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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttgccccgcactataattgaggacatgtaattccatattctgtgacaatgtttttgtcattctttagtaccgttcctcaattctcactatccatgactataatggactaacaagctgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTTGAGCAG

Basic information

species Zea mays
transcript GRMZM2G014116_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G014116_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g63430.2 (Oryza sativa), 3'ss of exon 4
gtaagtttgccccgcactataattgaggacatgtaattccatattctgtgacaatgtttttgtcattctttagtaccgttcctcaattctcactatccatgactataatggactaacaagctgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTTGAGCAG
|||||||    | ||||||||||   || ||   | || ||| | || | || |             |  ||||   ||         ||    ||| |     ||||||  |||||||| |  |  ||||||||||||||||||||| ||||||||||| || || ||||| |||||||| ||||||
gtaagttcaagctgcactataatcatgg-cacacagttacatctactataacca-------------ccatagtgttgt---------cttcgcatctac----ataatgt-ctaacaagttcatcctcagGTTGAAACATTTGGCTCCATGGCAAAGACAGAAAAGATTGCATTCATTCTAGAGCAG

upper sequence: GRMZM2G014116_T02 (Zea mays), 3'ss of exon 4
lower sequence: AT5G64760.2 (Arabidopsis thaliana), 3'ss of exon 4
gtaagtttgccccgcactataattgaggacatgtaattccatattctgtgacaatgtttttgtcattctttagtaccgttcctcaattctcactatccatgactataatggactaacaagctgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTTGAGCAG
||||| ||  |   | |||                 |||||  ||  |||  |||  |||| |  || |||  ||  |||  |||||   || |     ||| |||   | | ||              |||| || ||||||||  |||||||||| || ||||||||||||||||||||||| || 
gtaagcttttcttcctctact---------------ttccaactttcgtggaaatcgttttttatttattt--tatagtttatcaatgtgcattgattgtgattat---gaatta-------------tagGTGGAGACATTTGGTGCTATGGCAAAAACTGAGAAAATTGCTTTCATTCTTGAACAA

upper sequence: GRMZM2G014116_T02 (Zea mays), 3'ss of exon 4
lower sequence: PP1S58_256V6.1 (Physcomitrella patens), 3'ss of exon 4
----------------gtaagtttgccccgcact-ataattgaggacatgtaattccatattctgtgacaatgtttttgtcattctttagtaccgttcctcaattctca-------ctatccatgactataatgga----------ctaacaa----gctgtttatca-----gGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTTGAGCAG
                   | |||       ||| ||| ||  |  || | |||| | | ||   |  | | ||   ||| |     || | | || ||| ||     |       |||  ||    | |||| ||          |||| ||    ||  |    ||     ||| || || || ||  ||||||||||||| |||||||||||||||||||| ||||||
gtatgatccctaatcttccactttttttgaaacttatatttaggagcaagaaatttcgtttttgatctcgaagtcggtgtgaagtggta-tgcggtgcctgaaccagtagattggtctacgcagctttctaattgatgcacctgatctaataatgttgcaatactccaatgaagGTGGAGACCTTCGGTGCTATGGCAAAGACAGAGAAAATTGCTTTCATTCTAGAGCAG

upper sequence: GRMZM2G014116_T02 (Zea mays), 3'ss of exon 4
lower sequence: PP1S257_89V6.2 (Physcomitrella patens), 3'ss of exon 4
-----------------gtaagtttgccccgcactataattgaggacatgtaat-tccatattctgtgacaatgtttttgtcattctttagtac-cgttcctcaattctcactatccatgactataatggactaacaagctgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTTGAGCAG
                 ||    |||  |    | |   ||    ||||||||| | |||  | || ||  |  |||| ||  | ||  ||| | |         |  | | |||    | |   | | |  |       || |  |||||| ||||| |||||  | |||||||| || ||||| ||||||||||||||||| || 
gtatgtgatattgcttcgtgctgttgatcaattcaacggttagtaacatgtaatgttcatggtgtg-gaagacattttggtgctactagagtgcacagggtggtgtattgaatattggagccctgattcgtatcggcgtttggtcttcagGTGGAAACTTTTGGTGCCATGGCAAAAACTGAGAAGATTGCTTTCATTCTTGAACAA

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|17931575|gb|BM268535.1|BM268535
EST:     AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|31358688|gb|CD443045.1|CD443045
EST:     AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|211388540|gb|FL326080.1|FL326080
EST:     GGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: GGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|211427058|gb|FL201071.1|FL201071
EST:     AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|32942192|gb|CF047011.1|CF047011
EST:     AGGAGCAGGGACAGATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|18166644|gb|BM336483.1|BM336483
EST:     AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|32919590|gb|CF024402.1|CF024402
EST:     AGGAGCAGGGACAGATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGA
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGA
EST: gi|31355001|gb|CD439358.1|CD439358
EST:     AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|7216589|gb|AW562711.1|AW562711
EST:     AGGAGCAGGGACAGATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|113588935|gb|DW753644.1|DW753644
EST:     ATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGNGAAAATTGCTTTCATTCTT
genomic: ATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|31355164|gb|CD439521.1|CD439521
EST:     AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|61236504|gb|DN586255.1|DN586255
EST:     AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|31355423|gb|CD439780.1|CD439780
EST:     AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|14202839|gb|BG836516.1|BG836516
EST:     AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|211429638|gb|FL201075.1|FL201075
EST:     AGGAGCAGGGACAGATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|18161887|gb|BM331726.1|BM331726
EST:     AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|18168671|gb|BM338511.1|BM338511
EST:     AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|9953978|gb|BE640561.1|BE640561
EST:     AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|31350034|gb|CD434391.1|CD434391
EST:     AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|213188018|gb|FM188229.1|FM188229
EST:     AGGAGCAGGGACAGATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|32808457|gb|CD960691.1|CD960691
EST:     AGGAGCAGGGACAGATATACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|26457612|gb|CA829195.1|CA829195
EST:     AGGAGCAGGGACAGATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|108824160|gb|EC278168.1|EC278168
EST:     GAGCAGGGNACCAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTG
genomic: GAGCAGGG-AC-AAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTG
EST: gi|71448354|gb|DR829404.1|DR829404
EST:     AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|213183945|gb|FM195837.1|FM195837
EST:     AGGAGCA-GGACAGATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|111991033|gb|EE331916.1|EE331916
EST:     AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         N
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcag-
EST: gi|111991033|gb|EE331916.1|EE331916
EST:     AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         N
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcag-
EST: gi|211424449|gb|FL201055.1|FL201055
EST:     AGGAGCAGGGACAGATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTT
EST: gi|31354458|gb|CD438815.1|CD438815
EST:     AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|31910184|gb|CD651297.1|CD651297
EST:     AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
EST: gi|211429637|gb|FL201074.1|FL201074
EST:     AGGAGCAGGGACAGATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCA
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCA
EST: gi|211424448|gb|FL201054.1|FL201054
EST:     AGGAGCAGGGACAGATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTG
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTG
EST: gi|211427049|gb|FL201062.1|FL201062
EST:     AGGAGCAGGGACAGATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCT                         GTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT
genomic: AGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTT

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: 168

TGTTGAGATAGAGAGAGCAAGATTGATCAAAAGGCTTGCAAAAATTAAAGAGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTTGAGCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 164

TGTTGAGATAGAGAGAGCAAGATTGATCAAAAGGCTTGCAAAAATTAAAGAGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTTGAGCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 182

TGTTGAGATAGAGAGAGCAAGATTGATCAAAAGGCTTGCAAAAATTAAAGAGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTTGAGCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 168

TGTTGAGATAGAGAGAGCAAGATTGATCAAAAGGCTTGCAAAAATTAAAGAGGAGCAGGGACAAATTTACGAGGCTGCTGATTTGATGCAAGAAGTTGCTgtaagtttgc ... tgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTTGAGCAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgttcctcaattctcactatccatgactataatggactaacaagctgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTTGAGCAG
                                  gactaac  putative branch site (score: 168)
                         actataat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtttgccccgcactataattgaggacatgtaattccatattctgtgacaatgtttttgtcattctttagtaccgttcctcaattctcactatccatgactataatggactaacaagctgtttatcagGTTGAAACATTTGGCTCTATGGCAAAGACGGAGAAAATTGCTTTCATTCTTGAGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG