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'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTGAAAAATCCAAAACTCCTTCCTGGAGGTGGCGCTACAGAGCTGACTGTATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgttttttactgttgattacctgtattggatattaacagtcgattaagctatatttatgtggttgcttagtgcaacagtgcttgattctgtaatct...

Basic information

species Zea mays
transcript GRMZM2G069765_T01
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G069765_T01 (Zea mays), 5'ss of exon 11
lower sequence: LOC_Os06g34690.1 (Oryza sativa), 5'ss of exon 11
TTTGAAAAATCCAAAACTCCTTCCTGGAGGTGGCGCTACAGAGCTGACTGTATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgttt---tttactgttg-attacctgtattggatattaacag------tcgattaagc--------tatatttatgtggttgcttag----tgcaacagtgcttgattctgtaatct-------------------------------------------------------------------
||||||||| ||||||||  | ||||||||||| ||||| |||||||||||||||||| |||||||||||||||||||||||||||||||||| ||||||||| | |||     || | ||   |||    | |   |  ||| ||          || |||           ||||| | || |||  ||     | || || |||   ||||  || | |                                                                   
TTTGAAAAACCCAAAACTTTTACCTGGAGGTGGTGCTACCGAGCTGACTGTATCAGCAGCACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTAGAAAAGgtactttttcagcatatttttatgttagtgatttaaaaggttagcaaagtgttctcataaagaggtgcttgcctatttgtatgtttgtctaagtcattcatcaatgcagcattcattagtttttttaatggctactttctgttttgtgactatgttatatcttatttatattttgtttgtttggatcag

upper sequence: GRMZM2G069765_T01 (Zea mays), 5'ss of exon 11
lower sequence: GLYMA20G35760.1 (Glycine max), 5'ss of exon 8
TTTGAAAAATCCAAAACTCCTTCCTGGAGGTGGCGCTACAGAGCTGACTGTATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgt-attgt--tttttactgttgattacctgtattggatattaacagtcgattaa--gctata-tttatgtggttgcttagtgcaacagtgcttgattctgtaatct-----
  | |||||| |||||||  |||||||||| || ||||| ||| ||||| ||||||||||||||||||| |||||||| || ||| ||||| |  | ||||| | |||  |  | | |||   |    ||  |   |  |  |   | |  | |  ||  ||  |||  | | | || | |   |  || | || |  |||          
AATAAAAAATTCAAAACTTGTTCCTGGAGGAGGTGCTACTGAGTTGACTATATCAGCAACACTGAAGCAGAAGAGTTCATCTGTTCAAGGTATACAGAAGgtgagtgtaatactcattgtctgtactttgcctactagttctattattgtctcatggcagtagcttacattgattctcattttcat-gttcatgttcttgttgatgaacag

upper sequence: GRMZM2G069765_T01 (Zea mays), 5'ss of exon 11
lower sequence: GLYMA16G33380.1 (Glycine max), 5'ss of exon 11
TTTGAAAAATCCAAAACTCCTTCCTGGAGGTGGCGCTACAGAGCTGACTGTATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtat---tgttttttactgttgattacctgtattggatattaac-agtcgattaagctatatttatgtggttgcttagtgcaacagtgcttgattctgtaatct------------------------
| | ||||||||||||||  ||||||||||||| ||||||||| |||| || |||||  |  |||| || |||||||| ||  |||| ||  | || |||||     |  ||| ||      | || | ||| |   | |||    || | || |   ||  |  |    |  |||     |  ||   || |  ||| | |||                        
TATAAAAAATCCAAAACTTGTTCCTGGAGGTGGTGCTACAGAGTTGACAGTGTCAGCTGCCTTGAAACAGAAGAGTTCATCTATTGAGGGCATAGAGAAGgtgagcgtagtttctatgaaccagtagcagtactactttttatttggtggtttgatggattctagttctatctcttgtccgagtagcagtttacactg-attctcacttaagtgttgttgactgacag

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|32932271|gb|CF037083.1|CF037083
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|32910520|gb|CF015332.1|CF015332
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|33101243|gb|CF061203.1|CF061203
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|19822657|gb|BQ048681.1|BQ048681
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|213187664|gb|FM193192.1|FM193192
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|211513336|gb|FL030352.1|FL030352
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|18450589|gb|BM428867.1|BM428867
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|87153294|gb|DY398083.1|DY398083
EST:     AGTTCTTCAGTTGAA-GTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: AGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|18648823|gb|BM497642.1|BM497642
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|32932914|gb|CF037726.1|CF037726
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCAAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|20301660|gb|BQ164603.1|BQ164603
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|13149865|gb|BG320187.1|BG320187
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|33093954|gb|CF053948.1|CF053948
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|18649404|gb|BM498223.1|BM498223
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAG-TGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|110951685|gb|EE171737.1|EE171737
EST:     AAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: AAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|149105497|gb|EE291022.2|EE291022
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|148949760|gb|EC895243.2|EC895243
EST:     TGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|67015054|gb|CO443803.1|CO443803
EST:     GTTGAA-GTGTGGAAAA-                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: GTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|33093243|gb|CF053237.1|CF053237
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|22545904|gb|BU098263.1|BU098263
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|32931972|gb|CF036784.1|CF036784
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|67040881|gb|CO467136.1|CO467136
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCTTTTGAGGCAATTCCNAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|78083039|gb|DV511432.1|DV511432
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|22819616|gb|BU499706.1|BU499706
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|211183836|gb|FL001293.1|FL001293
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTC------A-GT-T-G--AAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|32937379|gb|CF042198.1|CF042198
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|32934062|gb|CF038874.1|CF038874
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|211513337|gb|FL030353.1|FL030353
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|33093289|gb|CF053283.1|CF053283
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|32933723|gb|CF038535.1|CF038535
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|67013378|gb|CO442127.1|CO442127
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|32942856|gb|CF047675.1|CF047675
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|87153540|gb|DY398329.1|DY398329
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|32944113|gb|CF048932.1|CF048932
EST:     TATCAGCAACACTGAAGCAAAGGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|32945086|gb|CF049905.1|CF049905
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAGGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|32934718|gb|CF039530.1|CF039530
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
EST: gi|18450491|gb|BM428769.1|BM428769
EST:     TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAG                         TGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG
genomic: TATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTG

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), 47 (downstream exon)
Score: 247

TTTGAAAAATCCAAAACTCCTTCCTGGAGGTGGCGCTACAGAGCTGACTGTATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTGGCCCAAAATTGCGGTTTGAATGTTATTAGGATAATGACACAACTTCAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 192

TTTGAAAAATCCAAAACTCCTTCCTGGAGGTGGCGCTACAGAGCTGACTGTATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTGGCCCAAAATTGCGGTTTGAATGTTATTAGGATAATGACACAACTTCAAG


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 112

TTTGAAAAATCCAAAACTCCTTCCTGGAGGTGGCGCTACAGAGCTGACTGTATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTGGCCCAAAATTGCGGTTTGAATGTTATTAGGATAATGACACAACTTCAAG


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 129

TTTGAAAAATCCAAAACTCCTTCCTGGAGGTGGCGCTACAGAGCTGACTGTATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgtttt ... tttatgtcagTGGCCCTATGAAGCTGCTGCTCTAGCATTTGAGGCAATTCCAAGGACTTTGGCCCAAAATTGCGGTTTGAATGTTATTAGGATAATGACACAACTTCAAG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTGAAAAATCCAAAACTCCTTCCTGGAGGTGGCGCTACAGAGCTGACTGTATCAGCAACACTGAAGCAAAAGAGTTCTTCAGTTGAAGGTGTGGAAAAGgtattgttttttactgttgattacctgtattggatattaacagtcgattaagctatatttatgtggttgcttagtgcaacagtgcttgattctgtaatct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG