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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TACCTGCATTATCACCTTGTGCAACAACTCTTCCAGTTTTTCTTGCTGTTGGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccctctttcactccactgtttttttattgtatttgttggtactaccaattcaaattgcattatcacgtcctttctgttattgggtttgttaac...

Basic information

species Zea mays
transcript GRMZM2G078895_T02
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G078895_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os01g17020.1 (Oryza sativa), 5'ss of exon 2
TACCTGCATTATCACCTTGTGCAACAACTCTTCCAGTTTTTCTTGCTGTTGGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccctctttcactccactgtttttttattgtatttgttggtactaccaattcaaattgcattatcacgtccttt--ctgttattgggtttgttaac-
|||||||||||||||| |||||||||||||||||||| ||||||||||||||||| || ||||| |||||||| ||||| ||||||||||||||||| ||||    ||||  || ||||    |    ||  ||||  | | ||    | | ||||  |||||||  ||     |  | |  | |  |     | ||  |   
TACCTGCATTATCACCCTGTGCAACAACTCTTCCAGTGTTTCTTGCTGTTGGCAATTCATCCTCCATGATGATCCTTGCGATCATTGTGCTCCTCTTTAGgtgggtacccctttccactgtttt-cagttgcattgcttgttttctaccgaacaat--aaattgctatacttttttttatagccgcaacacattatgaaagag

upper sequence: GRMZM2G078895_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA02G44180.1 (Glycine max), 5'ss of exon 2
TACCTGCATTATCACCTTGTGCAACAACTCTTCCAGTTTTTCTTGCTGTTGGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccctctttc----actccactgtttttttattgtatttgttggtactaccaattcaaat-tgcattatcacgtcctttctgttat--tgggtttgttaac
| |||||||| || |||||||| ||||| || ||||| |||||||||||||| || || || || |||||| | ||||| ||||| || || || ||||||| || | |   || |     |   |   ||||||  |  |  |  || || ||     ||||||  |||||    || |   ||||| |    || |  ||||   
TCCCTGCATTGTCTCCTTGTGCTACAACACTCCCAGTATTTCTTGCTGTTGGAAATTCCTCTTCCATGATGGTGCTTGCCATCATAGTACTACTATTCAGgtatttatcaatttccttaagcaatatgattttttcctcctgctattttgttcttt---ttcaaacgtgcat----acttttcttctgcttccatgtgcatgtttgg

upper sequence: GRMZM2G078895_T02 (Zea mays), 5'ss of exon 2
lower sequence: AT5G21070.1 (Arabidopsis thaliana), 5'ss of exon 2
TACCTGCATTATCACCTTGTGCAACAACTCTTCCAGTTTTTCTTGCTGTTGGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtc---ttcaccctctttcactccactgttttt-ttattgtatttgttggtactaccaattcaaattgcattat-cacgtcctttctgttattggg---tttgttaac-----------------------
| ||||||||||| ||||||||||||||||| || ||||| || |||||||| || ||    || |||||| |||| || ||||| || || ||||||||||     | |  || ||    |        ||| |||     | | ||| ||    ||||   |     ||||   | |   || |        |    | ||||                          
TTCCTGCATTATCTCCTTGTGCAACAACTCTCCCGGTTTTCCTCGCTGTTGGAAATTCCAAGTCCATGATGGTTCTCGCCATCATAGTTCTGCTCTTCAGgtgagactaagtctattgtttttggtcacatttgttacgccttctcttgatatcgtcaatcttatggcaattagatatgattttacaagggaaagaacatatgtttgaaatgattggtattctttgggcag

upper sequence: GRMZM2G078895_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv06s0009g01580.t01 (Vitis vinifera), 5'ss of exon 2
TACCTGCATTATCACCTTGTGCAACAACTCTTCCAGTTTTTCTTGCTGTTGGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc------tctttcactccactgtttttttattgtatttgttggtactaccaattcaaattgcattatcacgtcctttctgttattgggtttgttaac
| || || || || ||||||||||| || |||||||| |||||||| ||||| || |||||||| |||||| | ||||| || || ||||| || ||||||| |  |         | ||  | || |  |  ||||| ||   ||  ||     |     || | | | | || |  |   | |      |  |  | |||    
TTCCAGCCTTGTCCCCTTGTGCAACTACACTTCCAGTGTTTCTTGCAGTTGGGAATTCTTCCTCCATGATGGTGCTTGCTATTATAGTGCTGCTTTTCAGgtatcgatagcatgaatattggaatctaacgcatttttctttccttgattcac-ttgtttcttgacacttc-ttctagcaaacatagaac-agagcatctgtg---

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|91873275|gb|EB403232.1|EB403232
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|148945169|gb|EC890369.2|EC890369
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|211287595|gb|FL473296.1|FL473296
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|74244751|gb|DT652665.1|DT652665
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|32937990|gb|CF042809.1|CF042809
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|88750722|gb|DY534863.1|DY534863
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTTTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|78113499|gb|DV531890.1|DV531890
EST:     GGCCACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|71428239|gb|DR809289.1|DR809289
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|6031460|gb|AW076362.1|AW076362
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|89253097|gb|DY624883.1|DY624883
EST:     GATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|94474539|gb|EB703497.1|EB703497
EST:     GATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCCCAGTGATGACATCCTTGGTGGCCCTTTCATTTTACGGTGCTAG
genomic: GATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|5525674|gb|AI861567.1|AI861567
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|211434405|gb|FL298801.1|FL298801
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATC
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATC
EST: gi|88750356|gb|DY534497.1|DY534497
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|5325167|gb|AI783358.1|AI783358
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|71760419|gb|DR958356.1|DR958356
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|37395712|gb|CF635138.1|CF635138
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCGATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|32938015|gb|CF042834.1|CF042834
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|5108447|gb|AI740160.1|AI740160
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCGATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|6020737|gb|AW065545.1|AW065545
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGNGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|71428238|gb|DR809288.1|DR809288
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTTTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|32940907|gb|CF045726.1|CF045726
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATCGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|32936093|gb|CF040905.1|CF040905
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|18169825|gb|BM339665.1|BM339665
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|16925788|gb|BM078856.1|BM078856
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|32937688|gb|CF042507.1|CF042507
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|4885888|gb|AI677008.1|AI677008
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCGATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|5871707|gb|AW018178.1|AW018178
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTGTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|5871583|gb|AW018054.1|AW018054
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|60359586|gb|DN226559.1|DN226559
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|32937736|gb|CF042555.1|CF042555
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|148945170|gb|EC890370.2|EC890370
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|60350868|gb|DN217841.1|DN217841
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|78025927|gb|DV494314.1|DV494314
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCGATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|89251091|gb|DY622877.1|DY622877
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTTTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|37381856|gb|CF627831.1|CF627831
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCGATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|32937657|gb|CF042476.1|CF042476
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
EST: gi|37398634|gb|CF636633.1|CF636633
EST:     GGCAACTCTTCCTCAATGATGATTCTTGCGATCATTGTGCTCCTCTTCAG                         CACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG
genomic: GGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAG

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), 48 (downstream exon)
Score: 54

TACCTGCATTATCACCTTGTGCAACAACTCTTCCAGTTTTTCTTGCTGTTGGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAGCCAGATCAAGTTCCACTGGGTGGAGCGTTACGACAAGATCCTCGTCGGC


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 59

TACCTGCATTATCACCTTGTGCAACAACTCTTCCAGTTTTTCTTGCTGTTGGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAGCCAGATCAAGTTCCACTGGGTGGAGCGTTACGACAAGATCCTCGTCGGC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 73

TACCTGCATTATCACCTTGTGCAACAACTCTTCCAGTTTTTCTTGCTGTTGGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAGCCAGATCAAGTTCCACTGGGTGGAGCGTTACGACAAGATCCTCGTCGGC


Block sizes: 49 (upstream exon), 46 (downstream exon)
Score: 84

TACCTGCATTATCACCTTGTGCAACAACTCTTCCAGTTTTTCTTGCTGTTGGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccc ... cttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAGCCAGATCAAGTTCCACTGGGTGGAGCGTTACGACAAGATCCTCGTCGGC


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TACCTGCATTATCACCTTGTGCAACAACTCTTCCAGTTTTTCTTGCTGTTGGCAACTCTTCCTCAATGATGATTCTTGCAATCATTGTGCTCCTCTTCAGgtcttcaccctctttcactccactgtttttttattgtatttgttggtactaccaattcaaattgcattatcacgtcctttctgttattgggtttgttaac

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC