Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatctgttctctgctcatcagggtcatgtcttttgctgttctttttttttgtgtgttcatatactgtatgcattccactttctaaatctctgac...

Basic information

species Zea mays
transcript GRMZM2G032505_T02
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G032505_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os06g07630.1 (Oryza sativa), 5'ss of exon 3
AATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatctgttctctgctcatcagggtcatgtcttttgctgttctttttttttgtgtgttc-atatactgtatgcattccactttctaaatctctgac
||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||| || |       ||    ||   |      |  ||  |    ||    |  | ||  ||  | |  | || ||| |||   |      ||||   | | 
AATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAATATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACTTCCACAAGACAAgtaagaacaaaaacctggtttccctattcctttagctcctagattttacatcatatgaatggacgacttcctttattcatgaaatggaaaaaattgatta-

upper sequence: GRMZM2G032505_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA03G39500.1 (Glycine max), 5'ss of exon 3
AATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatctgttctctgctcatcagggtcatgtcttttgctgttctttttttttgtgtgttcatatactgtatgcattccactttctaaatctctgac---
||| || || || |||||||| || || |||||| | ||||||||| | ||||| ||||||||||||||||||||||| || ||||| || ||  |||| ||||  || ||| |   |  | || | | |  | |||| | ||    |  |||||| ||       | | || ||    |  |    | |    |    |   
AATAAATCCAGAAGATGAAGCAGAAGAAGATGGTTCCAACATTGATCTTGACTCCCAAAGGAAAGGAAAATGTGTTGTGCTAAAGACATCTACTCGACAGgtgacaaagctgataatt--taattaagattgtttcttgt-cttcaatagttttttttgaaactgcaaaatgaatattattaaaacacaaggattaaaccaca

upper sequence: GRMZM2G032505_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA19G42110.1 (Glycine max), 5'ss of exon 1
AATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatctgttctctgctcatcaggg---tcatgtcttttgctgttctttttttttgtgtgttcatat-actgtatgcattccactttctaaatctctgac
 ||||| || || ||||||||||| || ||||| || ||||||||| | ||||| ||||||||||||||||||||||| || ||||| |||||  |||| |||| |||| |  | |||  |   |||     ||||||| |   || ||    |||   ||||     | | | |       || |   |  | |||       
TATGAATCCAGAAGATGAAGCTGAAGAAGATGGGGCCAACATTGATCTTGACTCTCAAAGGAAAGGAAAATGTGTTGTGCTAAAGACATCCACTCGACAGgtga-caatttcatatcttttggacagaaatttcatgtcctcc-ctatttcgatttccagtgttactgtttcattaagattgtttcttatctttaatagtgt--

upper sequence: GRMZM2G032505_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 3
AATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtga---gcaatctgttctc---tgctcatcag--ggtcatgtct-----tttgctgttctttttttttgtgtgttcata--tactgtatgcattccactttctaaatctctgac-------------------------------------------------
||||||||| || || |||||||| || |||||||| || |||||| | |||||||||||||| ||||| |||||||| || ||||| || ||  |||| ||||   | | |  | | ||   |  ||||| |  | || | | |     |||    || |||| |||  | |  | ||   ||   ||||| ||  ||      || |||| |                                                  
AATGAACCCGGAAGACGAAGCTGAAGAAGATGGTGCCAATATTGATCTTGACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatggactaggatttcatattgtcatctgatgttcctatatcatagtttaagattgttttatttgttatagttattgttatcttatgcttttaacgaggacaagctcttagtacatttttcggtaaccttgagcttaataatgttttcttttgactgcag

upper sequence: GRMZM2G032505_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA10G29250.1 (Glycine max), 5'ss of exon 3
AATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatctgttctctgctcatcagggtcatgtcttttgct-------gttcttttt----ttttgtgtgttcatatactgtatgcattccactttctaaatctctgac-----
||||||||| || || |||||||| || |||||||| || |||||| | |||||||||||||| ||||| |||||||| || ||||| || ||  |||| ||||       | |   | |  || |   | ||   ||| ||        | |||   |    |  |   | ||  | || | | ||   |  | | | |     | ||||     
AATGAACCCAGAAGACGAAGCTGAAGAAGATGGTGCCAATATTGATCTTGACTCACAAAGGAAGGGAAAGTGTGTTGTGCTAAAGACTTCTACTCGACAGgtgacatggacgatgatttcatattatc-ttattcttttagcgaggaaaagctctcagtacaatagtacatatttctttaatct-tgagcttaattatgttttcttttgactgcag

upper sequence: GRMZM2G032505_T02 (Zea mays), 5'ss of exon 3
lower sequence: AT3G05530.1 (Arabidopsis thaliana), 5'ss of exon 3
AATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagc------aatctgttctctgctcatcagggtcatgtcttttgctg---ttctttttttttgtgtgttcatatactgtatgcattccactttctaaatctctgac
 ||||| || || ||||| |||||||| |||||||| || |||||| | ||||| ||| |||||||||||||||||||  |||| || || ||| | || |||||       || |  |||| |    ||       |  |||| |  |    |||   |||  ||| ||  || ||||| | ||  || |  | | |  |   | |  
GATGAATCCAGAAGATGATGCTGAGGAAGATGGTGCAAATATTGATCTTGACTCGCAACGGAAAGGAAAATGTGTTGTGTTGAAAACGTCTACACGGCAGgtgagacttccaaacccattctttagatatgttttctacatcttctcttccgtttcccgtttcatgtctgagcaaatacttt-tgt-tttcgttatgtggactgcag--

upper sequence: GRMZM2G032505_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv14s0060g02260.t01 (Vitis vinifera), 5'ss of exon 3
AATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatctgttctctgctcatcagggtcatgtcttttgctgttctttttttttgtgtgttcatatactgtatgca---ttccactttctaaatctctgac
||||||||| |||||||| || ||||| |||||||| || |||||| | ||||| || ||||| ||||||||||||||| |||| || || ||| | || ||   | | |  || |||  | | ||    |||||  ||  || ||      |   ||   ||     | |  ||| |   ||| |    ||  |   |  | 
AATGAACCCAGAGGATGACGCAGAGGAAGATGGTGCAAATATTGATCTTGACTCTCAGAGGAAGGGAAAATGTGTTGTTTTGAAAACATCTACACGCCAGgtacaccagc-attttctcattaacata--catgtacttgtcttttacaaggtagagttaattggagcagtaaatggaattttcgaggacctgcagagcaaaa

upper sequence: GRMZM2G032505_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv05s0020g01180.t01 (Vitis vinifera), 5'ss of exon 4
AATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatctgttctctgctcatcagggtca--tgtcttttgctgttctttttt--tttgtgtgttcatatactgtatgcattccactttctaaatctctgac
||||||||| || ||||||||||| || ||||| |||||| ||||| | ||||| ||||| |||||||||||||| ||  |||| ||||| ||| | || |||| | | |   ||| |  || |||   ||   ||  |||  |       |     || |||  |||||     |||    |    |  |||     ||    
AATGAACCCAGAAGATGAAGCTGAAGAAGATGGCGCTAACGTTGATCTTGACTCCCAAAGAAAAGGAAAATGTGTCGTGTTGAAAACCTCTACACGCCAGgtgaaccagcatatcttttttcttcaatatcgcttgggtttaaccacatagtaagagttggtgatttcattattagtaaaattagagccatcttctcttc----

upper sequence: GRMZM2G032505_T02 (Zea mays), 5'ss of exon 3
lower sequence: PP1S340_7V6.1 (Physcomitrella patens), 5'ss of exon 3
AATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatctgttctctgc--tcatcagg--gtcatgtcttttgctgttctttttttttgtgtgttcatatactgtatgcattccactttc-taaatctctgac--------
  | || || || ||||||||||| ||||||||||||||  ||||||| ||||| ||||||| |||||| ||||| ||  ||||||| |||||| | ||||| ||  || |   |  ||   |  || ||  || | || ||   |   |   | |   | ||  || |  |  | |     || ||||  | | | | | |           
CGTCAATCCAGAAGATGAAGCTGAAGAGGATGGTGCTAATGTTGATTTGGACTCTCAAAGGAGAGGAAAGTGTGTCGTCTTGAAGACATCCACACGTCAAgtaagttatatccacattgagattctctggcagtgacgttttccacatgtgactgtcaatatgaatttaatttatat-catgttgcactgacatcatttttttgtgtgtacag

upper sequence: GRMZM2G032505_T02 (Zea mays), 5'ss of exon 3
lower sequence: EFJ15061 (Selaginella moellendorffii), 5'ss of exon 3
AATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatctgttctctgctcatcagggtcatgtcttttgctgttctttttttttgtgtgttcatatactgtatgcattccactttctaaatctctgac
  | || |||||||||||||||||||| || ||||| ||  | ||| | || || ||||| ||||||||||| || || || |||||||||||  | ||||| ||   | | |||  |    |     ||     ||||  || || |  |  |     ||||| | |  ||||                          
TGTAAATCCTGAGGATGAAGCTGAGGAAGACGGTGCCAATGTCGATCTCGATTCTCAAAGAAAAGGAAAATGCGTCGTGCTCAAGACCTCCACTCGCCAAgtaag---tttattcattcaggagtgaagtggaagcttt--cttttttcctgatgccactgttcttctcgtgtag-------------------------

upper sequence: GRMZM2G032505_T02 (Zea mays), 5'ss of exon 3
lower sequence: EFJ37626 (Selaginella moellendorffii), 5'ss of exon 3
AATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatctgttctctgctcatcagggtcatgtcttttgctgttctttttttttgtgtgttcatatactgtatgcattccactttctaaatctctgac
  | || |||||||||||||||||||| || ||||| ||  | ||| | || || ||||| ||||||||||| || || || |||||||||||  | ||||| ||   | | |||  |      ||||            ||| |  |||||  |  ||      |   |    || |                      
TGTAAATCCTGAGGATGAAGCTGAGGAAGACGGTGCCAATGTCGATCTCGATTCTCAAAGAAAAGGAAAATGCGTCGTGCTCAAGACCTCCACTCGCCAAgtaag---tttattcatt------caggagtgaagtggaagctctcttttttcctgatgccactgttcgcctcgtgtag---------------------

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|149101527|gb|EE187650.2|EE187650
EST:     ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAA                         ACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
genomic: ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatc ... atgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
EST: gi|148951330|gb|EC897040.2|EC897040
EST:     ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAA                         ACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
genomic: ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatc ... atgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
EST: gi|22473221|gb|BU037701.1|BU037701
EST:     ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAA                         ACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
genomic: ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatc ... atgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
EST: gi|22715443|gb|BU197766.1|BU197766
EST:     ACTCACAAAGGAAAGGAAAATGTGTTGGTCTGAAGACCTCCACAAGACAA                         ACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAA
genomic: ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatc ... atgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAA
EST: gi|149109720|gb|EE293507.2|EE293507
EST:     ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAA                         ACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
genomic: ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatc ... atgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
EST: gi|149085416|gb|EE174922.2|EE174922
EST:     ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAA                         ACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
genomic: ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatc ... atgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
EST: gi|22473395|gb|BU037875.1|BU037875
EST:     ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAA                         ACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
genomic: ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatc ... atgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
EST: gi|211077789|gb|FL088742.1|FL088742
EST:     ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAA                         ACTATATTCCTTCCTGTTGTTGGGCTAGT
genomic: ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatc ... atgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGT
EST: gi|148979721|gb|EE026794.2|EE026794
EST:     ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAA                         ACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
genomic: ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatc ... atgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
EST: gi|32823651|gb|CD963373.1|CD963373
EST:     ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAA                         ACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
genomic: ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatc ... atgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
EST: gi|149096589|gb|EE182348.2|EE182348
EST:     ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAA                         ACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
genomic: ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatc ... atgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
EST: gi|74241694|gb|DT649608.1|DT649608
EST:     ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAA                         ACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
genomic: ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatc ... atgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
EST: gi|116820064|gb|EC863249.1|EC863249
EST:     ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAA                         ACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
genomic: ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatc ... atgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
EST: gi|60346168|gb|DN213141.1|DN213141
EST:     ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAA                         ACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
genomic: ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatc ... atgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
EST: gi|149062853|gb|EE157572.2|EE157572
EST:     ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAA                         ACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
genomic: ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatc ... atgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
EST: gi|149077127|gb|EE165787.2|EE165787
EST:     ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAA                         ACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
genomic: ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatc ... atgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
EST: gi|78179300|gb|DV549673.1|DV549673
EST:     ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAA                         ACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
genomic: ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatc ... atgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
EST: gi|211077790|gb|FL088743.1|FL088743
EST:     ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAA                         ACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAA
genomic: ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatc ... atgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAA
EST: gi|149100563|gb|EE186648.2|EE186648
EST:     ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAA                         ACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT
genomic: ACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatc ... atgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCT

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: 209

AATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatc ... atgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCTGGTGATCTGGTTGGAGTCAATAAAGATAGCTACCTTATACTAGATACAT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 242

AATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatc ... atgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCTGGTGATCTGGTTGGAGTCAATAAAGATAGCTACCTTATACTAGATACAT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 200

AATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatc ... atgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCTGGTGATCTGGTTGGAGTCAATAAAGATAGCTACCTTATACTAGATACAT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 273

AATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatc ... atgattgcagACTATATTCCTTCCTGTTGTTGGGCTAGTGGACCCTGACAAGCTAAAGCCTGGTGATCTGGTTGGAGTCAATAAAGATAGCTACCTTATACTAGATACAT


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATGAACCCTGAGGATGAAGCTGAGGAGGATGGTGCTAACATTGATTTAGACTCACAAAGGAAAGGAAAATGTGTTGTTCTGAAGACCTCCACAAGACAAgtgagcaatctgttctctgctcatcagggtcatgtcttttgctgttctttttttttgtgtgttcatatactgtatgcattccactttctaaatctctgac

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA