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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tacaatataatcttaatgatttttcacatgcctatcagttgaagatttggtatggagcagtttgctaacctgtgatcctgacactggatattatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAACTTAACCGATACATCCCCACTGCTGCTGCATTTGGTGGTGTATGCATTG

Basic information

species Zea mays
transcript GRMZM2G130987_T04
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G130987_T04 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g11440.1 (Oryza sativa), 3'ss of exon 6
-tacaatataatcttaatgatttttcacatgcc-tatcagttgaagatttggtatggagcagtttgctaacctgtgatcctgacactggatattatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAACTTAACCGATACATCCCCACTGCTGCTGCATTTGGTGGTGTATGCATTG
 || |||| || |  ||  |||||  | ||    | |    || ||| ||   ||| |  ||    ||| | |   | |   |  ||    | | ||  ||||| ||||||||||||||||||||||||||||||||||| || ||||| ||| | ||| |||||||||| || ||||||||||||||||| || |||||||
gtaaaataaaa-caaaactattttctatatctggtctggaatgcagaattatcatgcaagag----ctacctttaaaccaccaacctttgcaattta-acagGAGCAACAAATGGTGATGCCAGGCCATCGTGAGTCGAATTTACAGAAAGAATTGAACAGATACATCCCTACAGCTGCTGCATTTGGTGGAGTCTGCATTG

upper sequence: GRMZM2G130987_T04 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA12G35990.1 (Glycine max), 3'ss of exon 6
tacaatata-atcttaatgatttttcacatgcctatcagttgaagatttggtatggagcagtttgctaacctgtgatcctgacactggatatt---atatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAACTTAACCGATACATCCCCACTGCTGCTGCATTTGGTGGTGTATGCATTG
    ||||  |  || ||   | || | ||  |   ||  | ||   |   | |  |  |  |||  ||  | || |  | ||  |  || ||   |  ||||||||||||||||||| ||||| || || |||||||| ||||||||||| || || || |||||||| |||||||| || |||||||| ||  | || ||||
--tcatatggaaattcatatgtattaagatatcagacaaataaa--ctgtatctctattatgttggcaaattttgttggtcacggtacatttttgaacttgcagGAACAACAAATGGTAATGCCCGGACACCGTGAGTCAAACTTGCAGAAAGAGCTGAATCGATACATTCCCACTGCCGCAGCATTTGGAGGCATCTGTATTG

upper sequence: GRMZM2G130987_T04 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA13G34370.1 (Glycine max), 3'ss of exon 6
-tacaatataatcttaatgatttttcacatgcctatcagttgaagatttggtatggagcagtttgctaacctgtgatcctgacactggatatt---atatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAACTTAACCGATACATCCCCACTGCTGCTGCATTTGGTGGTGTATGCATTG
 |  |||| ||  | |    | ||  | || ||   ||  ||||  |    |||  |  |  | | |||  | || |  | ||| |  || ||   |  ||||||||||||||||||| ||||| || || |||||||| ||||||||||| || || ||||||||||| ||||| || || |||||||| ||  | || || |
atcaaatagaaattcatctgtattaaagataccagacaaatgaactt----tatctattatgtcggtaaattttggtggtcacaatacatttttgaacttgcagGAACAACAAATGGTAATGCCTGGACACCGTGAGTCAAACTTGCAGAAAGAGCTGAACCGATACATTCCCACGGCCGCAGCATTTGGAGGCATCTGTATCG

upper sequence: GRMZM2G130987_T04 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA12G17950.1 (Glycine max), 3'ss of exon 6
tacaatataatcttaatgatttttcacatgcctatc--agttgaagatttggtatggagcagtttgctaacctgtgatcctgacactggatatt--atatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAACTTAACCGATACATCCCCACTGCTGCTGCATTTGGTGGTGTATGCATTG
     | || | |  |  |   | ||   ||    |  | ||      ||  ||         ||||||   |||  | ||     | | | ||  || ||||||||||||||||||| ||||| || ||||| ||||| ||||||||||| ||||| ||||||||||| |||||||| || |||||||| ||  |||| ||||
----ctgtagtttgtagaaaaatccatgggctggacctatttttttgcttattaaaatttctgttgctataatgtatttcttgtttttgttttttaatttgcagGAACAACAAATGGTAATGCCTGGACATCGGGAGTCAAACTTGCAGAAAGAACTGAACCGATACATTCCCACTGCCGCAGCATTTGGAGGCATATGTATTG

upper sequence: GRMZM2G130987_T04 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA06G32680.1 (Glycine max), 3'ss of exon 6
tacaat-ataatcttaatgatttttcacatgcctatcagttgaagatttggtatggagcagtttgctaacctgtgatcctgacactggatattatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAACTTAACCGATACATCCCCACTGCTGCTGCATTTGGTGGTGTATGCATTG
 | | |  || | |  |  |   ||||   ||  |     ||||  | |  | | |   | |    |  |   ||   ||     |   | | || ||||||||||||||||||| ||||| || ||||| || || ||||||||||| ||||| ||||||||||| ||||| || || |||||||| ||  |||| || |
-atatttgtagtttgtagtaagattcatgagctcaatgcctgaatctattatgttgtttattaaattttcggttgtcactttttttttttttaatttgcagGAACAACAAATGGTAATGCCTGGACATCGGGAATCAAACTTGCAGAAAGAACTGAACCGATACATTCCCACCGCGGCAGCATTTGGAGGCATATGTATCG

upper sequence: GRMZM2G130987_T04 (Zea mays), 3'ss of exon 5
lower sequence: AT1G78720.1 (Arabidopsis thaliana), 3'ss of exon 5
-------tacaatataatcttaatgatttttcacatgcctatcagttgaagatttggtatggagcagtttgctaacctgtgatcctgacactggat---attatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAACTTAACCGATACATCCCCACTGCTGCTGCATTTGGTGGTGTATGCATTG
       |      | |||    |  || |   ||    |     |  ||   ||    | | |   |||||    || | |  || | | | |     ||| | | |||||||| |||||||| ||||| || || || || || ||| | || |||||||| ||||||||||| ||||| ||||| || ||||||||| | || || |
gtatgtttgtttgttgatcacccttgttctaagcaaagttgcggatccaattcttatctttgggtcttttgcatgactataactcttaaatttgtgttgatttttttcagGAACAGCAAATGGTAATGCCTGGTCACCGAGACTCAAACCTTCAAAAGGAACTGAACCGATACATTCCCACGGCTGCAGCTTTTGGTGGTCTGTGTATCG

upper sequence: GRMZM2G130987_T04 (Zea mays), 3'ss of exon 5
lower sequence: Vv00s0551g00030.t01 (Vitis vinifera), 3'ss of exon 3
--tacaatataatcttaatgatttttcacatgcctatcagt-tgaagatttggtatggagcagtt-tgctaacctgtgatcctgacactggatattatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAACTTAACCGATACATCCCCACTGCTGCTGCATTTGGTGGTGTATGCATTG
   ||  |  |      |  | | ||    |  |  |  |  || |||||   || |||    || || |  ||  | |     |  || |||  | | | ||||| ||||||||||||||||| || || || ||| | ||||||||||| ||||| || || ||||| |||||||| || || || || ||| | ||||| |
ttcacggttcataaaggaaaactatttgtttaacattatgcatgtagatt--ataaggattgattatggtggcc-atcagatgaattcttgatgat-ttttcagGAGCAACAAATGGTGATGCCTGGGCACCGGGAGGCTAACTTGCAGAAAGAACTCAATCGCTACATACCCACTGCAGCAGCCTTCGGGGGTATGTGCATCG

upper sequence: GRMZM2G130987_T04 (Zea mays), 3'ss of exon 5
lower sequence: Vv19s0014g01020.t01 (Vitis vinifera), 3'ss of exon 6
tacaatataatcttaatgat---ttttcacatgcctatca-gttgaagatttggtatggagcagtttgctaacctgtgatcctgacactggatattatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAACTTAACCGATACATCCCCACTGCTGCTGCATTTGGTGGTGTATGCATTG
||| |||  |  ||  | |    | |  | ||    || | |  ||| ||||| || |   || || |     |  | |     |   | |||  | | | ||||||||||||||||||||||| || ||||| ||| | ||||||||||| || || || || ||||| ||||||||||| || || || ||| | || || |
taccatacgaatttgtttagcagtatgaatatatagattatgaggaatatttgtta-gttacaattggt--ggccatcagttgaatttttgatgat-ttttcagGAACAACAAATGGTGATGCCTGGGCATCGGGAGGCCAACTTGCAGAAAGAGCTAAATCGCTACATACCCACTGCTGCAGCCTTCGGGGGTATGTGTATCG

upper sequence: GRMZM2G130987_T04 (Zea mays), 3'ss of exon 5
lower sequence: PP1S323_56V6.1 (Physcomitrella patens), 3'ss of exon 6
-------------tacaatataat--cttaatgatttttcacatgcctatcagttga--agatttggtatggagcag--tttgctaacctg-tgatcctgacactggatattatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAACTTAACCGATACATCCCCACTGCTGCTGCATTTGGTGGTGTATGCATTG
              || || ||||  |    ||||| |      |     |||   |  || | |  |||   | ||   ||| ||  |   ||| |           |  | ||  ||||||||||||||| | ||||| ||||| ||||| || ||| | |||| |||| | ||||| ||||| ||||| || ||||| ||||| ||| | || ||||
gtaattgatttgaaacgatttaattgccgcgtgattgtagttgggttagacagcaaattaggtctattatattgaaggccttgatattccactgaactcagtcgcttttggttta-acagGAACAACAAATGTTCATGCCTGGCCACCGTGAATCCAACCTTCAGAGGGAATTGAACCGGTACATTCCCACAGCAGCTGCTTTTGGAGGTATGTGTATTG

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|213167499|gb|FM192311.1|FM192311
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|211338837|gb|FL045914.1|FL045914
EST:     GGATTGAAGTTTCTGGTTCATCAGCAAAGGATGTTGCTAAGCANCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCNAACTTGCAGANGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|101398399|gb|EB821072.1|EB821072
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|31352161|gb|CD436518.1|CD436518
EST:     GGATTGAAGTTTCGGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|60344170|gb|DN211143.1|DN211143
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|50328214|gb|CO523340.1|CO523340
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|4226340|gb|AI396447.1|AI396447
EST:     AGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: AGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|21331308|gb|BQ486689.1|BQ486689
EST:     GGATTGAAGTTTCTGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCAAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|31352309|gb|CD436666.1|CD436666
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|83279053|gb|DV943061.1|DV943061
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|45847661|gb|CN071604.1|CN071604
EST:     GGATTGAAGTTTCGGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACGAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|14244588|gb|BG840619.2|BG840619
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|4647064|gb|AI622139.1|AI622139
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACACCAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|24768334|gb|CA403463.1|CA403463
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|50328215|gb|CO523341.1|CO523341
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|67012434|gb|CO441183.1|CO441183
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|60350904|gb|DN217877.1|DN217877
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|13150076|gb|BG320398.1|BG320398
EST:     GGATTGAAGTTTCTGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAS                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|13150010|gb|BG320332.1|BG320332
EST:     GGATTGAAGTTTCTGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|32934273|gb|CF039085.1|CF039085
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|60352516|gb|DN219489.1|DN219489
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|5895581|gb|AW036827.1|AW036827
EST:     GGATTGAAGTTTCTGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|61118439|gb|DN559400.1|DN559400
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|24767907|gb|CA403042.1|CA403042
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|211338835|gb|FL045912.1|FL045912
EST:     GGATTGAAGTTTCTGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCAAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|88749341|gb|DY533482.1|DY533482
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|32847495|gb|CD987176.1|CD987176
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|166454253|gb|EG303581.1|EG303581
EST:     GGATTGAAGTTTCGGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGA
EST: gi|101398397|gb|EB821071.1|EB821071
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGTTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|31362233|gb|CD446590.1|CD446590
EST:     GTTTCGGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|33095855|gb|CF055849.1|CF055849
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|5597153|gb|AI891356.1|AI891356
EST:     GTTCATCAGCAAAGGATGTTGTTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|47962236|gb|CN844945.1|CN844945
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|60355360|gb|DN222333.1|DN222333
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|67024923|gb|CO453672.1|CO453672
EST:     GGATTGAAGTTTCTGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCAAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|148936307|gb|EC880389.2|EC880389
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|67015216|gb|CO443965.1|CO443965
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCAAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|5124246|gb|AI745982.1|AI745982
EST:     GGATTGAAGTTTCTGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCAAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|15080202|gb|BI388979.1|BI388979
EST:     GGATTGAAGTTTCGGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|32863571|gb|CF003253.1|CF003253
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|31354436|gb|CD438793.1|CD438793
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|211341224|gb|FL045920.1|FL045920
EST:     GGATTGAAGTTTCTGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCCAG-CCATCGTGAGTCGAACTTGCAGAAGGA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCC-AGGCCATCGTGAGTCGAACTTGCAGAAGGA
EST: gi|211341223|gb|FL045919.1|FL045919
EST:     GGATTGAAGTTTCTGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCAAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|92087935|gb|EB484166.1|EB484166
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
EST: gi|60337435|gb|DN204408.1|DN204408
EST:     GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAG                         GAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA
genomic: GGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAA

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 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 698

GTTTTATGTGGTCTTCATGCTGTCAGCCTGTGCTCTGTTCTCAAAGACATGGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAACTTAACCGATACATCCCCACTGCTGCTGCATTTGGTGGTGTATGCATTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 656

GTTTTATGTGGTCTTCATGCTGTCAGCCTGTGCTCTGTTCTCAAAGACATGGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAACTTAACCGATACATCCCCACTGCTGCTGCATTTGGTGGTGTATGCATTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 798

GTTTTATGTGGTCTTCATGCTGTCAGCCTGTGCTCTGTTCTCAAAGACATGGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAACTTAACCGATACATCCCCACTGCTGCTGCATTTGGTGGTGTATGCATTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 754

GTTTTATGTGGTCTTCATGCTGTCAGCCTGTGCTCTGTTCTCAAAGACATGGATTGAAGTTTCCGGTTCATCAGCAAAGGATGTTGCTAAGCAGCTCAAGgtacggacaa ... ttatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAACTTAACCGATACATCCCCACTGCTGCTGCATTTGGTGGTGTATGCATTG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttggtatggagcagtttgctaacctgtgatcctgacactggatattatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAACTTAACCGATACATCCCCACTGCTGCTGCATTTGGTGGTGTATGCATTG
                                          atattatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tacaatataatcttaatgatttttcacatgcctatcagttgaagatttggtatggagcagtttgctaacctgtgatcctgacactggatattatatgcagGAACAACAAATGGTGATGCCAGGCCATCGTGAGTCGAACTTGCAGAAGGAACTTAACCGATACATCCCCACTGCTGCTGCATTTGGTGGTGTATGCATTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG