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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaacacctacccgtcataatgatgagtcatgacttcagacttgaacaattagtctggaaatcctgttctgactgttgtgctacttatgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCCTGGTCTGATGCAAGGTCTGGGAAGACCGCCGATTCAGTGAGGGGATTAC

Basic information

species Oryza sativa
transcript LOC_Os01g55270.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g55270.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G031607_T01 (Zea mays), 3'ss of exon 3
gtaaacacctacccgtcataatgatgagtcatgacttcagacttgaacaattagtctggaaatcctgttctgactgttgtgctacttatgtc-tgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCCTGGTCTGATGCAAGGTCTGGGAAGACCGCCGATTCAGTGAGGGGATTAC
|||||||  ||    |    |        ||||  || |    ||||||| |  |||    ||| |  | |||   | ||   |   || |  | ||||||||||||||||| || ||||| || ||||| |||||||||||||| || ||||||||||| ||||||||||||||  |||||||  |||| |||||||
gtaaacaaatatttttgtcca--------catggattaa----tgaacaagt--tcttctgatcgttctatgagc-tcgttacatgcattttgtacagAACATGTATGAGGACGGCGACGAGGATATGAAACGCACAATAGCCAAAGCTTGGTCTGATGCCAGGTCTGGGAAGACGACCGATTCGTTGAGCGGATTAC

upper sequence: LOC_Os01g55270.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G324886_T01 (Zea mays), 3'ss of exon 4
gtaaacacctacccgtcataatgatgagtcatgacttcagacttgaacaattagtctggaaatcctgttctgactgttgtgctacttatgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCCTGGTCTGATGCAAGGTCTGGGAAGACCGCCGATTCAGTGAGGGGATTAC
                   ||| |  | |  |  | |  |  ||   |||  |||      ||| |  | |||||    | |      | |   ||||||||||| ||||| || ||||| || |||||||||||||||||||| || ||||||||||| ||||||||||||||  | |||||  |||| |||||||
----------------gtaaataaatatttttcccatatggattattcaagaagttaattgatcgttctgtgacttcgttacatgcattatgcacagAACATGTACGAGGAGGGCGACGAGGATATGAAGCGCACAATAGCCAAAGCTTGGTCTGATGCCAGGTCTGGGAAGACGACTGATTCGATGAGCGGATTAC

upper sequence: LOC_Os01g55270.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA07G34530.1 (Glycine max), 3'ss of exon 4
----------gtaaacacctacccgtcataatgat---gagtcatgacttcagacttgaacaattagtc---tggaaatcctgttctgactgttgtgctacttatgtc--tgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCCTGGTCTGATGCAAGGTCTGGGAAGACCGCCGATTCAGTGAGGGGATTAC
           | |   | |       || | | |   | ||  | | || |  | || || ||    |   |||||       | ||||| ||    | | | |     ||||||||||||||||||| || |||||||| ||||||   || || || || || ||| ||||||| || |||||||| || || ||  |  | ||  | |  |
gtcagattctttgatttctttaattggatgaagctaccgtgttttaattttatgcatgtaccatgtaccctttggaacattcaatttgacttttactatgcctgtaatattgcagAACATGTATGAGGATGGGGACGAAGAGATGAAGAAAACCATTGCAAAAGCATGGACTGATGCTAGATCTGGGAAAACAGCTGACCCTTTAAGTAGCTACC

upper sequence: LOC_Os01g55270.1 (Oryza sativa), 3'ss of exon 4
lower sequence: Vv10s0003g03510.t01 (Vitis vinifera), 3'ss of exon 4
-----------------------------------------------------gtaaacacctacccgtcataatgatgagtcatgacttcagacttgaacaattagtctg-gaaatcctgttctgactgttgtgctacttatgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCCTGGTCTGATGCAAGGTCTGGGAAGACCGCCGATTCAGTGAGGGGATTAC
                                                     ||  | ||   |  | || | |  | |  | |   || |   ||  |   ||  | |  |  || |  ||||||    |||| ||   |  | ||||||| |||||||||||||| || || || ||||| |  ||||| || || || |||||||||||||| ||||| ||||| || ||  || ||| |||||  |
gtgagatttccttcatttctgtgcttgctgtgtatatgtatgtgtgggtgcacgtggatacaagcatg-caca-tactcaaccttattttgatgattttatttttgctttatgctattccattctgaaaactgtgatatgcaaat-tgcagAATATGTATGAGGAAGGGGATGATGAAATGAAACAAACAATTGCTAAAGCATGGTCTGATGCAAGATCTGGCAAGACAGCAGACCCACTGAAGGGATATC

upper sequence: LOC_Os01g55270.1 (Oryza sativa), 3'ss of exon 4
lower sequence: PP1S219_73V6.3 (Physcomitrella patens), 3'ss of exon 5
------gtaaacacctacccgtcataatgatgagtcatgacttcagacttgaacaattagtctggaaatcctgttctgactgttgtgctacttatgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCCTGGTCTGATGCAAGGTCTGGGAAGACCGCCGATTCAGTGAGGGGATTAC--
      |||      |   ||   | |   |  |   | | |||    |    ||  |  |  ||   ||  ||||||| | |  |  || || | |||| |||||||||| || || |||||||| || ||||||   || ||||||||||| ||| |||||||  ||||||||||| | |  || |  ||    |    |   
ctttcggtatggtgatggtcgctttcaaacttcgctctcagttcttgttcttccaggt--ttcggttttcgcgttctgattttgattgta-ttgtttctgtagAACATGTACGAAGAGGGTGACGATGAGATGAAGAAAACCATAGCCAAGGCATGGACTGATGCTCGGTCTGGGAAGCCTG--GAATGGGTTCAAGTTCGATGG

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|86422630|gb|CI060203.1|CI060203
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACCATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|88215419|gb|CI215268.1|CI215268
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AGCATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|86534361|gb|CI174567.1|CI174567
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|88205759|gb|CI205608.1|CI205608
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|88242356|gb|CI242205.1|CI242205
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|86846937|gb|CI283075.1|CI283075
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|87016782|gb|CI284116.1|CI284116
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|88213586|gb|CI213435.1|CI213435
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|58598428|gb|CK008956.1|CK008956
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|88413867|gb|CI528639.1|CI528639
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|8528344|gb|AU093159.1|AU093159
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|86528882|gb|CI169088.1|CI169088
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|86507959|gb|CI150592.1|CI150592
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|88436817|gb|CI521568.1|CI521568
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|88211026|gb|CI212459.1|CI212459
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|86545340|gb|CI185546.1|CI185546
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|88208627|gb|CI208476.1|CI208476
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|86424791|gb|CI063552.1|CI063552
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|8857314|gb|AU094632.1|AU094632
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|86592742|gb|CI268407.1|CI268407
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|87022484|gb|CI267621.1|CI267621
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|88203165|gb|CI203014.1|CI203014
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|88206648|gb|CI206497.1|CI206497
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|88206369|gb|CI206218.1|CI206218
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|86846977|gb|CI283096.1|CI283096
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|86508473|gb|CI151106.1|CI151106
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|87023444|gb|CI284591.1|CI284591
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|86593125|gb|CI255587.1|CI255587
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAAACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|86258053|gb|CI064406.1|CI064406
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|86422034|gb|CI059607.1|CI059607
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACTATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|86525093|gb|CI165299.1|CI165299
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|88211010|gb|CI212443.1|CI212443
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|3762561|gb|AU029313.1|AU029313
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
EST: gi|87030335|gb|CI252612.1|CI252612
EST:     GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAG                         AACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC
genomic: GCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCC

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: 16 (upstream exon), 73 (downstream exon)
Score: 5

TTCAAGCCAAGCATGGCTAAGGAGAAGGATCCAATGTCTGGAATTATGGATTTGATGAAGgtaaacacct ... atgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCCTGGTCTGATGCAAGGTCTGGGAAGACCGCCGATTCAGTGAGGGGATTAC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgaacaattagtctggaaatcctgttctgactgttgtgctacttatgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCCTGGTCTGATGCAAGGTCTGGGAAGACCGCCGATTCAGTGAGGGGATTAC
                         ttctgac  putative branch site (score: 5)
      aattagt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaacacctacccgtcataatgatgagtcatgacttcagacttgaacaattagtctggaaatcctgttctgactgttgtgctacttatgtctgcagAACATGTATGAGGAAGGTGACGAAGACATGAAGCGCACAATAGCCAAGGCCTGGTCTGATGCAAGGTCTGGGAAGACCGCCGATTCAGTGAGGGGATTAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA