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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagaaatcgtagcgatcgtgcaaaggggctcatttctgtgtagaacacagaattgctgatttctggatcctaacccaaagcaattgcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGCACATCATTCTCCTTGACGAGCCTTCTAACCATCTT

Basic information

species Zea mays
transcript GRMZM2G013890_T01
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G013890_T01 (Zea mays), 3'ss of exon 15
lower sequence: LOC_Os02g58020.2 (Oryza sativa), 3'ss of exon 15
-------------------------------------------------------------------gtagaaatcgt-agcgatcgtgcaaaggggctcatttctgtgtagaacacagaattgctgatttctggatcctaacccaaagcaattgcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGCACATCATTCTCCTTGACGAGCCTTCTAACCATCTT
                                                                     |||||| |  | | ||| |          | |||  | ||     |  |||||     |||| |   |||| |   | |||  || | || |||||||||||||| ||||||||||| || || || || |||||||||||||| ||||| ||||| || || ||||||||||||||||||
gtaatgagagcgttttgatagatgtcttaagcatattaaaggctgcatatggcctttcccagtttcatgagaaattgagaactatcctcttgcccaa-tgattcatctgct---cgtagaatcttaaatttgtcagtcctgatt-agagcctttccaatcccagGTGGTCAGAAAAGTAGGGTTGCCTTTGCAAAGATCACCTTCAAGAAGCCACACATTATTCTTCTCGATGAGCCTTCTAACCATCTT

upper sequence: GRMZM2G013890_T01 (Zea mays), 3'ss of exon 15
lower sequence: GLYMA20G16170.1 (Glycine max), 3'ss of exon 14
----------------------------------------------------------gtagaaatcgtagcgatcgtgcaaaggggctcatttctgtgtagaacacagaattgct--gatttctggatcctaacccaaagcaattgcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGCACATCATTCTCCTTGACGAGCCTTCTAACCATCTT
                                                          |    |||  | | ||   |     || | | | ||         | | |    || |  || || |   |  | ||       |||| |  | | |||||||||||| || |||||||| || || || ||||| ||||||||||| ||||| ||  | ||||| || || || || ||||| 
gtattgtcttcaaagtcaccataattcataaacaattcgttaatgatttttaagaacagcgataataattgggacactcggtgggtgttgagttgcaatggatatatatttctgttatgaattatatttttttacttctctaaatt-ctttactagGTGGTCAGAAAAGCAGGGTTGCCTTTGCAAAGATAACTTTCAAGAAGCCACACATAATATTGCTTGATGAACCATCCAATCATCTG

upper sequence: GRMZM2G013890_T01 (Zea mays), 3'ss of exon 15
lower sequence: Vv02s0025g02160.t01 (Vitis vinifera), 3'ss of exon 15
gtagaaatcgtagcgatcgtgcaaaggggctc---atttctgtgtagaacacagaattgctgatttctggatcctaacccaaagcaat---tgcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGCACATCATTCTCCTTGACGAGCCTTCTAACCATCTT
 |  |  | | ||   | ||   |     |||   |||    ||| |  || | |||   |   |   |  |  | |   |  |   |   ||   |  ||||||||||||| || || |||||||| || |||||||| ||||| || || |||||||| || ||||| || || || || ||||||
-ttaagcttgaaggctttgtcacatcaatctctatattaacctgttgg-cataaaatcattttctcaggtgtatttatgaattgttctatatgatgtatcagGTGGTCAGAAAAGCAGAGTTGCATTTGCAAAAATAACTTTCAAAAAACCTCACATCATACTTCTTGATGAACCATCAAATCATCTT

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|211429010|gb|FL174619.1|FL174619
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATMCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|24769470|gb|CA404599.1|CA404599
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|211429009|gb|FL174618.1|FL174618
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|166484877|gb|EG315827.1|EG315827
EST:     CTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: CTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|92088048|gb|EB484279.1|EB484279
EST:     GGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGCTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|71307301|gb|DR789831.1|DR789831
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|45567942|gb|CK985824.1|CK985824
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|32836532|gb|CD976210.1|CD976210
EST:     ACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: ACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|7216688|gb|AW562810.1|AW562810
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|60341793|gb|DN208766.1|DN208766
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|211142472|gb|FL453924.1|FL453924
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|12970170|gb|BG266849.1|BG266849
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|161587734|gb|EY961121.1|EY961121
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCA
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCA
EST: gi|7227521|gb|AW566162.1|AW566162
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|22552549|gb|BU102388.1|BU102388
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|60352803|gb|DN219776.1|DN219776
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|5069942|gb|AI737907.1|AI737907
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|76914779|gb|DV165687.1|DV165687
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|211429008|gb|FL174617.1|FL174617
EST:     GTTTGGTGTTTCGGGGAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAAATA-CCTTTCA-GAAGCC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAA-TAACCTT-CAAGAAGCC
EST: gi|67015572|gb|CO444321.1|CO444321
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|78544243|gb|DV621741.1|DV621741
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|84980921|gb|DW531270.1|DW531270
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|5108202|gb|AI739915.1|AI739915
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|7162610|gb|AW520232.1|AW520232
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|40336236|gb|CK370306.1|CK370306
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|211429006|gb|FL174615.1|FL174615
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|93011869|gb|EB637389.1|EB637389
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|6859953|gb|AW355947.1|AW355947
EST:     GTTTGGTGTTTCGGAAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|211429007|gb|FL174616.1|FL174616
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|86472924|gb|DY239294.1|DY239294
EST:     GTTTGGTGTTTCGGGAAACCCTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAACCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|37390519|gb|CF632491.1|CF632491
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|32943068|gb|CF047887.1|CF047887
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|211429005|gb|FL174614.1|FL174614
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCCTTCAAGAAGCCG
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACC-TTCAAGAAGCCG
EST: gi|20802514|gb|BQ293564.1|BQ293564
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|213187661|gb|FM193141.1|FM193141
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|37377213|gb|CF625190.1|CF625190
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|5706230|gb|AI942006.1|AI942006
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACNCTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
EST: gi|7304451|gb|AW600390.1|AW600390
EST:     GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAG                         GTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC
genomic: GTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGC

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), 48 (downstream exon)
Score: 421

GGTGTGCCGGAGCAGAAGTTGAGGGCACATCTGGGTTCGTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGCACATCATTCTCCTTGACGAGCCTTCTAACCATCTT


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 514

GGTGTGCCGGAGCAGAAGTTGAGGGCACATCTGGGTTCGTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGCACATCATTCTCCTTGACGAGCCTTCTAACCATCTT


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 421

GGTGTGCCGGAGCAGAAGTTGAGGGCACATCTGGGTTCGTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGCACATCATTCTCCTTGACGAGCCTTCTAACCATCTT


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 345

GGTGTGCCGGAGCAGAAGTTGAGGGCACATCTGGGTTCGTTTGGTGTTTCGGGAAGCCTTGCCCTCCAATCTATGTACACTTTATCAGgtagaaatcg ... gcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGCACATCATTCTCCTTGACGAGCCTTCTAACCATCTT




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagaacacagaattgctgatttctggatcctaacccaaagcaattgcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGCACATCATTCTCCTTGACGAGCCTTCTAACCATCTT
                           tcctaac  putative branch site (score: 345)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagaaatcgtagcgatcgtgcaaaggggctcatttctgtgtagaacacagaattgctgatttctggatcctaacccaaagcaattgcgattccagGTGGTCAGAAGAGTAGGGTTGCATTCGCGAAAATAACCTTCAAGAAGCCGCACATCATTCTCCTTGACGAGCCTTCTAACCATCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC