTGCTGGAATGGGGATGCCTGACAATGGCCTGAAGCTCATGTCCATG
  |||   |   | |  | |  | |    ||   | | |         |||   |  | |  | | ||  |   ||| ||| |    || |  |   || || || || ||||||   || || || |||||||||||||||||||| ||  | |||||||| ||||| ||||| |||||||| |  ||||| ||||| |||
gaagaccaaacctataatgccaacatcgctcgcacatggcatctttctatatattggagtggaatgattttgattctgatattacagtttctttg--tgcagTATAAAACAAATGATGGGTCCTGCACCACATACTCAACTTGATGCCGATGTAGCTGCTGGGATGGGTATGCCAGACAATGGACCAAAGCTAATGTCTATG
















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|10930850|gb|AU161124.1|AU161124
EST:     AGTGAGAGTGTNAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88481172|gb|CI418443.1|CI418443
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88968130|gb|CI098372.1|CI098372
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88482388|gb|CI419659.1|CI419659
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88209643|gb|CI209492.1|CI209492
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88210131|gb|CI209980.1|CI209980
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88541194|gb|CI468448.1|CI468448
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88983481|gb|CI028708.1|CI028708
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|86531654|gb|CI171860.1|CI171860
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|86424810|gb|CI063571.1|CI063571
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88517526|gb|CI445180.1|CI445180
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|18386796|gb|BM419994.1|BM419994
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88206774|gb|CI206623.1|CI206623
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88976643|gb|CI024708.1|CI024708
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88538530|gb|CI467568.1|CI467568
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|86532738|gb|CI172944.1|CI172944
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|87016117|gb|CI281860.1|CI281860
EST:     ACTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88259608|gb|CI363901.1|CI363901
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88211980|gb|CI211620.1|CI211620
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|86532343|gb|CI172549.1|CI172549
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88282773|gb|CI404169.1|CI404169
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88475240|gb|CI412511.1|CI412511
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88473793|gb|CI411064.1|CI411064
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|86253960|gb|CI058687.1|CI058687
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88503575|gb|CI431081.1|CI431081
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88416180|gb|CI538336.1|CI538336
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88490615|gb|CI427887.1|CI427887
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|55410315|gb|CV722691.1|CV722691
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88258795|gb|CI359185.1|CI359185
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88536183|gb|CI465913.1|CI465913
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88505747|gb|CI433253.1|CI433253
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88504257|gb|CI431763.1|CI431763
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88208507|gb|CI208356.1|CI208356
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88437876|gb|CI533833.1|CI533833
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88907785|gb|CI091183.1|CI091183
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|86531938|gb|CI172144.1|CI172144
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|33821057|gb|CF336333.1|CF336333
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAGAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCCACATACTCAACTTGATGCAGAGC
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAG-CCCCACATACTCAACTTGATGCAGAGC
EST: gi|88997938|gb|CI037823.1|CI037823
EST:     GGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
genomic: GGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT
EST: gi|88439803|gb|CI541360.1|CI541360
EST:     AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAG                         GATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTAATGCAGAGCT
genomic: AGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCT

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: 63 (upstream exon), 63 (downstream exon)
Score: 33

TCGCTACTTTGCAAGTGAGAGTGTCAAGGAGGAGCACTACCGCTCAAAGCGCCACAAGAAAAGgtgatcgcct ... atacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCTTGCTGCTGGAATGGGGATGCCTGACAATGGCCTGAAGCTCATGTCCATG




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatacggttcaatctactatgctatatctaataatgactttgcgatacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCTTGCTGCTGGAATGGGGATGCCTGACAATGGCCTGAAGCTCATGTCCATG
                          atctaat  putative branch site (score: 33)
                       tatatctaataatga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cagagggagtatgtgctacagaaacatttctttctttgtgcaaagtgatacggttcaatctactatgctatatctaataatgactttgcgatacttgtagGATCAAGCAAATGTCAGGGCCAGCCCCACATACTCAACTTGATGCAGAGCTTGCTGCTGGAATGGGGATGCCTGACAATGGCCTGAAGCTCATGTCCATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - gtgctac
- - - - - - - - - -agaaaca
- - - - - - - - - - - - - - - - - tttgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgcta