Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catgatgaacttggtgtagggttccacctttcttggtacgatgatttatggttttttttgtctgggttgttctgacgacaatcaaattgaattttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGACCATCGCCGCAAGAATCGATGTTTGGAGAGTCTTCAGGAGAACATCAATC

Basic information

species Physcomitrella patens
transcript PP1S58_38V6.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S58_38V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GRMZM2G145280_T01 (Zea mays), 3'ss of exon 3
catgatgaacttgg---tgtagggttccacctttcttggtacgatgatttatggttttttttgtctgggttgttctgacgacaatcaaattgaattttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGACCATCGCCGCAAGAATCGATGTTTGGAGAGTCTTCAGGAGAACATCAATC
  |  || | ||     ||| |  ||      || |  ||   |   || || | |  | |    |   |  |  ||   | | | |   ||    || | |||||||||||||||| |||||||||||||| || ||||||||| ||||||| || |||||||||||   ||   | ||| | || ||||  ||  || |  
--ttctgcatttatccttgttgaattatcttcttatgagtcacacttttcatcgatgatctgtgttatatcttgatgctaaaagttactatgttgattgc-agGCTGCTGGCATCCCAAAGAAGCTTGCTCCAACCATTGGTATTTCTGTTGATCACCGCCGCAAGAACAAATCCCTTGAGGGACTGCAGGCCAATGTCCAGA

upper sequence: PP1S58_38V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GLYMA04G14640.2 (Glycine max), 3'ss of exon 3
-----catgatgaacttggtgtagggttccacctttcttggtacgatgatttatggttttttttgtctgggttgttctgacgacaatcaaattgaattttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGACCATCGCCGCAAGAATCGATGTTTGGAGAGTCTTCAGGAGAACATCAATC
      |  ||  | ||  | ||   |   |   | ||    | || | | |    ||   | ||| |  | | || ||         | |||  ||   | ||||| || || || || || |||||||| || || ||||||||||||||||| |||||||||||||| || | |||||| ||||| || |  ||  |  |  
attttaagcatttatttattataaaatgaaaatatgctaaacatga-gttctgcttttagatatgtttctgatattatg-tattctctatatt--atgcca-tagGCAGCAGGGATTCCCAAAAAGCTTGCACCAACAATTGGTATTGCTGTTGATCATCGCCGCAAGAACCGTTCTTTGGAAAGTCTGCAAGCTAATGTGCAGA

upper sequence: PP1S58_38V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GLYMA16G17370.2 (Glycine max), 3'ss of exon 2
--catgatgaacttggtgtagggttccacctttcttggtacgatgatttatggttttttttgtctgggttgttctgac-gacaatcaaattgaattttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGACCATCGCCGCAAGAATCGATGTTTGGAGAGTCTTCAGGAGAACATCAATC
    | |   |     |  |        |  |       |  |  | || |   ||| | | | |   |  | ||||| ||| |     || |  | | ||||||||| || || || ||||| |||||||| |||||||| ||| ||||||| || ||| | |||||||| | |||||||||||| ||||  ||  |  |  
aagttaagacagcaaatacataaaaaagctgtctaaaacattagaaattcttcctttatatcttt---tcttcctgacagactaattcttttatatatcctagGCTGCAGGAATTCCCAAGAAACTTGCTCCAACTATTGGGATTTCTGTTGATCACCGCAGAAAGAATCGTTCTTTGGAGAGTCTGCAGGCCAATGTGCAGA

upper sequence: PP1S58_38V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GLYMA09G34760.2 (Glycine max), 3'ss of exon 3
--catgatgaacttggtgtagggttccacctttcttggtacgatgatttatggttttttttgtctgggttgttctgacgacaatcaaattgaattttac--tagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGACCATCGCCGCAAGAATCGATGTTTGGAGAGTCTTCAGGAGAACATCAATC
   |  ||  | ||  | ||   |   |   | |     | || || || ||    || ||   |  ||| ||   |  |        ||  ||| | |  ||||| || || || || || |||||||| || || || |||||||||||||| ||||| |||||||| || | |||||| ||||| || |  ||  |  |  
ttaagcatttatttattataaaatgaaaatatgcaaaacaagaggagttctg----ttgttagatatgtttttgatattatgtattttttatattatgccatagGCAGCAGGGATTCCCAAAAAGCTTGCACCAACCATAGGTATTGCTGTTGATCATCGTCGCAAGAACCGTTCTTTGGAAAGTCTGCAAGCTAATGTGCAGA

upper sequence: PP1S58_38V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: AT3G49010.1 (Arabidopsis thaliana), 3'ss of exon 3
-catgatgaacttggtgtagggtt--ccacctttcttggtacgat--gatttatggttttttttgtctgggttgttctgacgacaatcaaattgaattttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGACCATCGCCGCAAGAATCGATGTTTGGAGAGTCTTCAGGAGAACATCAATC
   |  |||   | |  |    ||  |    ||| |   ||| ||  |  | ||| ||  |||  |   |    ||     ||   |   ||| |    || ||||||||||| ||||| |||||| | || || || ||||||||||||||||||||||| |||||||| |||| ||||||| |||||||    ||  || |  
ttgttgtgattgttgattgaaattggctggatttttctttactatcggtatcatgtttcatttcttgctgaacattgatctgattgtttgattaa----ta-tagGCTGCTGGTATCCCAAAGAAGTTGGCGCCTACAATTGGTATTGCTGTTGACCATCGTCGCAAGAACCGATCTTTGGAGGGTCTTCAAACAAATGTCCAGA

upper sequence: PP1S58_38V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: AT3G48960.1 (Arabidopsis thaliana), 3'ss of exon 2
catgatgaacttggtgtagggttccacctttcttggtacgatgatttatggttttttttgtctgggttgttctgacgacaatcaaattg--aattttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGACCATCGCCGCAAGAATCGATGTTTGGAGAGTCTTCAGGAGAACATCAATC
  |    ||  |      |   | ||      || ||    || ||  || |   | | || |   ||||| |  |     ||  ||||   ||     ||||||||||| ||||| |||||| | ||||| || || |||||| ||||||||||||  |||||||| || | ||||||| || ||||    ||| || |  
-gtttgtaatatctctctgttcttcattagcttttgtgttttgtttcttgttggatatcgtttaaattgttttttctt---tctgattgttgataaatttagGCTGCTGGTATCCCCAAGAAGTTGGCTCCTACAATCGGTATTTCTGTTGACCATCATCGCAAGAACCGGTCTTTGGAGGGTTTTCAAACCAACGTCCAGA

upper sequence: PP1S58_38V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: Vv14s0006g00820.t01 (Vitis vinifera), 3'ss of exon 3
catgatgaacttggtgtagggttccacctttcttggtacgatgatttatggttttttttgtctgggttgttctgacg--acaatcaaattgaattttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGACCATCGCCGCAAGAATCGATGTTTGGAGAGTCTTCAGGAGAACATCAATC
  |  ||  ||   ||     |  || | |  ||| || |       ||||||| || | |     |       |    |||  |   |       | | |||  || || || || || || |||||||| || ||||||||||||||||| ||||| |||| ||| ||||   | || ||||| || |  ||  || |  
-tttttggtctcattgctttttgacaaccta-ttgttatggaatcccatggtttattctatacaaatctccaaaattttacatgctcctctgtacattccagGTGGCAGGTATTCCAAAAAAACTTGCTCCGACCATTGGTATTGCTGTTGATCATCGTCGCAGGAACCGATCACTAGAAAGTCTCCAAGCTAATGTCCAAA

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|162278221|gb|FC454456.1|FC454456
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|162229091|gb|FC404775.1|FC404775
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|162212016|gb|FC388126.1|FC388126
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|67569177|gb|BJ942001.1|BJ942001
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|162230248|gb|FC406604.1|FC406604
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|37832289|gb|BJ590301.1|BJ590301
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|19788486|gb|BQ040777.1|BQ040777
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|162214883|gb|FC391018.1|FC391018
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|162184451|gb|FC359197.1|FC359197
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|18366625|gb|BJ198704.1|BJ198704
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|37849024|gb|BJ607032.1|BJ607032
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|18374966|gb|BJ206544.1|BJ206544
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|208346451|gb|DC917404.1|DC917404
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|208349479|gb|DC905617.1|DC905617
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|162214882|gb|FC391017.1|FC391017
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|162209537|gb|FC385633.1|FC385633
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|18327512|gb|BJ159515.1|BJ159515
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|67692422|gb|BJ952655.1|BJ952655
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|162271775|gb|FC448908.1|FC448908
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|18335770|gb|BJ167791.1|BJ167791
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|162201749|gb|FC377501.1|FC377501
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|162184450|gb|FC359196.1|FC359196
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|162212397|gb|FC388125.1|FC388125
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|162217291|gb|FC392031.1|FC392031
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|162271774|gb|FC448907.1|FC448907
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|37844654|gb|BJ602662.1|BJ602662
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|208381498|gb|DC919500.1|DC919500
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|162201750|gb|FC377502.1|FC377502
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|67508692|gb|BJ941553.1|BJ941553
EST:     CTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: CTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|162222665|gb|FC397477.1|FC397477
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|18355339|gb|BJ187398.1|BJ187398
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|162278222|gb|FC454457.1|FC454457
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|162222664|gb|FC397476.1|FC397476
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|208384998|gb|DC903505.1|DC903505
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|162229991|gb|FC407353.1|FC407353
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|18374111|gb|BJ205689.1|BJ205689
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|67701184|gb|BJ961417.1|BJ961417
EST:     ACAACTNTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|22492659|gb|BU052582.1|BU052582
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|67703647|gb|BJ963880.1|BJ963880
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|67578307|gb|BJ950474.1|BJ950474
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|162229992|gb|FC407354.1|FC407354
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
EST: gi|162230249|gb|FC406605.1|FC406605
EST:     ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAG                         GCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC
genomic: ACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGAC

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: 34 (upstream exon), 35 (downstream exon)
Score: 32

CCCTACTGCTGGACCACTCCGACCAGTCGTGCACTCTCAGACCTTGAAGTACAACTCTAAGATCCGTTCTGGACGCGGGTTCACCTTGGAAGAGTTGAAGgtagttcagt ... attttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGACCATCGCCGCAAGAATCGATGTTTGGAGAGTCTTCAGGAGAACATCAATC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatggttttttttgtctgggttgttctgacgacaatcaaattgaattttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGACCATCGCCGCAAGAATCGATGTTTGGAGAGTCTTCAGGAGAACATCAATC
                        ttctgac  putative branch site (score: 32)
                                              ttttact  putative PPT
                                  aatcaaattgaatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
catgatgaacttggtgtagggttccacctttcttggtacgatgatttatggttttttttgtctgggttgttctgacgacaatcaaattgaattttactagGCTGCTGGCATCCCGAAGAAGCTTGCTCCCACTATTGGTATTGCTGTTGACCATCGCCGCAAGAATCGATGTTTGGAGAGTCTTCAGGAGAACATCAATC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA