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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATTCAGTTCCTGGATGCACTTTTGTGCTGTGCGTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctctcagacttttttttgtgatggcaaatattatgcttcagtttcttgtctgatcatatgttttgcatcag

Basic information

species Zea mays
transcript GRMZM2G144372_T01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G144372_T01 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os05g51530.1 (Oryza sativa), 5'ss of exon 9
GTATTCAGTTCCTGGATGCACTTTTGTGCTGTGCGTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctctcagacttttt----tttgtgatggcaaatattatgcttcagtttcttgtctgatcatatgttttgcatcag----------
||||||||||||||||||||||| |||||||||||||||||||| ||||||||||||||||||||||| || |||||||||||||||||    ||     ||      | | |||| |  ||  || | |||   |  ||  ||| ||   || |  ||  |  |          
GTATTCAGTTCCTGGATGCACTTCTGTGCTGTGCGTGTCTTTGTAGAGAGCATTCTTAGATATGGTCTTCCCCCATCATTCCTGgtaatctattctactgttacgtagtatatgatagtcaaatttgtactttgatgcctgatctaatatcatatgctgtttatgttttcatcag

upper sequence: GRMZM2G144372_T01 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA16G05470.1 (Glycine max), 5'ss of exon 9
GTATTCAGTTCCTGGATGCACTTTTGTGCTGTGCGTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaat----tctctcagactt----ttttttgtgatggcaaatattatgcttcagtttcttgtctgatcatatgttttgcatcag
|| ||||||||||||||||||||||||||||||||| | ||||  ||||||||||| |||||||||||||| ||||| ||| |||||||    |||   | | |     |    | | ||| |   |   ||  ||||    ||  ||      |||    |    |||
GTTTTCAGTTCCTGGATGCACTTTTGTGCTGTGCGTTTATTTGCTGAGAGCATTCTGAGATATGGTCTGCCACCATCTTTCTTGgtaatatactcttctaaaatcaaagtgcagtctaatgacccctgggat-tttcaaacactgatcactgagtattgggtattccag

upper sequence: GRMZM2G144372_T01 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA19G27360.1 (Glycine max), 5'ss of exon 9
GTATTCAGTTCCTGGATGCACTTTTGTGCTGTGCGTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaat----tctctcagactt----ttttttgtgatggcaaatattatgcttcagt-ttcttgtctgatcatatgttttgcatcag
|| ||||||||||||||||||||||||||||||||| | ||||  ||||||||||| |||||||||||||| ||||| ||| |||||||    |||   | | |     ||   | | |||||   |   ||  |  | |  | ||  |||| |||  | | | |  |||
GTTTTCAGTTCCTGGATGCACTTTTGTGCTGTGCGTTTATTTGCTGAGAGCATTCTGAGATATGGTCTGCCTCCATCCTTCTTGgtaatatactcttctaaaatcaaagttcagtctaatggcccctgggattttcaaatactgttcactgaccattgggtattc--cag

upper sequence: GRMZM2G144372_T01 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA02G07260.1 (Glycine max), 5'ss of exon 9
GTATTCAGTTCCTGGATGCACTTTTGTGCTGTGCGTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctctcagactttttttt-gtgatggcaa--atattatgcttcag---tttcttgtctgatcat--atgttttgcatcag-----
|| ||||| |||||||||||||||||||| |||||||| |||   ||||||||||| ||||||||||| || ||||| ||| |||||  | |  |   || |    | |   |  |    || || | |||||    |||  | ||||| | |  ||  ||    |||      
GTTTTCAGCTCCTGGATGCACTTTTGTGCAGTGCGTGTATTTACTGAGAGCATTCTGAGATATGGTCTTCCACCATCTTTCTTGgtagatatacccatctgtacaatagctttcaccttcattttttccttcaaatattttatctctgacccttgattcttgtggtcattccag

upper sequence: GRMZM2G144372_T01 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA16G26220.1 (Glycine max), 5'ss of exon 9
GTATTCAGTTCCTGGATGCACTTTTGTGCTGTGCGTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctctcagacttttttttgtgatggca---aatattatgcttcagtttcttg----tctgatcatatgttttgcatcag--------------
|| ||||| |||||||||||||||||||| |||||||| |||   ||||||||||| ||||||||||| || ||||| ||| |||||  |     | ||  || | |   |  ||    |   | ||  ||   ||  | |    | | ||||  | |  |  ||                 
GTTTTCAGCTCCTGGATGCACTTTTGTGCAGTGCGTGTATTTACCGAGAGCATTCTGAGATATGGTCTTCCACCATCTTTCTTGgtagat-----atacccttctgtacaacagctttcagcttcatcttttccttcttcgaatattttatcacttatccttgattcttgtggtcattccag

upper sequence: GRMZM2G144372_T01 (Zea mays), 5'ss of exon 9
lower sequence: Vv14s0068g01280.t01 (Vitis vinifera), 5'ss of exon 9
GTATTCAGTTCCTGGATGCACTTTTGTGCTGTGCGTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaatt-----------ctctcagacttttttttgtgatggcaaatat-tatgcttcagtttcttgtctgatcatatgtt-ttgcatcag------
|| ||||| ||||||||||| ||||||||||| ||||||||||  ||||| || |||||||||||  |||| ||||| ||| |||||| |           |||  | | |  || |||  ||  |            ||   ||| |||  |||  ||  ||| |||            
GTTTTCAGCTCCTGGATGCATTTTTGTGCTGTACGTGTCTTTGCAGAGAGTATCCTTAGATATGGCTTGCCACCATCCTTCTTGgtaaataaaccattcaactccaacattccttcttggaatccctccctcacgaattttcttttattgattgaggattggttgttgagatgatttcag

upper sequence: GRMZM2G144372_T01 (Zea mays), 5'ss of exon 9
lower sequence: Vv17s0000g00460.t01 (Vitis vinifera), 5'ss of exon 9
GTATTCAGTTCCTGGATGCACTTTTGTGCTGTGCGTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaa----ttctctcagacttttttttgtgat--ggcaaatattatgcttcagtttcttgtctgatcatatgttttgcatcag
|| ||||| ||||||||||||||||||||||| ||||||||||  ||||||||||| ||||||||  |||| ||||| ||| | ||||    |  |  || ||   | ||| |        |     | || |    |||    | | |   |  | || |  ||||
GTCTTCAGCTCCTGGATGCACTTTTGTGCTGTACGTGTCTTTGCAGAGAGCATTCTGAGATATGGATTGCCACCATCTTTCTTAgtaagtaatctttgcatacccatatttttagctcattagtccctctgttatcatttacattttcaatgttggattggtttcag

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|60396077|gb|DN228946.1|DN228946
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|211035708|gb|FL440354.1|FL440354
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|32790927|gb|CD943163.1|CD943163
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGGCATCATTCCTG                         TCTGCTGGTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|16377910|gb|BI992182.1|BI992182
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|116823457|gb|EC867003.1|EC867003
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|60394318|gb|DN227188.1|DN227188
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|37387887|gb|CF631146.1|CF631146
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|40336015|gb|CK370085.1|CK370085
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|89248670|gb|DY620456.1|DY620456
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|76012957|gb|DT940127.1|DT940127
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|71428527|gb|DR809577.1|DR809577
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|211396248|gb|FL321770.1|FL321770
EST:     TCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: TCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|40335990|gb|CK370060.1|CK370060
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|61117885|gb|DN558846.1|DN558846
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|61117886|gb|DN558847.1|DN558847
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|31664147|gb|CD573327.1|CD573327
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|31558493|gb|CD527705.1|CD527705
EST:     TGTCTTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: TGTCTTT-GTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|61117883|gb|DN558844.1|DN558844
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|37397212|gb|CF635901.1|CF635901
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|211430939|gb|FL367561.1|FL367561
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|5058953|gb|AI737429.1|AI737429
EST:     CTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: CTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|32910803|gb|CF015615.1|CF015615
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|71430058|gb|DR811108.1|DR811108
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TTTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATT
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|37395039|gb|CF634799.1|CF634799
EST:     GGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|21843146|gb|BQ703727.1|BQ703727
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|67010828|gb|CO439577.1|CO439577
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|31358589|gb|CD442946.1|CD442946
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|20811126|gb|BQ295604.1|BQ295604
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|40336709|gb|CK370779.1|CK370779
EST:     CATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAACATCGAGAAGAAAGTAAGGAGCATC
genomic: CATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|67022208|gb|CO450957.1|CO450957
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAGGAAAGTA-GGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|37390080|gb|CF632266.1|CF632266
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|60342510|gb|DN209483.1|DN209483
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
EST: gi|61117882|gb|DN558843.1|DN558843
EST:     GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTG                         TCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC
genomic: GTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATC

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: 337

GTATTCAGTTCCTGGATGCACTTTTGTGCTGTGCGTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATCTTAGACGAGCTCTCTGGCGATGCCCATAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 389

GTATTCAGTTCCTGGATGCACTTTTGTGCTGTGCGTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATCTTAGACGAGCTCTCTGGCGATGCCCATAG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 307

GTATTCAGTTCCTGGATGCACTTTTGTGCTGTGCGTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATCTTAGACGAGCTCTCTGGCGATGCCCATAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 330

GTATTCAGTTCCTGGATGCACTTTTGTGCTGTGCGTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctct ... tttgcatcagTCTGCTGTTCTTGCACCATCTACAAAGAGCGAGAAGAAAGTAAGGAGCATCTTAGACGAGCTCTCTGGCGATGCCCATAG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTATTCAGTTCCTGGATGCACTTTTGTGCTGTGCGTGTCTTTGTGGAGAGCATTCTTAGATATGGTCTGCCGCCATCATTCCTGgtaattctctcagacttttttttgtgatggcaaatattatgcttcagtttcttgtctgatcatatgttttgcatcag

- - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - AGAGCA