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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCAAAGAAGTCTGGCAAGGGTAAGAAGCCAGGTAAGGGTGGCAACCGTTTCTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaatagagtcttgcttctttgtttagctgttaccagaattccaattcattacattttagattcttgcttactatcttttgtgtgctgtagagaagaa...

Basic information

species Oryza sativa
transcript LOC_Os04g52361.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g52361.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G044800_T02 (Zea mays), 5'ss of exon 3
TCAAAGAAGTCTGGCAAGGGTAAGAAGCCAGGTAAGGGTGGCAACCGTTTCTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaatagagtcttgcttctttgtttagctgtt----accagaattccaattcattacattttagattcttgcttactatcttttgtgtgctgtagagaagaa
|||||||| || ||||| ||||||||||| || ||||| |||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||| | | || ||  | ||  || | ||    ||||   ||  ||  || ||   |||| |||  |   |   |    |  |    | |  | ||   
TCAAAGAAATCCGGCAAAGGTAAGAAGCCTGGCAAGGGCGGCAACCGATTCTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtataatag-gccctgattggtagtgaagtttttgggtaccacggttttaaaacactaaggtttacatttgttaatgacaaaaataatacagttttcaaaa---

upper sequence: LOC_Os04g52361.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G019325_T01 (Zea mays), 5'ss of exon 3
TCAAAGAAGTCTGGCAAGGGTAAGAAGCCAGGTAAGGGTGGCAACCGTTTCTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaatagagtcttgcttctttgtttagctgttaccagaattccaattcattacattttagattcttgcttactatcttttgtgt--gctgtagagaagaa
|||||||| ||||||||||||||||||||||| ||||||||||| || || |||||||||||||||||||| ||||||||||||||||||||||||||||||||| | |  | | | || | |||    || |     || |     |   | |   |    ||| ||  ||   ||  ||   |     ||   | |    
TCAAAGAAATCTGGCAAGGGTAAGAAGCCAGGCAAGGGTGGCAATCGATTTTGGAAGAGCATTGGCCTTGGTTTCAAGACTCCCAGGGAAGCAATTGAAGgtacagtgg--tttcgtttgtctgtagcactatctttggagtcagtgtgtttgaaggtgggcattgttatttgagatagttaaggacaaatgcttatattgg

upper sequence: LOC_Os04g52361.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA13G23400.2 (Glycine max), 5'ss of exon 3
TCAAAGAAGTCTGGCAAGGGTAAGAAGCCAGGTAAGGGTGGCAACCGTTTCTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaatagagtcttgcttctttgtttagctgttaccagaattccaattcattacattttagattctt--gcttactatcttttgtgtgctgtagagaagaa--
 |||||||| |||| ||||| ||||  || || || ||||| ||||| || ||||||  |||||| ||||| || ||||||||||||||||| || |||||||        |||   |      |||  || |||  | |||     ||| || |  | |  |||  |  | ||| | |  |   | |  |||        |  
ACAAAGAAGACTGGGAAGGGAAAGAGACCTGGAAAAGGTGGGAACCGCTTTTGGAAGTCCATTGGGCTTGGATTTAAGACTCCCAGGGAAGCCATCGAAGgtatctctctctctcattcaccacttt--ctcttat-aaaatgtttgttctttgcgatgtgaatttatcaggttattgttgtggatat-ttgtttcttcttatt

upper sequence: LOC_Os04g52361.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA17G11430.1 (Glycine max), 5'ss of exon 3
TCAAAGAAGTCTGGCAAGGGTAAGAAGCCAGGTAAGGGTGGCAACCGTTTCTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaatagagtcttgcttctttgtttagctgttaccagaattccaattcattacattttagattctt--gcttactatcttttgtgtgctgtagagaagaa---
|| |||||  |||| ||||| ||||  || || |||||||| ||||| || |||||   |||||| ||||| || ||||||||||||||||| || |||||||        || | | ||| | |    |||||   | |||    ||||  | |  | |  ||   |  | ||| | |  | |   |  | |    |   |   
TCGAAGAAAACTGGGAAGGGAAAGAGACCCGGAAAGGGTGGGAACCGCTTTTGGAAATCCATTGGGCTTGGATTTAAGACTCCCAGGGAAGCCATCGAAGgtatctccctctcattcatctctct----ctgttgt-aaaatgtttattctgtgcgatgtgaatctattaggttattgttgtgtacatatttttttaattgatta

upper sequence: LOC_Os04g52361.1 (Oryza sativa), 5'ss of exon 3
lower sequence: AT4G30800.1 (Arabidopsis thaliana), 5'ss of exon 3
TCAAAGAAGTCTGGCAAGGGTAAGAAGCCAGGTAAGGGTGGCAACCGTTTCTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaata---gagtcttgcttctttgtttagctgttaccagaattccaattcattacattttagattcttgcttactatcttttgtgtgctgtagagaagaa
|| ||||| ||||| ||||| |||| ||| ||||| || || || ||||||||||||| |||||||||||| ||||| ||||| || || || |||||||||||  |      ||||    |||   ||| ||| ||||||    |  ||     | |||||   |     | |   | ||||| | |  || ||||| |   
TCGAAGAAATCTGGTAAGGGAAAGAGGCCTGGTAAAGGAGGTAATCGTTTCTGGAAGAACATTGGCCTTGGTTTCAAAACTCCAAGAGAGGCTATTGAAGgtactgtttttatgtctcagctctcaattttgct-ttaccatgtctagaagaagcttcatttgttaaaaaagttggat-tctttagagaact-tagaggattt

upper sequence: LOC_Os04g52361.1 (Oryza sativa), 5'ss of exon 3
lower sequence: AT3G48930.1 (Arabidopsis thaliana), 5'ss of exon 3
TCAAAGAAGTCTGGCAAGGGTAAGAAGCCAGGTAAGGGTGGCAACCGTTTCTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaatagagtcttgcttctttgtttagctgttaccagaattccaattcattacattttagattcttgcttactatcttttg-tgtgctgtagagaagaa-
|| ||||| ||||| ||||| ||||  || || || ||||| |||||||||||||||| ||||||  | ||||||||||||||  | ||||| ||||| ||||   |  || |||    ||   | ||   | ||   ||| ||        |    || | ||  | | |   | ||   || | |  |||   | |||| 
TCGAAGAAATCTGGAAAGGGAAAGAGACCTGGAAAAGGTGGAAACCGTTTCTGGAAGAACATTGGTTTGGGCTTCAAGACTCCTCGTGAAGCCATTGATGgtatgtttaag-cttttaactcgttataatagataa-ggaactcttggattgtgttgttcatatagtcgatagatttcaaatgctattttgtcttgtagaat

upper sequence: LOC_Os04g52361.1 (Oryza sativa), 5'ss of exon 3
lower sequence: AT5G23740.1 (Arabidopsis thaliana), 5'ss of exon 3
TCAAAGAAGTCTGGCAAGGGTAAGAAGCCAGGTAAGGGTGGCAACCGTTTCTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaatagagt--cttgcttctttgtttagctgtta--ccagaattccaattcattacattttagattcttgcttactatcttttgtgtgctgtagagaagaa
|| ||||  ||||| || || ||||  || ||||| ||||| |||||||||||||||| ||||||  | || |||||||||||  | ||||| ||||| |||    |    |  ||      | || ||| |  |||  | | |  | |||   | |    | |  ||  ||| ||    | || ||| |   || |  || | 
TCGAAGATATCTGGGAAAGGAAAGAGACCTGGTAAAGGTGGAAACCGTTTCTGGAAGAACATTGGTTTGGGTTTCAAGACTCCTCGTGAAGCCATTGATGgtttgttgtttttcctcatacttctgattatcatttaagcgaaagcttcaa---actttgatctgaatagttgatt-tagtgttgtgtattaggtggttaacag

upper sequence: LOC_Os04g52361.1 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv04s0008g06220.t01 (Vitis vinifera), 5'ss of exon 3
TCAAAGAAGTCTGGCAAGGGTAAGAAGCCAGGTAAGGGTGGCAACCGTTTCTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaatagagtct-tgcttctttgtttagctgttaccaga-attccaattcattacattttagattcttgcttactatcttt-tgtgtgctgtagagaagaa
|||||||||   || ||||| |||| ||| || |||||||| || || |||||||||||||||||  | || || ||||| ||||| || ||||||||||||  |    | | | ||||    |  | | |            || ||||   ||   ||  |  |  | | ||   ||   |   | | |  ||  ||    
TCAAAGAAGGGCGGAAAGGGAAAGAGGCCTGGAAAGGGTGGAAATCGATTCTGGAAGAGCATTGGATTGGGATTTAAGACACCCAGAGATGCAATTGAAGgtttagccaactatatgctcgactaataatccaaatttgtttgtttcaatcttttgtgttccacttaatggatttggattcatgcatctacattatggat---

upper sequence: LOC_Os04g52361.1 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv11s0118g00680.t01 (Vitis vinifera), 5'ss of exon 3
TCAAAGAAGTCTGGCAAGGGTAAGAAGCCAGGTAAGGGTGGCAACCGTTTCTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaatagagtcttgcttctttgtttagctgtta---ccagaattc---caattcattacatt--ttagattcttgcttactatcttttgtgtgctgtagagaagaa
|| ||||| ||||  ||||| |||| ||| || |||||||| ||||| |||||||||||||||||| | || || ||||| ||| | || || |||||||||   |     | || |||   | | |   |  ||        ||||   || ||   || ||   |    | |||   |  ||||||    ||  | ||        
TCGAAGAAATCTGCGAAGGGGAAGAGGCCTGGGAAGGGTGGAAACCGGTTCTGGAAGAGCATTGGCTTAGGGTTTAAGACACCCCGAGACGCTATTGAAGgtttgaattcattttacttgagtttgtgaattctaaatttgatattcttgcattttggtatatcaatctagtgcttagctgatatcttactcgtttttta--------

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|88670225|gb|CI723473.1|CI723473
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|87026526|gb|CI252480.1|CI252480
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|88414388|gb|CI691548.1|CI691548
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|88578563|gb|CI687500.1|CI687500
EST:     TGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCCAGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: TGGAAGAGCATTGGCCTTGGCTTCAAGACTCCC-AGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|86423515|gb|CI062276.1|CI062276
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCCATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|88979376|gb|CI025878.1|CI025878
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|4716480|gb|AU057596.1|AU057596
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|86257119|gb|CI061882.1|CI061882
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|88673013|gb|CI727128.1|CI727128
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|86518147|gb|CI158353.1|CI158353
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCGGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|88670002|gb|CI724118.1|CI724118
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|86528901|gb|CI169107.1|CI169107
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|87025091|gb|CI263599.1|CI263599
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|88576375|gb|CI670520.1|CI670520
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|87030607|gb|CI255036.1|CI255036
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|38474928|gb|CF959061.1|CF959061
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|86419278|gb|CI054079.1|CI054079
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|86822694|gb|CI251785.1|CI251785
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|33660458|gb|CF291425.1|CF291425
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|3763186|gb|AU029938.1|AU029938
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|88670956|gb|CI725072.1|CI725072
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|88303277|gb|CI668925.1|CI668925
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|88204984|gb|CI204833.1|CI204833
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTCCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|88665722|gb|CI715878.1|CI715878
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|88665678|gb|CI715834.1|CI715834
EST:     TGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGCAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: TGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGG-AAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|88211424|gb|CI211064.1|CI211064
EST:     GGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: GGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|88244400|gb|CI243522.1|CI243522
EST:     CTGGAAGAGCATTGGCCTTGGCTTCGAGACTCCCAGGGAAGCAATTGAAG                         GGACATACAGTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|5005510|gb|AU070275.1|AU070275
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
EST: gi|88669454|gb|CI723372.1|CI723372
EST:     CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAG                         GGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG
genomic: CTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAG

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: 75 (upstream exon), 75 (downstream exon)
Score: 187

TCAAAGAAGTCTGGCAAGGGTAAGAAGCCAGGTAAGGGTGGCAACCGTTTCTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaataga ... ttccttgcagGGACATACATTGATAAGAAGTGCCCATTCACTGGAACTGTTTCTATCAGAGGCAGAATCATTGCTGGAACATGCCATAGTGCTAAGATGAACAGGACTAT




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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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCAAAGAAGTCTGGCAAGGGTAAGAAGCCAGGTAAGGGTGGCAACCGTTTCTGGAAGAGCATTGGCCTTGGCTTCAAGACTCCCAGGGAAGCAATTGAAGgtacaatagagtcttgcttctttgtttagctgttaccagaattccaattcattacattttagattcttgcttactatcttttgtgtgctgtagagaagaa

- - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG