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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacattattttagtacttaatatatgtgagcaatttgttatagccgagccttttgaagttttgtctgccctgaggcccatttctcatcaaatctgtg...

Basic information

species Zea mays
transcript GRMZM2G058138_T01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G058138_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os03g18510.1 (Oryza sativa), 5'ss of exon 3
TATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacattattttagtacttaatatatgtgagcaatttgttatagccgagccttttgaagttttgtctgccctgaggcccatttctcatcaaatctgtg---
 |||| ||| ||||||||||| || |||||||||||||| ||||||||||| |||||||| |||||||||||||| ||||||||||| || ||||||||||| |    | | ||    |||| | | | |||  |   ||       |       ||||    |    ||  || |  | |||||   | || |  |||    
CATGAGGAAGGCTGAAGCTGCTGGTAATGATAATTGTCCAGTGAAGATTAAGCTAGTTGCACCTCCACTTTATGTGCTGACCACACAAACTCTTGACAAGgtcggtgctttcttca-gcttattttgt-tgattatcgtggatcttgcattgtgcttgaccgataagatggactaattcacatttag-accatagttgtacat

upper sequence: GRMZM2G058138_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA11G35600.1 (Glycine max), 5'ss of exon 5
TATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacattattttagta-----cttaatatatgtgagcaatttgttatagccgagccttttgaagttttgtctgccctgaggcccatttctcatcaaatctgtg
 ||| | || ||||||||||| || |||||| | || || || || |||||||| |||||||| |||||||||||||| ||||| ||||| || |||||||||      |||||   |     ||| || |||||    ||||| ||  |     |  |||||    |     ||   ||  |   || | |      || |   
AATGCATAAGGCTGAAGCTGCAGGAAATGATGACTGCCCCGTCAAAATTAAACTTGTTGCTCCCCCACTTTATGTTCTTACCACCCAGACACTGGACAAGgttagtgcaattttcacataaatcttgat-tatgtatataattt-ttggatgtatgaattttgcccctactgttgtattgtagataatgtttgggggcattt---

upper sequence: GRMZM2G058138_T01 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA18G02820.1 (Glycine max), 5'ss of exon 5
TATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacattattttagta-----cttaatatatgtgagcaatttgttatagccgagccttttgaagttttgtctgccctgaggcccatttctcatcaaatctgtg
 |||   || |||||||||| ||| |||||| | || ||||| || |||||||| |||||||| |||||||||||||| ||||| ||||| || |||||||||      ||||||  |     ||| || ||||     ||||| ||  |     |  |||   | |  || ||||  ||  |   || | | |    || ||  
AATGCGTAAGGCTGAAGCTGTGGGAAATGATGACTGCCCTGTCAAAATTAAACTTGTTGCTCCCCCACTTTATGTTCTTACCACCCAGACACTGGACAAGgttagtgcaattttaacataaatcttgat-tatgcatataattt-ttggatgtatgaatttgccactgctg-ctgcattgtagattatgtttgagggcatttg--

upper sequence: GRMZM2G058138_T01 (Zea mays), 5'ss of exon 3
lower sequence: AT2G40290.3 (Arabidopsis thaliana), 5'ss of exon 4
TATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgtt-gacattattttagtacttaatat-atgtgagcaatttgttatagccgagccttttgaagttttgtctgccctgaggcccatttctcatcaaatctgtg
|||||| || |||||||| || || |||||  | |||||||| ||||||||| | |||||||| || || ||||| || || || ||||| |||||||||||| | || | || ||      | ||| || |      |||| || |   |    || |  |  |    |    || |     |       |   |||| | 
TATGAAAAATGCTGAAGCCGCTGGAAATGAAGACTGTCCTGTTAAGATTAAATTGGTTGCTCCACCTCTGTATGTCCTTACTACTCAGACACTTGACAAGgttaggcaatcttctatcttgcactatgatttacttggtttggta-attggtatattatagaaatcctcccctacttatctttaagaggtttatgatctct-

upper sequence: GRMZM2G058138_T01 (Zea mays), 5'ss of exon 3
lower sequence: Vv13s0067g01710.t01 (Vitis vinifera), 5'ss of exon 5
TATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgt--tgacattattttagtacttaatatatgtgagcaatttgttatagccgagccttttgaagttttgtctgccctgaggcccatttctcatcaaatctgtg-
 |||  |||||| ||||| ||||||||| |  ||||||| ||||| |||||||| ||||||||||| ||||||||||| || || ||||| |||||||||||  |||||  | | ||| |   ||| |      | |   | |||| |||      |||        |    |       | | ||| |  |    |   || 
AATGCGGAAAGCAGAAGCGGCGGGCAATAAGGATTGTCCAGTGAAAATTAAACTGGTTGCTCCTCCGCTTTATGTTCTTACTACTCAGACGCTTGACAAGgtaatgacac-agtgtagcaaacaatttccccctggataattttattgcctg--tgtttagtacggagcaaacttgtttcctcctttttggtgggttgaatgg

upper sequence: GRMZM2G058138_T01 (Zea mays), 5'ss of exon 3
lower sequence: Vv06s0004g07100.t01 (Vitis vinifera), 5'ss of exon 5
TATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacattattttagtacttaatatatgtgagcaatttgttatagccgagccttttgaagt---tttgtctgccctgaggcccatttctcatcaa-atctgtg
||||   |||||||||||||| |||||| |  | || |||||||| || ||| | ||||||||||| || |||||||| ||||| || || |||||||||||   | | |  ||  ||  |  | ||  ||  ||  ||||| |  || |   | |||| ||      || | |  | | | |  | | |  |||  ||     
TATGCGTAAAGCTGAAGCTGCCGGCAATAAAGACTGCCCTGTGAAAATAAAATTGGTTGCTCCTCCCCTCTATGTTCTAACCACTCAAACTCTTGACAAGgtaagcttgagatt--taactg-tgtaactggtcatcttgtt-tcccctactatgttgatgtaggcaagttttcttttatgactttgttttctcattattcact

upper sequence: GRMZM2G058138_T01 (Zea mays), 5'ss of exon 3
lower sequence: PP1S55_319V6.1 (Physcomitrella patens), 5'ss of exon 6
TATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttg---------acattattt-tagtacttaatatatgtgagcaatttgttatagccgagccttttgaagttttgtctgccctgaggcccatttctcatcaaatctgtg---------------------------------------------------------------
 ||||  || || || ||||| || | |||  | |||||||||||||||||  |||| || || |||||||||||  | ||||||||||| |||||||||||           ||||  ||| | | | |||| || |   | ||  ||| || |  |   ||      |  ||  | |        ||  |  ||  || |||  ||                                                                 
AATGAGAAAGGCAGAGGCTGCTGGAACTGAAGAGTGTCCTGTGAAGATTAAGTTAGTGGCACCCCCACTTTATGTGATCACCACACAGACACTTGACAAGgtgagttaaatctacatattttgtgggatttaagattttaaaccaggttgataaatacatcccaaacagatgttcatatattggtcagcttacatcgaat-aaacatgaaatgctaccgttttagtttttactattttcaaagctcgtattcaacttgtgcattgcttgtcag

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|5058755|gb|AI737231.1|AI737231
EST:     AGCTAGTTGCTCCTCCACTTTATGTTCTGACCNCACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
EST: gi|60349894|gb|DN216867.1|DN216867
EST:     AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCATTGATGCAGTCAAGGCTTGTACAGCAGAG
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
EST: gi|61117523|gb|DN558484.1|DN558484
EST:     AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
EST: gi|31406196|gb|CD484928.1|CD484928
EST:     AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
EST: gi|32841754|gb|CD981435.1|CD981435
EST:     AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTA
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTA
EST: gi|113614778|gb|DW779308.1|DW779308
EST:     ACTAGTTGCTCCTCCTACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTAC
genomic: ACTAGTTGCTCCTCC-ACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTAC
EST: gi|13490893|gb|BG517657.1|BG517657
EST:     AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
EST: gi|32844323|gb|CD984004.1|CD984004
EST:     AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGT
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGT
EST: gi|9731744|gb|BE510496.1|BE510496
EST:     AGCTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
EST: gi|32845132|gb|CD984813.1|CD984813
EST:     AACTAGTTGCTCCTCCACTTTATGGTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGCTCTCACTGATGCAGTCAAGGCTTGTAC
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTAC
EST: gi|87152809|gb|DY397598.1|DY397598
EST:     AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
EST: gi|166685900|gb|EG161347.1|EG161347
EST:     CTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
genomic: CTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
EST: gi|4804424|gb|AI665225.2|AI665225
EST:     AGCTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
EST: gi|61117524|gb|DN558485.1|DN558485
EST:     AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
EST: gi|5108096|gb|AI739809.1|AI739809
EST:     AGCTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
EST: gi|32944502|gb|CF049321.1|CF049321
EST:     AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGACAAGGCTTGT
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGT
EST: gi|32842562|gb|CD982243.1|CD982243
EST:     AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTAC
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTAC
EST: gi|32841753|gb|CD981434.1|CD981434
EST:     AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTA
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTA
EST: gi|19436423|gb|BM952833.1|BM952833
EST:     AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
EST: gi|13491041|gb|BG517805.1|BG517805
EST:     AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
EST: gi|76292257|gb|DV031825.1|DV031825
EST:     AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
EST: gi|15632489|gb|BI679582.1|BI679582
EST:     AGCTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGAC-AG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
EST: gi|32845043|gb|CD984724.1|CD984724
EST:     AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTA
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTA
EST: gi|4776664|gb|AI665667.1|AI665667
EST:     AGCTAGTTGCTCCTCCACTTTATGTTCTGGCCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTCCAGCAGAG
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
EST: gi|61117522|gb|DN558483.1|DN558483
EST:     AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
EST: gi|32844128|gb|CD983809.1|CD983809
EST:     AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGT
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGT
EST: gi|12969140|gb|BG266085.1|BG266085
EST:     AGCTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
EST: gi|29576855|gb|CB616967.1|CB616967
EST:     AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
EST: gi|61117520|gb|DN558481.1|DN558481
EST:     AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
EST: gi|6721022|gb|AW308659.1|AW308659
EST:     AGCTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
EST: gi|22491009|gb|BU050932.1|BU050932
EST:     AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
EST: gi|32842563|gb|CD982244.1|CD982244
EST:     AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGT
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGT
EST: gi|19436422|gb|BM952832.1|BM952832
EST:     AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
EST: gi|26557327|gb|CA829562.1|CA829562
EST:     AACTAGTTGCTCCTCCCCTTTATGTTCTGACCCCACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAG
EST: gi|32844747|gb|CD984428.1|CD984428
EST:     AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGT
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGT
EST: gi|32842176|gb|CD981857.1|CD981857
EST:     AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAG                         GACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTAC
genomic: AACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTAC

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: 292

TATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAGATTGAAAAATACAAAGGAAAGTTAGTAGTGAAGGAACCACCAAGAGCT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 331

TATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAGATTGAAAAATACAAAGGAAAGTTAGTAGTGAAGGAACCACCAAGAGCT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 297

TATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAGATTGAAAAATACAAAGGAAAGTTAGTAGTGAAGGAACCACCAAGAGCT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 268

TATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacatta ... ctttgaacagGACCAAGGGATTTCAGTTCTCACTGATGCAGTCAAGGCTTGTACAGCAGAGATTGAAAAATACAAAGGAAAGTTAGTAGTGAAGGAACCACCAAGAGCT


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTGACAAGgttgacattattttagtacttaatatatgtgagcaatttgttatagccgagccttttgaagttttgtctgccctgaggcccatttctcatcaaatctgtg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC