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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attgcaggagttgctgatgtttaatggctgtgttattttccattgaaatttatcctgctgcgtcctggtatctgattcctattgtttggtgctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGGAAGCAGCTGGCCAAGCTGCGCCTAAAGGCTGAGGCTACAGCCGAGGAGA

Basic information

species Zea mays
transcript GRMZM2G072315_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G072315_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g54890.3 (Oryza sativa), 3'ss of exon 2
attgcaggagttgctgatgtttaatggctgtgttattttccattgaaatttatcctgctgcgtcctggtatctgattcctattg--tttggtgctcta---tcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGGAAGCAGCTGGCCAAGCTGCGCCTAAAGGCTGAGGCTACAGCCGAGGAGA
  ||   |   |     |||    |||||  ||||| |   |||     |   |||| ||  |  || |      |||  | ||  ||   || || |   ||||||||||||||||||||||||||||||||||||||| |||||||| ||||||||||| ||||| ||||||||  | |||||||||    ||||||||||||
-atgttagttctaactttgtcatctggctaagttatcta--atttgtgctatgcctgttgatt--tgatggtcatttctcactgatttcattgttcaattttcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTTGCCTATGACAGGAGGAAGCAACTGGCGAAGCTGCGTGTCAAGGCTGAGAAGGCAGCCGAGGAGA

upper sequence: GRMZM2G072315_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g54890.2 (Oryza sativa), 3'ss of exon 3
attgcaggagttgctgatgtttaatggctgtgttattttccattgaaatttatcctgctgcgtcctggtatctgattcctattg--tttggtgctc---tatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGGAAGCAGCTGGCCAAGCTGCGCCTAAAGGCTGAGGCTACAGCCGAGGAGA
  ||   |   |     |||    |||||  ||||| |   |||     |   |||| ||  |  || |      |||  | ||  ||   || ||   | |||||||||||||||||||||||||||||||                                                                         
-atgttagttctaactttgtcatctggctaagttatcta--atttgtgctatgcctgttgatt--tgatggtcatttctcactgatttcattgttcaattttcagGAGCTTGAGGAGAAGAGGAAGGAGAAG-------------------------------------------------------------------------

upper sequence: GRMZM2G072315_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g54890.2 (Oryza sativa), 3'ss of exon 4
attgcaggagttgctgatgtttaatgg-------ctgtgttattttccattgaaatttatcctgctgcgtcctggtatctgattcctattgtttggtgctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGGAAGCAGCTGGCCAAGCTGCGCCTAAAGGCTGAGGCTACAGCCGAGGAGA
   ||    |||||  |||      ||         | |    |     |  |   | |    || ||      | | |||  ||||   | | |    |||  |        ||  | |    ||        ||    |||    || ||    |  |       |||    |   ||||                         
---gccaaggttgcctatgacaggaggaagcaactggcgaagctgcgtgtcaaggctgagaaggcagccgaggagaagCTGGGTCCT-CAGCTGGAGATTCTTGC-----TCCGATCAAATACTGAGAAGCTTTGCTTTCGTGCATCATCAGTTTTGTGAAACATGTGCCCCCTTATTCCTAGT-----------------------

upper sequence: GRMZM2G072315_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv05s0029g00020.t01 (Vitis vinifera), 3'ss of exon 3
---attgcaggagttgctgatgtttaatggctgtgttattttccattgaaatttatcctgctgcgtcctggtatctgattcctattgtttggtgctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGGAAGCAGCTGGCCAAGCTGCGCCTAAAGGCTGAGGCTACAGCCGAGGAGA
   | ||||     |  | ||  |||||     || ||       |     ||||   ||     | |||   |    |  || |   ||| |  | |  |||||||||||| ||||||| ||||| | |||  || ||||||||||||||| ||||||| ||  ||| ||  |  | || ||||||    | || | ||| |
cacaatgcaatctcta-taattcttaatactactgataagcaaactgtgggtttaa--tgacattttctgtggttgtctcactgtctcttgctattgttgcagGAGCTTGAGAAGAAGAGAAAGGAAAGGGCTGAGTTGGCCTATGAGAGGAAGAAGCAGTTGAACAAACTAAGAGTCAAAGCTGAGAAGGCTGCAGTGGATA

upper sequence: GRMZM2G072315_T01 (Zea mays), 3'ss of exon 3
lower sequence: PP1S63_162V6.1 (Physcomitrella patens), 3'ss of exon 4
--------------------------------------------------------attgcaggagttgctgatgtttaatggctgtgttattttccattgaaatttatcctgctgcgtcctggtatctg---attcctattgtttggtgctctat------------cagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGGAAGCAGCTGGCCAAGCTGCGCCTAAAGGCTGAGGCTACAGCCGAGGAGA
                                                         |   |  |||     |   || |||  ||        |   | ||  ||| ||  |   |    | ||| ||    ||   | |  ||   | |||| |            |||||||||||||||||||||||||  ||| ||||||||  ||||||  | | |||||||||   | || |||| || |||||||     |  |  |||||| 
gtgggtgcagttgttgaagcttcctcccttaagcattttactcatttaacttatctttcataccagtattcaaaactttatgaatgaccaccactttgtggagctttttcgagaatcaatttagtagctagtaatagttttccttgaatcctctgtaataacgatgtgcagGAGCTTGAGGAGAAGAGGAAGGCCAAGTCCAAGGTGTTCTATGAACGCAAGAAGCAGCTTATCCAGTTGCGTCTTAAGGCTGCCAAGAGTGTTGAGGAGC

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|33103477|gb|CF063437.1|CF063437
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|37387327|gb|CF630856.1|CF630856
EST:     TTGGGGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCTAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|20336963|gb|BQ172593.1|BQ172593
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|7162350|gb|AW519972.1|AW519972
EST:     TTGGGGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCTAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|15427295|gb|BI543117.1|BI543117
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|7162634|gb|AW520256.1|AW520256
EST:     TTGGGGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCTAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|211071555|gb|FK951876.1|FK951876
EST:     TTGGGGAACTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAAGGCCA-GGTGGCCTATGAGAGGAG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAA-GGCCAAGGTGGCCTATGAGAGGAG
EST: gi|18180385|gb|BM381595.1|BM381595
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|24768412|gb|CA403541.1|CA403541
EST:     TTGGGGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCTAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|19770488|gb|BQ035209.1|BQ035209
EST:     TTGGGGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|74246018|gb|DT653932.1|DT653932
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|89252055|gb|DY623841.1|DY623841
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|120480268|gb|EH210788.1|EH210788
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|89761984|gb|DY689785.1|DY689785
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|60351123|gb|DN218096.1|DN218096
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|148931533|gb|EC874588.2|EC874588
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|28983628|gb|BQ538749.2|BQ538749
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|91049188|gb|EB159606.1|EB159606
EST:     TTGGTGAGCTTTTTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|76014492|gb|DT941662.1|DT941662
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|18179456|gb|BM380666.1|BM380666
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|5018390|gb|AI714583.1|AI714583
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|60340934|gb|DN207907.1|DN207907
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|89249167|gb|DY620953.1|DY620953
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|22542946|gb|BU093384.1|BU093384
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|15082732|gb|BI389416.1|BI389416
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|89761874|gb|DY689713.1|DY689713
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|16925939|gb|BM079007.1|BM079007
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|71427272|gb|DR808322.1|DR808322
EST:     TTGGTGAGCTTTTTAAGGAGGTCGGATGGAACTACCATGACCCCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|213179419|gb|FM183147.1|FM183147
EST:     TTGGGGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCTAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|21390089|gb|BQ528138.1|BQ528138
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|74241755|gb|DT649669.1|DT649669
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|148943616|gb|EC888679.2|EC888679
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|22542431|gb|BU092869.1|BU092869
EST:     TTGGTGAGCTTTTTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|4835156|gb|AI670382.1|AI670382
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|18180509|gb|BM381719.1|BM381719
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|32868091|gb|CF007773.1|CF007773
EST:     TTGGGGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCTAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|14529422|gb|BI096555.1|BI096555
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCC
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCC
EST: gi|148943617|gb|EC888680.2|EC888680
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|9461296|gb|BE453662.1|BE453662
EST:     TTGGTGAGCTTTTTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|211313741|gb|FL422329.1|FL422329
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|14364820|gb|BG946631.1|BG946631
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGATGGCCTATGAGAGGAG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGG-TGGCCTATGAGAGGAG
EST: gi|78027277|gb|DV495664.1|DV495664
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|9731083|gb|BE509835.1|BE509835
EST:     CTGGTGAGCCTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCCTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATAAAAAGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|211074303|gb|FK951900.1|FK951900
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCTAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|31353275|gb|CD437632.1|CD437632
EST:     TTGGGGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCTAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|149020931|gb|EE045767.2|EE045767
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|18385232|gb|BM418431.1|BM418431
EST:     TTGGGGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAG
EST: gi|21391120|gb|BQ529169.1|BQ529169
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|5108459|gb|AI740172.1|AI740172
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|71443776|gb|DR824826.1|DR824826
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|22543243|gb|BU093681.1|BU093681
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|20802945|gb|BQ293995.1|BQ293995
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|211323996|gb|FL416228.1|FL416228
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|16918423|gb|BM073738.1|BM073738
EST:     TTGGTGAGCTTTTTAAGGAGGTCGGATGGAACTACCATGACCCCATCAGG                         GAGCTTGAGGAGAAAAGGAAGGAGAAGGCCAAGGTGGCCTATGAAAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|211074290|gb|FK951887.1|FK951887
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAANGCCAAGGTGGCCTATGAGAAGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|15427079|gb|BI542901.1|BI542901
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|91872964|gb|EB402921.1|EB402921
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|21331365|gb|BQ486746.1|BQ486746
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|22542317|gb|BU092755.1|BU092755
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAAGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|32868092|gb|CF007774.1|CF007774
EST:     TTGGGGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCTAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG
EST: gi|211075474|gb|FL339570.1|FL339570
EST:     TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGG                         GAGCTTGAGGAGAAGAGGAAGGAGAAGGCTAAGGTGGCCTATGAGAGGAGG
genomic: TTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGG

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: 872

GGTCCTGAGGCTGCAACCTGGACACAAGTACTGCCTCCTTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGGAAGCAGCTGGCCAAGCTGCGCCTAAAGGCTGAGGCTACAGCCGAGGAGA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 539

GGTCCTGAGGCTGCAACCTGGACACAAGTACTGCCTCCTTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGGAAGCAGCTGGCCAAGCTGCGCCTAAAGGCTGAGGCTACAGCCGAGGAGA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 526

GGTCCTGAGGCTGCAACCTGGACACAAGTACTGCCTCCTTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGGAAGCAGCTGGCCAAGCTGCGCCTAAAGGCTGAGGCTACAGCCGAGGAGA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 377

GGTCCTGAGGCTGCAACCTGGACACAAGTACTGCCTCCTTGGTGAGCTTTCTAAGGAGGTCGGATGGAACTACCATGACACCATCAGGgtgagtgttt ... gctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGGAAGCAGCTGGCCAAGCTGCGCCTAAAGGCTGAGGCTACAGCCGAGGAGA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatttatcctgctgcgtcctggtatctgattcctattgtttggtgctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGGAAGCAGCTGGCCAAGCTGCGCCTAAAGGCTGAGGCTACAGCCGAGGAGA
                        atctgat  putative branch site (score: 377)
                                              ctctatc  putative PPT
                                  tattgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attgcaggagttgctgatgtttaatggctgtgttattttccattgaaatttatcctgctgcgtcctggtatctgattcctattgtttggtgctctatcagGAGCTTGAGGAGAAGAGGAAGGAGAAGGCCAAGGTGGCCTATGAGAGGAGGAAGCAGCTGGCCAAGCTGCGCCTAAAGGCTGAGGCTACAGCCGAGGAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- tgcagga
- - - - -gttgctg
- - - - - - - - - - - - -ggctgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgcgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgattc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgtttg