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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTGGCGACATCCACGGCCAGTTCTATGACCTCATCGAGCTCTTCCGCATCGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggctacgcttaccctgccctaactttctcccatgcggctctgttctgctcaacggtttctccccccttgctcacccgcgcagctgtgccgatgc...

Basic information

species Zea mays
transcript GRMZM2G133464_T01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G133464_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os02g12580.1 (Oryza sativa), 5'ss of exon 1
TGTGGCGACATCCACGGCCAGTTCTATGACCTCATCGAGCTCTTCCGCATCGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggctacgct-taccctgccctaactttctcccatgcggctctgttctgctcaacggtttctccccccttgctcacccgcgcagctgtgccgatgc-
|| ||||||||||||||||||||||| |||||||||||||||||||||||||||||||| || |||||||||||||||||||||||||||||||||||||||  ||   ||| |     |||   |   | | | | |  ||| |||  ||| |   | | ||          ||| |  |  || |   |       |   
TGCGGCGACATCCACGGCCAGTTCTACGACCTCATCGAGCTCTTCCGCATCGGCGGCGAGGCGCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtcagttcataccccgcgtcctcttcccccctgcgcgcgcgcg-ctcgattcggtcgatctgtggtggggggattggt-gctggctctttttcttttctttc

upper sequence: GRMZM2G133464_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA18G17100.1 (Glycine max), 5'ss of exon 1
TGTGGCGACATCCACGGCCAGTTCTATGACCTCATCGAGCTCTTCCGCATCGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggctacgcttaccctgccctaactttc-tcccatgcggctctgttctgctcaacggtttctccccccttgctcacccgcgcagctgtgccgatgc--
|| ||||| || |||||||||||||| || ||||||||||| || || || || ||  |||||||||| ||||| || ||||||||||| || || || |||     |  |  |||   |    | |  | || | |  |  |    |  | |      |  |||          | ||           | |     |||  
TGCGGCGATATTCACGGCCAGTTCTACGATCTCATCGAGCTGTTTCGGATTGGAGGGAACGCTCCCGATACCAATTATCTCTTCATGGGTGATTATGTAGgt---cagtcattcttcttcaattccatttctccttctttatgatcattatttatatctctttttagtggttagggttcttaaattttatttttgttttgcta

upper sequence: GRMZM2G133464_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA02G02990.1 (Glycine max), 5'ss of exon 1
TGTGGCGACATCCACGGCCAGTTCTATGACCTCATCGAGCTCTTCCGCATCGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggcta---cgcttaccctgccctaactttctcccatgcggctctgttctgctcaacggtttctccccccttgctcacccgcgcagctgtgccgatgc
|| |||||||| |||||||||||||| || |||||||||||||| || || || ||  |||||||||| || || ||||| || |||||||| || || |||  ||   |    | |||  | |   ||   | ||||   | |   ||  || || | ||    ||     |  | ||| |          |||   | |  
TGCGGCGACATTCACGGCCAGTTCTACGATCTCATCGAGCTCTTTCGGATAGGAGGAAACGCTCCCGATACTAATTACCTGTTTATGGGCGATTATGTAGgtcagttttttttcctcttctcatattctctatctctcttttccttttcc-ttttgtttaattaattaatttcgttagctgaatttgatgtatgtagggtt--

upper sequence: GRMZM2G133464_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA01G04570.1 (Glycine max), 5'ss of exon 1
TGTGGCGACATCCACGGCCAGTTCTATGACCTCATCGAGCTCTTCCGCATCGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggctacg-cttaccctgccctaactttctcccatgcgg-ctctgttctgctcaacggtttctccccccttgctcacccgcgcagctgtgccgatgc
|| |||||||| |||||||||||||| || |||||||||||||| || || || ||  |||||||||| || || |||||||| |||||||| || || |||  ||  || |  |||   || | ||  || |||| |   |   |||| |    ||| |    |       || |  ||    |   |  |     | |  
TGCGGCGACATTCACGGCCAGTTCTACGATCTCATCGAGCTCTTTCGGATAGGAGGAAACGCTCCCGATACTAATTACCTCTTTATGGGCGATTATGTAGgttagtttcttcttcttcttcttctctctctctctctctccctctctctctctctctctatatatatatattccattttcttttgtttaattaattagtt--

upper sequence: GRMZM2G133464_T01 (Zea mays), 5'ss of exon 1
lower sequence: AT1G10430.1 (Arabidopsis thaliana), 5'ss of exon 1
TGTGGCGACATCCACGGCCAGTTCTATGACCTCATCGAGCTCTTCCGCATCGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggctacgcttaccctgccctaactttctcccatgcggctctgttctgctcaacggtttctccccccttgctcacccgcgcagctgtgccgatgc--
|| ||||| || ||||||||||| |||||||| || |||||||| || ||||| ||| ||||||| || || ||||||||||||||||| ||||| || |||  ||   |   |||     |   | | |||      |    || | || |           |||      |||        |  |   |||   || |  
TGCGGCGATATTCACGGCCAGTTTTATGACCTTATTGAGCTCTTTCGTATCGGTGGCAACGCTCCTGATACTAACTACCTCTTCATGGGAGACTATGTAGgtctgtctttcttcttctttcgattttatttttggggtttttacttttttttctcattttagatctgtgtttttggatcattccaaaatggtg--aattctt

upper sequence: GRMZM2G133464_T01 (Zea mays), 5'ss of exon 1
lower sequence: EDO98670 (Chlamydomonas reinhardtii), 5'ss of exon 3
TGTGGCGACATCCACGGCCAGTTCTATGACCTCATCGAGCTCTTCCGCATCGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggctacgcttaccctgccctaactttctcccatgcggctctgttctgctcaacggtttctccccccttgctcacccgcgcagctgtgccgatgc---------
                                                                        ||||||||||||||||||||||||||||   || || | ||| |  |  |          || |  || ||||       |     | ||  |     |     ||    | |  | |  |||  ||          
------------------------------------------------------------------------AACTACCTCTTCATGGGCGACTACGTCGAC-CGAGg-tgcgcgtgactggggaggggaggctgctctgaggctggaaaggggcgggctgtgacgggagcgggcatcgtttg-gtgggttcgccagtggtgtatggtg

upper sequence: GRMZM2G133464_T01 (Zea mays), 5'ss of exon 1
lower sequence: PP1S357_57V6.1 (Physcomitrella patens), 5'ss of exon 1
TGTGGCGACATCCACGGCCAGTTCTATGACCTCATCGAGCTCTTCCGCATCGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggctacgcttaccctgccctaactttctcccatgcggctctgttctgctcaacggtttctccccccttgctcacccgcgcagctgtgccgatgc-
|| || || ||||| ||||||||  | || ||||||||||||||||||||||| ||| | || ||||| || || ||||| ||||||||||||||||| |||  || ||     |     |   || |  | | |   |     |   |  | ||  |  || |||    ||     |    | |||  ||||  ||    
TGCGGAGATATCCATGGCCAGTTTCACGATCTCATCGAGCTCTTCCGCATCGGAGGCAAGGCGCCCGATACGAATTACCTGTTCATGGGCGACTACGTGGgtaagttgcggatttatgtatttgctcagatgcccaattttaatttcttcttcctttaaagtgtctgtgacccaatgcgagtg-gcacttgtggtgaaaga

upper sequence: GRMZM2G133464_T01 (Zea mays), 5'ss of exon 1
lower sequence: EFJ22002 (Selaginella moellendorffii), 5'ss of exon 1
TGTGGCGACATCCACGGCCAGTTCTATGACCTCATCGAGCTCTTCCGCATCGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggctacgcttaccctgccctaactttctcccatgcggctctgttctgctcaacggtttctccccccttgctcacccgcgcagctgtgccgatgc
|| ||||||||||||||||||||| | || || || ||||||||||| || || ||| | || ||||| || || || ||||||||||||||||| ||||||| ||         ||    |    || |         |  |||  |   || || | |||||  |                                 
TGCGGCGACATCCACGGCCAGTTCCACGATCTGATTGAGCTCTTCCGGATTGGAGGCAAGGCCCCCGATACGAATTATCTCTTCATGGGCGACTATGTCGgtgagt-------tctagataggaagaattggtc-----gttgctacgagttgatctatggttttccag-------------------------------

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|211425167|gb|FL233508.1|FL233508
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|211427757|gb|FL233515.1|FL233515
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|211425154|gb|FL233495.1|FL233495
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|211425156|gb|FL233497.1|FL233497
EST:     CGGAGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACTTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|67023817|gb|CO452566.1|CO452566
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGGTACTATTCAGTTGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|211140423|gb|FL389577.1|FL389577
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|29167991|gb|CB411251.1|CB411251
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|211422548|gb|FL233484.1|FL233484
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|211422551|gb|FL233487.1|FL233487
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|211266989|gb|FL420581.1|FL420581
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|28931245|gb|CB334606.1|CB334606
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGGGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|211422558|gb|FL233494.1|FL233494
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTAC
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTAC
EST: gi|148963286|gb|EE014276.2|EE014276
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|28361738|gb|CB240094.1|CB240094
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGGGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGGGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|211425160|gb|FL233501.1|FL233501
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTTGAA-
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTT-GAAA
EST: gi|211427752|gb|FL233510.1|FL233510
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|211427758|gb|FL233516.1|FL233516
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGGCTTTGAAA
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGG-CTTTGAAA
EST: gi|211425161|gb|FL233502.1|FL233502
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|211425162|gb|FL233503.1|FL233503
EST:     CGGCGGCGACGCTCCCGACAC-AACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGGTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|76293399|gb|DV032967.1|DV032967
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|148944407|gb|EC889516.2|EC889516
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|211427753|gb|FL233511.1|FL233511
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAATGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|211427760|gb|FL233518.1|FL233518
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|211427754|gb|FL233512.1|FL233512
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGT
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGT
EST: gi|211425165|gb|FL233506.1|FL233506
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|71431047|gb|DR812097.1|DR812097
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|71315213|gb|DR794223.1|DR794223
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|211427759|gb|FL233517.1|FL233517
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTTGAAA
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTT-GAAA
EST: gi|78083760|gb|DV512153.1|DV512153
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|211422550|gb|FL233486.1|FL233486
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|211425164|gb|FL233505.1|FL233505
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|78125124|gb|DV543508.1|DV543508
EST:     CGGGGGAGACGCTCCCGACACCAACTACCTCTTCGTGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|148951611|gb|EC897351.2|EC897351
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
EST: gi|211422552|gb|FL233488.1|FL233488
EST:     CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCG                         ATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG
genomic: CGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAG

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: 47 (upstream exon), 47 (downstream exon)
Score: 33

TGTGGCGACATCCACGGCCAGTTCTATGACCTCATCGAGCTCTTCCGCATCGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAGTCCGTTACAGAGATAGAATTACAATACTTAGAGGAAATCATGAGAGCAG


Block sizes: 43 (upstream exon), 38 (downstream exon)
Score: 14

TGTGGCGACATCCACGGCCAGTTCTATGACCTCATCGAGCTCTTCCGCATCGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAGTCCGTTACAGAGATAGAATTACAATACTTAGAGGAAATCATGAGAGCAG


Block sizes: 44 (upstream exon), 46 (downstream exon)
Score: 28

TGTGGCGACATCCACGGCCAGTTCTATGACCTCATCGAGCTCTTCCGCATCGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAGTCCGTTACAGAGATAGAATTACAATACTTAGAGGAAATCATGAGAGCAG


Block sizes: 44 (upstream exon), 46 (downstream exon)
Score: 13

TGTGGCGACATCCACGGCCAGTTCTATGACCTCATCGAGCTCTTCCGCATCGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggct ... ttggctgcagATCGTGGCTACTATTCAGTCGAAACAGTTTCTCTGTTAGTGGCTTTGAAAGTCCGTTACAGAGATAGAATTACAATACTTAGAGGAAATCATGAGAGCAG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGTGGCGACATCCACGGCCAGTTCTATGACCTCATCGAGCTCTTCCGCATCGGCGGCGACGCTCCCGACACCAACTACCTCTTCATGGGCGACTACGTCGgtgcgtggctacgcttaccctgccctaactttctcccatgcggctctgttctgctcaacggtttctccccccttgctcacccgcgcagctgtgccgatgc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccctgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctccccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cccgcgc