Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttctagttggccctgttggtgtccttgtgatttgacaatggtatttgcaaaaactaattgtatctgtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTG

Basic information

species Zea mays
transcript GRMZM2G058138_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G058138_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g18510.1 (Oryza sativa), 3'ss of exon 2
gttctagttggccctgttggtgtccttgtgatttgacaatggtatttgcaaaaactaattgtatctgtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTG
||||| |||  ||||||   |  ||||  | |||    |   | |||   |   |||||| |   ||  |||||||||||| |||| ||| ||||||||||| || |||||||||||||| ||||||||||| |||||||| |||||||||||||| ||||||||||| || ||||
gttcttgttatccctgtgtcttcccttagggtttactgaaactttttcttatggctaattctggttggttttgcagCAAGCCATGAGGAAGGCTGAAGCTGCTGGTAATGATAATTGTCCAGTGAAGATTAAGCTAGTTGCACCTCCACTTTATGTGCTGACCACACAAACTCTTG

upper sequence: GRMZM2G058138_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA11G35600.1 (Glycine max), 3'ss of exon 4
------------------------------------------------------gttctagttggccctgttg-gtgtc----cttgtgatttgaca---atggtatttgcaaaaactaattgtatctgtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTG
                                                        |||| || |   |||   ||||     | | |   ||  |    |  |||||  ||     ||     || ||  | ||||| | || ||| | || ||||||||||| || |||||| | || || || || |||||||| |||||||| |||||||||||||| ||||| ||||| || |
gtcttgattatttctattcctcctgtttcttattttggcttcttttcttttaagcatctaatttgttatgtgaagtgttatttcctatagcttatcttccaaagtattctcacgttttataatgatttgattatgcagGAGGCAATGCATAAGGCTGAAGCTGCAGGAAATGATGACTGCCCCGTCAAAATTAAACTTGTTGCTCCCCCACTTTATGTTCTTACCACCCAGACACTGG

upper sequence: GRMZM2G058138_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA18G02820.1 (Glycine max), 3'ss of exon 4
-------------------------------------------------------gttctagttggccctgttggtgtc-----cttgtgatttgaca---atggtatttgcaaaaactaattgtatctgtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTG
                                                         |||| || |   | |   | |      | | |   ||  |    |  |||||  ||     ||     || ||  | ||||| | || |||   || |||||||||| ||| |||||| | || ||||| || |||||||| |||||||| |||||||||||||| ||||| ||||| || |
gtatttgattatttgtattccttttgttttttactttggttccttttcttttaagcatctaatttgttatatgaatttttattgcctatagcttatcttccaaagtattctcaggttttataatgatttgattatgcagGAGGCAATGCGTAAGGCTGAAGCTGTGGGAAATGATGACTGCCCTGTCAAAATTAAACTTGTTGCTCCCCCACTTTATGTTCTTACCACCCAGACACTGG

upper sequence: GRMZM2G058138_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv13s0067g01710.t01 (Vitis vinifera), 3'ss of exon 4
--------------------------------------------------------gttctagttggccctgttggtgtccttgtgatttgacaatggtatttgcaaaaactaattgtatctgtatttg--cagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTG
                                                         |  || ||||   | ||  | |      | ||| |  |  || |     || |||  || ||||| |   |   ||| |||| |||  |||||| ||||| ||||||||| |  ||||||| ||||| |||||||| ||||||||||| ||||||||||| || || ||||| ||||
gttttattggtgtccttctttgccactttttattttatttgattggcctaatctgtttcataattgggatt-ttactttagaaccgttttaagtactgtctgctttaatacttgttttatctttcactattcagGAAGCAATGCGGAAAGCAGAAGCGGCGGGCAATAAGGATTGTCCAGTGAAAATTAAACTGGTTGCTCCTCCGCTTTATGTTCTTACTACTCAGACGCTTG

upper sequence: GRMZM2G058138_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv06s0004g07100.t01 (Vitis vinifera), 3'ss of exon 4
------------------gttctagttggccctgttggtgtccttgtgat-----ttgacaatggtatttgcaaaaactaattgtatctgtatt-tgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTG
                    ||||     |  | ||  | || |  | ||     |     ||  |  || ||     |  ||   | | |||| ||||| ||||||||   |||||||||||||| |||||| |  | || |||||||| || ||| | ||||||||||| || |||||||| ||||| || || ||||
tactatgtttttgtttttaatctaaacatcaatattaatatcatcatcatcatcatcttttattattgttacattttttttttaattttttattatgcagGAAGCTATGCGTAAAGCTGAAGCTGCCGGCAATAAAGACTGCCCTGTGAAAATAAAATTGGTTGCTCCTCCCCTCTATGTTCTAACCACTCAAACTCTTG

upper sequence: GRMZM2G058138_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S55_319V6.1 (Physcomitrella patens), 3'ss of exon 5
----------------------gttctag--ttggccctgttg-gtgtccttgtgatttgacaatggtatttgcaaaaactaattgtatctgtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTG
                      ||| | |  ||       |   |     ||||   | |  | |  ||||  ||  |  |  || | | |||  || ||| | || ||||  || || || ||||| || | |||  | |||||||||||||||||  |||| || || |||||||||||  | ||||||||||| ||||
caacggtctgttactaaaaggagttttggcattaaaaacatgacgcacagttgtttgtcgttagttttattcacatcatgttcttctgtgtgt-cttacagGATGCAATGAGAAAGGCAGAGGCTGCTGGAACTGAAGAGTGTCCTGTGAAGATTAAGTTAGTGGCACCCCCACTTTATGTGATCACCACACAGACACTTG

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|76292258|gb|DV031826.1|DV031826
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGA
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGA
EST: gi|60349894|gb|DN216867.1|DN216867
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|61117523|gb|DN558484.1|DN558484
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|31406196|gb|CD484928.1|CD484928
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|32841754|gb|CD981435.1|CD981435
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCAGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|32844323|gb|CD984004.1|CD984004
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGTTGCAGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|9731744|gb|BE510496.1|BE510496
EST:     TTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
genomic: TTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|32845132|gb|CD984813.1|CD984813
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCAGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|87152809|gb|DY397598.1|DY397598
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|61117524|gb|DN558485.1|DN558485
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|5108096|gb|AI739809.1|AI739809
EST:     TGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
genomic: TGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|32944502|gb|CF049321.1|CF049321
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCAGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|32842562|gb|CD982243.1|CD982243
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGCACAGCTGAAGCTGCAGGCAATGATAATTGTCCTGTGAA
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAG-AAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAA
EST: gi|32841753|gb|CD981434.1|CD981434
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCAGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|19436423|gb|BM952833.1|BM952833
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CCAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|13491041|gb|BG517805.1|BG517805
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|76292257|gb|DV031825.1|DV031825
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|32845043|gb|CD984724.1|CD984724
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCAGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|4776664|gb|AI665667.1|AI665667
EST:     CTGATATAAAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|61117522|gb|DN558483.1|DN558483
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|32844128|gb|CD983809.1|CD983809
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCAGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|12969140|gb|BG266085.1|BG266085
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|29576855|gb|CB616967.1|CB616967
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|61117520|gb|DN558481.1|DN558481
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|6721022|gb|AW308659.1|AW308659
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|22491009|gb|BU050932.1|BU050932
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|32842563|gb|CD982244.1|CD982244
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCAGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|26557571|gb|CA829806.1|CA829806
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|19436422|gb|BM952832.1|BM952832
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|29543502|gb|CB603884.1|CB603884
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|26557327|gb|CA829562.1|CA829562
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|32844747|gb|CD984428.1|CD984428
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCAGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|91054913|gb|EB165331.1|EB165331
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG
EST: gi|32842176|gb|CD981857.1|CD981857
EST:     CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAG                         CAAGCTATGAAGAAAGCTGAAGCTGCAGGCAATGATAATTGTCCTGTGAAG
genomic: CTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAG

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: 289

GGTGAAGAACATAAGGAGGAGGATGACACCGCAGCCACTCAAGATCCGTGCTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTG


Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 224

GGTGAAGAACATAAGGAGGAGGATGACACCGCAGCCACTCAAGATCCGTGCTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 199

GGTGAAGAACATAAGGAGGAGGATGACACCGCAGCCACTCAAGATCCGTGCTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 294

GGTGAAGAACATAAGGAGGAGGATGACACCGCAGCCACTCAAGATCCGTGCTGATATAGAGATGAAGTGCTTCCAGTTTGATGGAGTGCTCCATATTAAGgttctagttg ... gtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtccttgtgatttgacaatggtatttgcaaaaactaattgtatctgtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTG
                               aactaat  putative branch site (score: 294)
                            aaaaactaattgtat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttctagttggccctgttggtgtccttgtgatttgacaatggtatttgcaaaaactaattgtatctgtatttgcagCAAGCTATGAAGAAAGCTGAAGCTGCGGGCAATGATAATTGTCCTGTGAAGATTAAACTAGTTGCTCCTCCACTTTATGTTCTGACCACACAGACCCTTG

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