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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTCGTCGTGTGGCGCCCGCCCGAGTTCGCCCGCGACCTCCTCCCAAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgtagtagtattacattacatacacataatgcattgcattgcattgcattgtactgcatgcatggtttcagttcccttgctcgatcttgtttg...

Basic information

species Zea mays
transcript GRMZM2G025685_T01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G025685_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os07g44690.1 (Oryza sativa), 5'ss of exon 1
CTTCGTCGTGTGGCGCCCGCCCGAGTTCGCCCGCGACCTCCTCCCAAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgtagtagtattacattacatacacataatgcattgcattgcattgcattgtactgcatgcatggtttcagttcccttgctcgatcttgtttg--
||||||||||||||| ||||| ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |    |  ||  ||| ||  |  |   |   ||  ||    ||||  |  |     | | |    |  | || || |     |  ||   || |||  
CTTCGTCGTGTGGCGGCCGCCGGAGTTCGCCCGCGACCTCCTCCCCAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtaagctgctgctaccattgcac-atttttgccacatatatattgttgctctataagaatccgtaattttcatgtcggt-caaaaacatgacggtggttgtg

upper sequence: GRMZM2G025685_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA02G44670.1 (Glycine max), 5'ss of exon 1
CTTCGTCGTGTGGCGCCCGCCCGAGTTCGCCCGCGACCTCCTCCCAAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgtagtagtattacattacatacacataatgcattgcattgcattgcattgtactgcatgcatggtttcagttcccttgctcgatcttgtttg---
 || || ||| || | || || ||||| ||  | || || || || ||||| ||||||||||| |||||||| ||||| || |||||||| || ||||||||  | |   |    |  || || | ||| || |  |   ||    |  ||       || ||  |   ||  | || |||        | | | |  |    
ATTTGTTGTGAGGAGGCCCCCAGAGTTTGCTAGAGATCTTCTTCCCAACTATTTCAAGCACAATAACTTCTCAAGCTTTGTTAGGCAGCTAAATACCTATgtgagaatccatctcttctatat-atata-actttttttgttctgatctatccttcattattgtttttgtg-ctacacttcttgacagagttatagcctaatc

upper sequence: GRMZM2G025685_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA14G04070.1 (Glycine max), 5'ss of exon 1
CTTCGTCGTGTGGCGCCCGCCCGAGTTCGCCCGCGACCTCCTCCCAAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgtagtagtattacattacatacacataatgcattgcattgcattgcattgtactgcatgcatggtttcagttcccttgctcgatcttgtttg-----
 || || ||| || | || || || || ||  | || || || || ||||| |||||||||||||||||||| ||||| || |||||||| || ||||||||  | |   |    |  || || | ||| || |  |   ||    |  ||       || ||| |   || |   |     ||||    |  | |  |      
ATTTGTTGTGAGGAGGCCCCCAGAATTTGCTAGAGATCTTCTTCCCAACTATTTCAAGCACAACAACTTCTCAAGCTTTGTTAGGCAGCTAAATACCTATgtgagaatccatctcttctatat-atata-acttttttggttctgatctatccttcattattgcttttgtgat---acacttcttgacaaagttagcctaatcat

upper sequence: GRMZM2G025685_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA07G36370.1 (Glycine max), 5'ss of exon 1
CTTCGTCGTGTGGCGCCCGCCCGAGTTCGCCCGCGACCTCCTCCCAAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgtagtagtattacattacatacacataatgcattgcattgcattgcattgtactgcatg-catggtttcagttcccttgctcgatcttgtttg--
 || || ||||||   || || ||||| ||| | || || || || ||||| ||||| |||||||||||||| ||||| || ||||| ||||||||||||||| | |  |  |  | ||   |||  |||   |  | || | | |    ||    | | || |||  ||     |    |     | |  | ||  ||    
ATTTGTTGTGTGGAAGCCCCCTGAGTTTGCCAGAGATCTTCTTCCCAACTATTTCAAACACAACAACTTCTCAAGCTTTGTTAGGCAACTCAACACCTATgtaagca--tccttatcttttcttatgtacttctc-tacaatccctattcttcatctttgcttcatttcacttcattgagtttgaaggtaaagctctttccat

upper sequence: GRMZM2G025685_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA20G08250.1 (Glycine max), 5'ss of exon 1
CTTCGTCGTGTGGCGCCCGCCCGAGTTCGCCCGCGACCTCCTCCCAAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacg------tacgtagtagtattacattacatacacataatgcattgcat-tgcattgcattgtactgcatgcatggtttcagttcccttgct-cgatcttgtttg
 || || || ||| | || || ||||| ||  | || || || || ||||| || || |||||||||||||| ||||| || ||||| ||||||||||||||| |      ||  |  |  |||    ||   |||||    | |  | ||| | || | |||||   |  | |  |  ||  || ||  ||  |  || |       
ATTTGTTGTCTGGAGGCCCCCTGAGTTTGCAAGAGATCTTCTTCCCAACTATTTTAAACACAACAACTTCTCAAGCTTTGTTAGGCAACTCAACACCTATgtaagcatccttatcttttcttatgtacttctttacactccctactcttcatcttcacttcattgagtttgaag-gtaattaaagatcttttcatgtgaac-------

upper sequence: GRMZM2G025685_T01 (Zea mays), 5'ss of exon 1
lower sequence: Vv06s0009g02730.t01 (Vitis vinifera), 5'ss of exon 1
CTTCGTCGTGTGGCGCCCGCCCGAGTTCGCCCGCGACCTCCTCCCAAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgtagtagtattacattacatacacataatgcattgcattgcattgcattgtactgcatgcatggtttcagttcccttgctcgatcttgtttg----
||| || || ||| | || || ||||| ||| | || |||||||| |||||||||||||||||||||||||||||||| || ||||||||||| ||||||||  |   | |  | ||   | |  |   | |    |   |  |  |   |  |  | | ||| || || |   |  ||| | ||  |  |  |  || |    
CTTTGTTGTTTGGAGACCCCCTGAGTTTGCCAGGGATCTCCTCCCCAACTACTTCAAGCACAACAACTTCTCCAGCTTTGTTAGGCAGCTCAATACCTATgtgagagtgcatcattaaccc-tctctctctctctctctctctctctctctctctctctcctg-attcaagcactgtgtttcatt--ttcacttcattgggggt

upper sequence: GRMZM2G025685_T01 (Zea mays), 5'ss of exon 1
lower sequence: PP1S85_27V6.1 (Physcomitrella patens), 5'ss of exon 1
CTTCGTCGTGTGGCGCCCGCCCGAGTTCGCCCGCGACCTCCTCCCAAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgtagtagtattacattacatacacataatgcattgcattgcattgc-attgtactgcatgcatg-gtttcagttcccttgctcgatcttgtttg-
||||||||| ||||| || || ||||| ||  | || ||| | || |||||||||||||||||||| || |||||||||||  |||| || |||||||||||| |  |   | | |  ||||  || |  || || ||   || |  || |  |  ||    | |  |||||    | ||    |      |||   |   | 
CTTCGTCGTTTGGCGTCCTCCTGAGTTTGCGAGAGATCTCTTGCCGAACTACTTCAAGCACAACAATTTTTCCAGCTTCGTGCGGCAACTAAACACCTATgtaagctcc--gcatttctacacaaccttgac-tattgtgatggaacgcctctctgttaacttaccagcatgtaaatgagacaaccgatcagataaaggagga

upper sequence: GRMZM2G025685_T01 (Zea mays), 5'ss of exon 1
lower sequence: PP1S12_41V6.1 (Physcomitrella patens), 5'ss of exon 1
CTTCGTCGTGTGGCGCCCGCCCGAGTTCGCCCGCGACCTCCTCCCAAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgtagtagtattacattacatacacataatgcattgcattgcattgcattgtactgcatgcatggtttcagttcccttgctcgatcttgtttg--
 |||||||| ||||| || || || ||||| || || ||  | || || |||||||||||||| |||||||| ||||||||  | ||||| || ||||||||| |  |    |    || |   || |      | ||| |   |||  |||  ||||   | ||     |   |   |    ||  || |      |    
ATTCGTCGTCTGGCGTCCTCCTGAATTCGCTCGAGATCTTTTGCCCAAATACTTCAAGCACAATAACTTCTCTAGCTTCGTACGACAGCTGAATACCTATgtaagctccgcattccgtttcgcaac-tgtgttgattgcgtgaaatttgatta-attgccgtccaaatgagtaatacatcaggttagtcaaagagaatgaat

upper sequence: GRMZM2G025685_T01 (Zea mays), 5'ss of exon 1
lower sequence: PP1S207_20V6.1 (Physcomitrella patens), 5'ss of exon 1
CTTCGTCGTGTGGCGCCCGCCCGAGTTCGCCCGCGACCTCCTCCCAAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgt--acgtagtagtattacattacatacacataatgcattgcattgcattgcattgtactgcatgcatggtttcagttcccttgctcgatcttgtttg
|||||| || ||||| ||||| ||||| || || ||| | || || || |||||||||||||| || ||||||||||| || ||||||||||||||||| ||| ||  |   | |      || ||  | | | || | | ||      |  |||           ||        |  | ||       |      ||| |
CTTCGTGGTCTGGCGACCGCCAGAGTTTGCACGGGACTTGCTTCCTAATTACTTCAAGCACAATAATTTCTCCAGCTTTGTTAGGCAGCTCAACACCTACgtaagtcgatccacttaagggacgttgta-aaatatca-ggatgatcgagatttgagaaaggtgaaatttgaaaactaggctcgagaagacaccagggttgg

upper sequence: GRMZM2G025685_T01 (Zea mays), 5'ss of exon 1
lower sequence: EFJ15796 (Selaginella moellendorffii), 5'ss of exon 1
CTTCGTCGTGTGGCGCCCGCCCGAGTTCGCCCGCGACCTCCTCCCAAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgt---acgta-gtagtattacattacatacacataatgcattgcattgcattgcatt-gtactgcatgcatggt-ttcagttcccttgctcgatcttgtttg------------------------------
 ||| |||| ||||| || || || ||||||   ||  || | || || |||||||||||||| ||||||||||| |||||| |||||||||||||||| ||  ||    | || ||  | || |   || | | |||| | | ||| | | || | | || || || ||      ||  |||| | |     || ||  ||||                                
GTTCATCGTCTGGCGACCCCCGGAATTCGCCAAGGATATCTTGCCGAATTACTTCAAGCACAATAACTTCTCCAGTTTCGTCCGGCAGCTCAACACCTACgtgagtctcgcatacgttttctttccacacctcctcatagttctttggagttcagtcccttagttcttcacttgcagtactcagcttcagctgtcaatgatgttgcccactgaacttcgttcttgtcgactcgcag

upper sequence: GRMZM2G025685_T01 (Zea mays), 5'ss of exon 1
lower sequence: EFJ31857 (Selaginella moellendorffii), 5'ss of exon 1
CTTCGTCGTGTGGCGCCCGCCCGAGTTCGCCCGCGACCTCCTCCCAAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgtagtagtattacattacatacacataat-gcattgcattgca----ttgcattgtactgcatgcatggtttcagttc---ccttgctcgatcttgtttg-----------------------------------
 ||||||||||||   |||||||||||||||  |||  | ||||| | |||||||||||||||||||||||| ||||||||| ||||||||||||| |||||  || |          |    |   | |      | || |||| || |     ||   | || || |   |  |  ||   |||   ||||||  ||   | | ||                                   
ATTCGTCGTGTGGAAGCCGCCCGAGTTCGCCACCGATTTGCTCCCCAGCTACTTCAAGCACAACAACTTCTCGAGCTTCGTCCGGCAGCTCAACACATATgtgagttccattccaagctcttgtttgttcgttcgctcgctttgccttcctatctttctctcgttcttccaccgagcgtttgcttcgatccttgcaagagtctctctggcaactcactcacattgcaacaatgctgtgtgcag

upper sequence: GRMZM2G025685_T01 (Zea mays), 5'ss of exon 1
lower sequence: EFJ28850 (Selaginella moellendorffii), 5'ss of exon 1
CTTCGTCGTGTGGCGCCCGCCCGAGTTCGCCCGCGACCTCCTCCCAAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgtagtagtattacattacatacacataatgcattgcattgcattgcattgtactgcatgcatggtttcagttcccttgctcgatcttgtttg
||||||||||||| | ||||| ||||||||||||||| | |||||||||||||||||||||||||| ||||||||||||||  |||||||||||||||||||  ||   | | |  |        |   ||| |  |    | |  |    | |||  ||  |   || |  || |||                      
CTTCGTCGTGTGGAGGCCGCCAGAGTTCGCCCGCGACTTGCTCCCAAACTACTTCAAGCACAACAATTTCTCCAGCTTCGTGCGGCAGCTCAACACCTATgtgagtctctcgaatcaccttgaagctctcacttgtt---ctccgatctgat-catcttatcgt-cgcgttcttgcag----------------------

upper sequence: GRMZM2G025685_T01 (Zea mays), 5'ss of exon 1
lower sequence: EFJ38003 (Selaginella moellendorffii), 5'ss of exon 1
CTTCGTCGTGTGGCGCCCGCCCGAGTTCGCCCGCGACCTCCTCCCAAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtac------gtagtagtattacattacatacacataatgcattgcattgcattgcattgtactgcatgcatggtttcagttc---ccttgctcgatcttgtttg-----------------------------------
 ||||||||||||   |||||||||||||||  |||  | ||||| | |||||||||||||||||||||||| ||||||||| ||||||||||||| |||||  || |          |  | ||   |      | |    ||| || |  |   |  |    |  | ||   |  ||||   ||    ||||||  ||   | | ||                                   
ATTCGTCGTGTGGAAGCCGCCCGAGTTCGCCACCGATTTGCTCCCCAGCTACTTCAAGCACAACAACTTCTCGAGCTTCGTCCGGCAGCTCAACACATATgtgagttccattccaagctcttgtttgttcgttcgctcgctttgccttcctatctttctctcgttcttccaccgagcgttttgctttgatccttgcaagagtctctctggcaactcactcacattgcaacaatgctgtgtgcag

upper sequence: GRMZM2G025685_T01 (Zea mays), 5'ss of exon 1
lower sequence: EFJ17520 (Selaginella moellendorffii), 5'ss of exon 1
CTTCGTCGTGTGGCGCCCGCCCGAGTTCGCCCGCGACCTCCTCCCAAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgtagtagtattacattacatacacataatgcattgcattgcattgcattgtactgcatgcatggtttcagttcccttgctcgatcttgtttg
||||||||||||| | ||||| ||||||||||||||| | |||||||||||||||||||||||||| ||||||||||||||  |||||||||||||||||||| || | | | |  |        |   ||| |  | |  || ||   ||    || |  |   ||| |  || |||                      
CTTCGTCGTGTGGAGGCCGCCAGAGTTCGCCCGCGACTTGCTCCCAAACTACTTCAAGCACAACAATTTCTCCAGCTTCGTGCGGCAGCTCAACACCTATgtaagtccctcgaatcaccttgacgctctcacttgtt-ctctg-atctgatcatcttatcat---tgctttcttgcag----------------------

upper sequence: GRMZM2G025685_T01 (Zea mays), 5'ss of exon 1
lower sequence: EFJ32930 (Selaginella moellendorffii), 5'ss of exon 1
CTTCGTCGTGTGGCGCCCGCCCGAGTTCGCCCGCGACCTCCTCCCAAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgtagtagtattacattacataca-----cataatgcattgcattgcattgcatt-gtactgcatgcatggtt--tcagttcccttgctcgatcttg----tttg-------------------------------------------
 |||||||| ||||| || || || ||||||   ||  || | || || |||||||||||||| ||||||||||| |||||| |||||||||||||||| ||  ||      ||   || | || || ||      |||| | | ||| | | || | | || || || |     | ||   ||| || |  | |||    |      ||||                                           
GTTCGTCGTCTGGCGACCCCCGGAATTCGCCAAGGATATCTTGCCGAATTACTTCAAGCACAATAACTTCTCCAGTTTCGTCCGGCAGCTCAACACCTACgtgagtctcccatacgttttctttccacacctcctccatagttctttggagttcagtcccttagttcttcgccagttgtcgatcacttgcagtactcagcttcagcattttgtcaatgatgttgcgcactgaacttcgttcttgtcgactcgcag

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|89252971|gb|DY624757.1|DY624757
EST:     ACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTAT                         GGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAACGAGTTCTTC
genomic: ACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgt ... gctgatgcagGGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAACGAGTTCTTC
EST: gi|148965920|gb|EE016829.2|EE016829
EST:     ACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTAT                         GGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAACGAGTTCTTC
genomic: ACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgt ... gctgatgcagGGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAACGAGTTCTTC
EST: gi|78120767|gb|DV539151.1|DV539151
EST:     ACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTAT                         GGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAACGAGTTCTTC
genomic: ACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgt ... gctgatgcagGGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAACGAGTTCTTC
EST: gi|71332580|gb|DR803263.1|DR803263
EST:     ACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTAT                         GGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAACGAGTTCTTC
genomic: ACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgt ... gctgatgcagGGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAACGAGTTCTTC
EST: gi|50334775|gb|CO529901.1|CO529901
EST:     ACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTAT                         GGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAACGAGTTCTTC
genomic: ACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgt ... gctgatgcagGGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAACGAGTTCTTC
EST: gi|89756245|gb|DY686339.1|DY686339
EST:     ACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTAT                         GGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAACGAG
genomic: ACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgt ... gctgatgcagGGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAACGAG
EST: gi|76018963|gb|DT946133.1|DT946133
EST:     ACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTAT                         GGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAACGAGTTCTTC
genomic: ACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgt ... gctgatgcagGGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAACGAGTTCTTC
EST: gi|91052088|gb|EB162506.1|EB162506
EST:     ACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTAT                         GGCTTCAGGAAGATAGTGGCGGACAGGGGGGAGTTCGCCCACGAGTTCTTC
genomic: ACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgt ... gctgatgcagGGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAACGAGTTCTTC
EST: gi|211049074|gb|FK969036.1|FK969036
EST:     ACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTAT                         GGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAATGAGTTCTTC
genomic: ACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgt ... gctgatgcagGGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAACGAGTTCTTC
EST: gi|91872840|gb|EB402797.1|EB402797
EST:     ACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACATCTAT                         GGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAACGAGTTCTTC
genomic: ACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgt ... gctgatgcagGGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAACGAGTTCTTC
EST: gi|211049075|gb|FK969037.1|FK969037
EST:     ACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTAT                         GGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAACGAGTTCTTC
genomic: ACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgt ... gctgatgcagGGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAACGAGTTCTTC

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), 46 (downstream exon)
Score: 14

CTTCGTCGTGTGGCGCCCGCCCGAGTTCGCCCGCGACCTCCTCCCAAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgt ... gctgatgcagGGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAACGAGTTCTTCAGGAAGGGCGCCAAGCACCTCCTCGCCGAGATCCACCGGAGGAAGTCGT


Block sizes: 49 (upstream exon), 22 (downstream exon)
Score: 3

CTTCGTCGTGTGGCGCCCGCCCGAGTTCGCCCGCGACCTCCTCCCAAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgt ... gctgatgcagGGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAACGAGTTCTTCAGGAAGGGCGCCAAGCACCTCCTCGCCGAGATCCACCGGAGGAAGTCGT


Block sizes: 40 (upstream exon), 21 (downstream exon)
Score: 3

CTTCGTCGTGTGGCGCCCGCCCGAGTTCGCCCGCGACCTCCTCCCAAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgt ... gctgatgcagGGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAACGAGTTCTTCAGGAAGGGCGCCAAGCACCTCCTCGCCGAGATCCACCGGAGGAAGTCGT


Block sizes: 32 (upstream exon), 18 (downstream exon)
Score: 1

CTTCGTCGTGTGGCGCCCGCCCGAGTTCGCCCGCGACCTCCTCCCAAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgt ... gctgatgcagGGCTTCAGGAAGATAGTGGCGGACAGGTGGGAGTTCGCCAACGAGTTCTTCAGGAAGGGCGCCAAGCACCTCCTCGCCGAGATCCACCGGAGGAAGTCGT


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTCGTCGTGTGGCGCCCGCCCGAGTTCGCCCGCGACCTCCTCCCAAACTACTTCAAGCACAACAACTTCTCCAGCTTCGTCAGGCAGCTCAACACCTATgtacgtacgtagtagtattacattacatacacataatgcattgcattgcattgcattgtactgcatgcatggtttcagttcccttgctcgatcttgtttg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA