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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgattggctggattcttcttttaactatttcttttgccataattaacctcctaaaacttcattctactattattttggcacaaaacacacatacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCGAAGGATGAGGATGACAGCGGAGGCGAGGAAGAGGAGGAAGAGGAAGATC

Basic information

species Zea mays
transcript GRMZM2G008259_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G008259_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os11g14010.1 (Oryza sativa), 3'ss of exon 4
gtatgattggctggattcttcttttaacta--tttcttttgccataattaacctcctaaaacttcattctactattattttggcacaaaacacacatacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCGAAGGATGAGGATGACAGCGGAGGCGAGGAAGAGGAGGAAGAGGAAGATC
   | || |  || || ||| |  | |||   || |||||| ||| |  |    |  | ||| | ||           |||||||| |||||  |       |||||  | |||||||| ||||||||||| |||||| | ||||||||||||||||||||||||||||| |||||||| ||||||||||||||||| |||||||
--gtaat-gaatgaatccttttaattactgtgttccttttggcatgaaaatgagctcataacatgatgtc-------ctttggcaccaaacattccc-----cagCCATCGCGCCAGCCGGAACCCAACTCTAGGGGTCCAAAGATGCCACCTCCGAAGGATGAGGATGATAGCGGAGGTGAGGAAGAGGAGGAAGAAGAAGATC
















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|60341456|gb|DN208429.1|DN208429
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         A
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacag-
EST: gi|60341456|gb|DN208429.1|DN208429
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         A
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacag-
EST: gi|78544063|gb|DV621561.1|DV621561
EST:     AGGAGAAAACTCCCAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|101398089|gb|EB820919.1|EB820919
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|149070148|gb|EE158549.2|EE158549
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|60394906|gb|DN227775.1|DN227775
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|5069903|gb|AI737868.1|AI737868
EST:     GCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: GCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|71766892|gb|DR964829.1|DR964829
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|76916780|gb|DV166549.1|DV166549
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|60350037|gb|DN217010.1|DN217010
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|76290977|gb|DV030545.1|DV030545
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|31664355|gb|CD573080.1|CD573080
EST:     GGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCNCCTCCG
genomic: GGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|76281879|gb|DV021447.1|DV021447
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGGCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGG
EST: gi|22819609|gb|BU499699.1|BU499699
EST:     AGGAGAAAACTCCCAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|28910319|gb|CB331379.1|CB331379
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGC
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGC
EST: gi|17932344|gb|BM269304.1|BM269304
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|148930178|gb|EC872565.2|EC872565
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|78544023|gb|DV621521.1|DV621521
EST:     AGGAGAAAACTCCCAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|22819406|gb|BU499496.1|BU499496
EST:     AGGAGAAAACTCCCAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|78114017|gb|DV532406.1|DV532406
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|149075823|gb|EE164362.2|EE164362
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|26455859|gb|CA827442.1|CA827442
EST:     AGGAGAAAACTCCCAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|60397347|gb|DN230163.1|DN230163
EST:     AAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|149070147|gb|EE158548.2|EE158548
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTGGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|19822278|gb|BQ048302.1|BQ048302
EST:     AGGAGAAAACTCCCAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|4804186|gb|AI666052.1|AI666052
EST:     AAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAN                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|60401383|gb|DN234190.1|DN234190
EST:     CGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: CGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|78118666|gb|DV537050.1|DV537050
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|50337531|gb|CO532657.1|CO532657
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|149106606|gb|EE188499.2|EE188499
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTGGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|149106607|gb|EE188500.2|EE188500
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|71775176|gb|DR973054.1|DR973054
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|149008353|gb|EE040506.2|EE040506
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|211244489|gb|FL128350.1|FL128350
EST:     AGGAGAAAACTCCCAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|166556874|gb|EG264754.1|EG264754
EST:     AGGAGAAAACTCCCAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGA
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGA
EST: gi|50338834|gb|CO533960.1|CO533960
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|149113200|gb|EE182185.2|EE182185
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTTGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|74236627|gb|DT644541.1|DT644541
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|74236626|gb|DT644540.1|DT644540
EST:     GCAAGAGCAATAAAGGTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCGG
genomic: GCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|71766893|gb|DR964830.1|DR964830
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|22546373|gb|BU098684.1|BU098684
EST:     AGGAGAAAACTCCCAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|78120146|gb|DV538530.1|DV538530
EST:     AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
genomic: AGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG
EST: gi|89247144|gb|DY618930.1|DY618930
EST:     CAAGAGCAATAAAGCTGGCCCAAAA                         CCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTGGAAGATGCCACCTCCG
genomic: CAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCG

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: 34 (upstream exon), 49 (downstream exon)
Score: 563

CCTCCCTACAATATATGAAGTTGTCACGGGAACTGCCAAGAAGCAAACCAAGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCGAAGGATGAGGATGACAGCGGAGGCGAGGAAGAGGAGGAAGAGGAAGATC


Block sizes: 33 (upstream exon), 49 (downstream exon)
Score: 122

CCTCCCTACAATATATGAAGTTGTCACGGGAACTGCCAAGAAGCAAACCAAGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCGAAGGATGAGGATGACAGCGGAGGCGAGGAAGAGGAGGAAGAGGAAGATC


Block sizes: 35 (upstream exon), 49 (downstream exon)
Score: 96

CCTCCCTACAATATATGAAGTTGTCACGGGAACTGCCAAGAAGCAAACCAAGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCGAAGGATGAGGATGACAGCGGAGGCGAGGAAGAGGAGGAAGAGGAAGATC


Block sizes: 40 (upstream exon), 48 (downstream exon)
Score: 92

CCTCCCTACAATATATGAAGTTGTCACGGGAACTGCCAAGAAGCAAACCAAGGAGAAAACTCCGAAAAGCAGCAGCAAGAGCAATAAAGCTGGCCCAAAAgtatgattgg ... atacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCGAAGGATGAGGATGACAGCGGAGGCGAGGAAGAGGAGGAAGAGGAAGATC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acctcctaaaacttcattctactattattttggcacaaaacacacatacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCGAAGGATGAGGATGACAGCGGAGGCGAGGAAGAGGAGGAAGAGGAAGATC
   tcctaaa  putative branch site (score: 92)
               attctactattatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgattggctggattcttcttttaactatttcttttgccataattaacctcctaaaacttcattctactattattttggcacaaaacacacatacatacagCCGCCACGCCAGCCAGAACCCAACTCAAGGGGTTCGAAGATGCCACCTCCGAAGGATGAGGATGACAGCGGAGGCGAGGAAGAGGAGGAAGAGGAAGATC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
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