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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAAATTGCCCTTATGGGGAACTATTGGATGTTTCTCAACGTTTGAAGACTGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaacatctactgtttagttcacgatttaatttagcagatttacatcaaatcctttcatctgtaaatgtctattcattaagggcctgtttggatca...

Basic information

species Zea mays
transcript GRMZM2G098797_T02
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G098797_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os03g13220.1 (Oryza sativa), 5'ss of exon 4
AAAAATTGCCCTTATGGGGAACTATTGGATGTTTCTCAACGTTTGAAGACTGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaacatctactgtttagttcacgatttaatttagcagatttacatcaaatcctttcatctgtaaatgtctattcattaagggcctgtttggatca----
|| || || || ||||||||||||||||||||||| ||||| |||||||| |||||||||||||||||||| ||||||||||||||||| ||||||||||||||| | ||| | ||  ||  |  |  ||| |  ||   |   | | ||||  |  ||   |    |  | ||||      ||   |   ||||   |     
AAGAACTGTCCATATGGGGAACTATTGGATGTTTCCCAACGATTGAAGACCGCAAGTGAAGTTAATGCTGCCATTCTTACAAGCCAAAGTCATGAGAAAGgttagca-catgtgct--ttgatatagtattcatattgagac-ctaatatcacttggttatgttatcatgtatctacattgcaataccagttttgtgcctataa

upper sequence: GRMZM2G098797_T02 (Zea mays), 5'ss of exon 3
lower sequence: AT1G61150.3 (Arabidopsis thaliana), 5'ss of exon 5
AAAAATTGCCCTTATGGGGAACTATTGGATGTTTCTCAACGTTTGAAGACTGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgt---tagtaacatctactgtttagttcacgatttaatttagcagatttacatcaaatcctttcatctgtaaatgtctattcattaagggcctgtttggatca---
   |  |||||   |   || ||  | ||| |||| || ||| | ||||| ||||||||||| ||||| || |||||||||||||| ||||| || ||||||   |  | |  | |  ||||    |     | |  ||||| ||    |||  | | | ||  |      |   || ||||||||     || |  |  |||   
TCTACCTGCCCGGTTAAAGAGCTTCTTGATCTTTCCCACCGTCTTAAGACAGCAAGTGAAGTAAATGCAGCGATTCTTACAAGCCAGAGCCACGAAAAAGgtagcttttgaattttgatgttatactggttgtct--tttagtag--ccacaaaataccattataatctcgagcatc-attcattatcaatct-taagattcaaag

upper sequence: GRMZM2G098797_T02 (Zea mays), 5'ss of exon 3
lower sequence: PP1S379_20V6.1 (Physcomitrella patens), 5'ss of exon 5
AAAAATTGCCCTTATGGG-GAACTATTGGATGTTTCTCAACGTTTGAAGACTGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaacatctactgtttagttcacgatttaatt-tagcagatttacatcaaatcctttcatctgtaaatgtctattcattaagggcctgtttggatca-----
   | ||       ||   || ||  | ||     | || |||   || || || |||||| | || ||||||||||| || ||||||||||||||||||||| ||  |    | | || ||      | | | ||  || | | || || ||||   || | |   |||| |   | |||| ||   | ||  ||   | |     
-CCAGTTAAGGAGGTGAAAGAGCTTCTTGACAACGCACAGCGTCAAAAAACAGCCAGTGAATTGAACGCTGCTATTCTCACTAGCCAAAGCCATGAGAAAGgtaagagat---tgcagtatatcgactgttgtgatggtaactgtttcacctcaagagctgtaa---gtaacttattgttcagtacatgactcatttccttactaca

upper sequence: GRMZM2G098797_T02 (Zea mays), 5'ss of exon 3
lower sequence: PP1S268_9V6.1 (Physcomitrella patens), 5'ss of exon 6
--AAAAATTGCCCTTATGGGGAACTATTGGATGTTTCTCAACGTTTGAAGACTGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaacatctactgtttagttcacgatttaat--ttagcagatttacatcaaatcctttcatctgtaaatgtctattcattaagggcctgtttgg-atca
      |  |   | |    |||||  | ||   | | || |||   || || || |||||| | ||||||||||| || ||||||||||||||||| ||||||   |    | |   | |       || | ||||  |  |    ||  |   | |||  ||  |  || |  || ||    || |     |||   |  | |
CCGGTGAAGGAGGTGA--AAGAACTCCTCGACAATGCACAGCGTCAAAAAACAGCCAGTGAATTAAATGCTGCTATCCTCACAAGCCAAAGCCATGAAAAAGgtattttttctttgacgatcga---gcgttgtaatggtacgtgtgttggctcgagatctattatttagtgatcgtataccactttattcaatgtccagtgtta

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|28985553|gb|CB350698.1|CB350698
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|91053752|gb|EB164170.1|EB164170
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|76909336|gb|DV163332.1|DV163332
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|18383673|gb|BM416873.1|BM416873
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|148965153|gb|EE015967.2|EE015967
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|32856858|gb|CD996539.1|CD996539
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGTCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|31405521|gb|CD484253.1|CD484253
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|7162504|gb|AW520126.1|AW520126
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|9953628|gb|BE640211.1|BE640211
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|113801746|gb|DW924537.1|DW924537
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCC
EST: gi|37400136|gb|CF637415.1|CF637415
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|60348954|gb|DN215927.1|DN215927
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|50334639|gb|CO529765.1|CO529765
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|37387379|gb|CF630882.1|CF630882
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|16927031|gb|BM080100.1|BM080100
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|166515155|gb|EG113311.1|EG113311
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAA
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAA
EST: gi|40334509|gb|CK368579.1|CK368579
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|71431333|gb|DR812383.1|DR812383
EST:     TGCAAGTGAAGTTAATGCTGCTATTTTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|32833634|gb|CD973312.1|CD973312
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGTCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|60347077|gb|DN214050.1|DN214050
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|13389224|gb|BG462615.1|BG462615
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGATATTT                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|42491962|gb|CK701008.1|CK701008
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGTCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|16916319|gb|BM072792.1|BM072792
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|71422205|gb|DR805647.1|DR805647
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|45568467|gb|CK986077.1|CK986077
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|60348490|gb|DN215463.1|DN215463
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|32932951|gb|CF037763.1|CF037763
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGTCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|71442337|gb|DR823387.1|DR823387
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|16920349|gb|BM074617.1|BM074617
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|37376187|gb|CF624598.1|CF624598
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|31998056|gb|CD661898.1|CD661898
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|71760693|gb|DR958630.1|DR958630
EST:     TGCAAGTGAAGTTAATGCTGCTATTTTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|78026657|gb|DV495044.1|DV495044
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|38229758|gb|CF920071.1|CF920071
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGTCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|76019077|gb|DT946247.1|DT946247
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|113849467|gb|DW965808.1|DW965808
EST:     GCAAGTGAAGTTAATGCTAGCTATTCTTACAAGCCAAAGCCATGNGAAAG                         ATCCGAAGCTTCC
genomic: GCAAGTGAAGTTAATGCT-GCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCC
EST: gi|6403367|gb|AW171842.1|AW171842
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGGCCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|18176774|gb|BM351707.1|BM351707
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|37401018|gb|CF637871.1|CF637871
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|32834615|gb|CD974293.1|CD974293
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGTCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|78024031|gb|DV492418.1|DV492418
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|13389222|gb|BG462614.1|BG462614
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|71762252|gb|DR960189.1|DR960189
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|211356568|gb|FL434514.1|FL434514
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|14245074|gb|BG873656.1|BG873656
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|71445165|gb|DR826215.1|DR826215
EST:     TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: TGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
EST: gi|166438571|gb|EG077671.1|EG077671
EST:     CCAAAGCCATGAGAAAG                         ATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC
genomic: CCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAAC

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: 48 (upstream exon), 49 (downstream exon)
Score: 170

AAAAATTGCCCTTATGGGGAACTATTGGATGTTTCTCAACGTTTGAAGACTGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAACTGGACGAAAAGGCGGCTTATCCTCGAATCAACGATTTCACCACTGCCGC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 167

AAAAATTGCCCTTATGGGGAACTATTGGATGTTTCTCAACGTTTGAAGACTGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAACTGGACGAAAAGGCGGCTTATCCTCGAATCAACGATTTCACCACTGCCGC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 148

AAAAATTGCCCTTATGGGGAACTATTGGATGTTTCTCAACGTTTGAAGACTGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAACTGGACGAAAAGGCGGCTTATCCTCGAATCAACGATTTCACCACTGCCGC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 229

AAAAATTGCCCTTATGGGGAACTATTGGATGTTTCTCAACGTTTGAAGACTGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaaca ... acatcggcagATCCGAAGCTTCCAAGCTTGTTAAAGATGTTGAAATGGACCCAAAATCAACTGGACGAAAAGGCGGCTTATCCTCGAATCAACGATTTCACCACTGCCGC


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAAAATTGCCCTTATGGGGAACTATTGGATGTTTCTCAACGTTTGAAGACTGCAAGTGAAGTTAATGCTGCTATTCTTACAAGCCAAAGCCATGAGAAAGgttagtaacatctactgtttagttcacgatttaatttagcagatttacatcaaatcctttcatctgtaaatgtctattcattaagggcctgtttggatca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT