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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgactattttgatccagcgacgcaaccttattttggcctgtgagttggaatgtagctgaaatcactatcattgcctttgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCATGAAGCTCGTGTCTTGGTATGACAACGAGTGGGGCTACAG

Basic information

species Zea mays
transcript GRMZM2G104632_T01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G104632_T01 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os02g07490.1 (Oryza sativa), 3'ss of exon 12
gtgactatttt--gatccagcgacgcaaccttattttggcctgtgagttggaatgtagctgaaatcactatcattgcctttgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCATGAAGCTCGTGTCTTGGTATGACAACGAGTGGGGCTACAG
|| | || ||   |||  | ||| | ||    ||| ||   ||       |   || | ||| || |||  |  |   | || |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||| ||||||||||||||||||||||||||
gtaagtacttctagatgtaccgatgtaa----attgtgttgtgctcaaaagggagtggttgacataactgcccct--ttctgcatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCATGAAGCTTGTGTCATGGTATGACAACGAGTGGGGCTACAG

upper sequence: GRMZM2G104632_T01 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA16G09020.1 (Glycine max), 3'ss of exon 12
--------gtgactattttgatccagcgacgcaaccttattttggcctgtgagttggaatgtagctgaaatcactatc----attgcctttgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCATGAAGCTCGTGTCTTGGTATGACAACGAGTGGGGCTACAG
         |||   ||    ||      |  | |   | |||   |  |  | || | | |   |||||| | |||     ||    | | |    |||||| || ||||||||||| |||||||| ||||  || ||  |||||||  | ||||| || || ||||||||||| |||||||| |||||
taagaaaactgaaccttcatttctctttccctagctaaaatttactcatttggatgtattatttgtgaaataattattcaaaatgaattcttttctccagGTCGAGTATCTTTGATGCTAAGGCTGGCATTGCGCTTAGTGCTTCCTTTGTTAAGCTGGTTTCGTGGTATGACAATGAGTGGGGTTACAG

upper sequence: GRMZM2G104632_T01 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA03G22790.1 (Glycine max), 3'ss of exon 12
-----------gtgactattttgatccagcgacgcaac-cttattttggcctgtgagttggaatgtagctgaaatcactatcattgcctttgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCATGAAGCTCGTGTCTTGGTATGACAACGAGTGGGGCTACAG
                | | ||   | ||  |       || |||| |   | | | |    | |||  |||  |    |  ||    | | |    ||||||||| |||||||||||||||||||| |||| ||| ||  |||||||  | ||||| || || ||||||||||| |||||||| |||||
aaattgaaccttcatttctctttccctagttagaatttactcatttggatgtattattatttaagtaaatgacttgttcaaaatgaattcttttctccagGTCAAGTATCTTTGATGCCAAGGCTGGCATTGCACTAAGTGCTTCCTTTGTTAAGCTGGTTTCGTGGTATGACAATGAGTGGGGTTACAG

upper sequence: GRMZM2G104632_T01 (Zea mays), 3'ss of exon 12
lower sequence: AT1G79530.1 (Arabidopsis thaliana), 3'ss of exon 12
gtgactattttgatccagcgacgcaaccttattttggcctgtgagttggaatgtagctgaa-atcactatcattgcc-tttg--tatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCATGAAGCTCGTGTCTTGGTATGACAACGAGTGGGGCTACAG
         ||| ||   |  |    | | ||  |   |||    ||    ||| | |||  |      | ||| |  ||||  |||| |||||| || |||||||| ||||| |||||||||||| |||||   |||||  |||| || || |||||||| |||||||| ||||| |||||
--------gttggtctctctccttttcttcatagtcatctgaatctttttttgtggttgaccaatgtggtgattccaatttggttataacagGTCCAGTATCTTTGACGCCAATGCTGGTATTGGATTGAGCAAGTCCTTTGTGAAACTTGTCTCTTGGTACGACAACGAATGGGGTTACAG

upper sequence: GRMZM2G104632_T01 (Zea mays), 3'ss of exon 12
lower sequence: AT1G16300.1 (Arabidopsis thaliana), 3'ss of exon 12
gtgactattttgatccagcgacgcaaccttattttggcctgtgagttggaatgtagctg-----aaatcactatcattgcctttgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCATGAAGCTCGTGTCTTGGTATGACAACGAGTGGGGCTACAG
                 |  || |     |||| | ||   | | ||  ||| | | |      |  |      ||||| |     |  |||||||||| ||||||||||| || ||||| |||||| | |||   ||||||||||| || || || |||||||||||||| ||||| |||||
-------------gtatgtcactcttaaatattgtagcggatcatttaaaatcttggtactcaaaggttgtggccattgtcaaaaaaattcagGTCAAGTATCTTTGATGCTAATGCTGGGATTGGATTAAGCAAGTCCTTCATGAAACTTGTCTCCTGGTATGACAACGAATGGGGTTACAG

upper sequence: GRMZM2G104632_T01 (Zea mays), 3'ss of exon 12
lower sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 12
--------------gtgactattttgatccagcgacgcaaccttattttggcctgtgagttggaatgtagctgaaatcac-tatcattgcctttgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCATGAAGCTCGTGTCTTGGTATGACAACGAGTGGGGCTACAG
              |   | |   ||||  |      | || ||  ||       | | ||||    |  |     | |  | |  |   |||| | || ||||||||| || |||||||| ||||| || || || |||||  |||||||||||||||||||  | |||||||||||||| ||||| |||||
ttcttgaattcccaggatcgaacctgatttattttatctacatt--ttcaaagcatcatttggtggatcaccatttttatatgttctctgctttattta-cagGTCAAGTATATTTGATGCAAAGGCCGGGATAGGGCTGAGTGCTTCCTTCATGAAGCTCGTTGCATGGTATGACAACGAATGGGGATACAG

upper sequence: GRMZM2G104632_T01 (Zea mays), 3'ss of exon 12
lower sequence: PP1S309_73V6.2 (Physcomitrella patens), 3'ss of exon 10
gtgactattt-tgatccagcgacgcaaccttattttggcctgtgagttgga-atgtagctgaaatcactatcattgcctttgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCATGAAGCTCGTGTCTTGGTATGACAACGAGTGGGGCTACAG
||   | ||| |       ||| |  ||   ||| ||     ||| ||||  ||||    || |    |   ||||   |  |    |||||| |||||||| ||||||||||| || ||||   ||||       ||  | ||||| ||||| ||||||||||||||||||||||||||
gtaggtttttgtcgattttcgatgggacag-attgtgtttgttgaattggtcatgtttgggatacttatggtattgaactcttgatacagGTCGAGCATCTTCGATGCCAAGGCAGGAATTGCCTTGAGTGACAAGTTTGTCAAGCTGGTGTCGTGGTATGACAACGAGTGGGGCTACAG

upper sequence: GRMZM2G104632_T01 (Zea mays), 3'ss of exon 12
lower sequence: PP1S309_84V6.1 (Physcomitrella patens), 3'ss of exon 10
gtgactattttgatccagcgacgcaaccttattttggcctgtgagttggaatgtagctgaaatcactatcattgcctttgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCATGAAGCTCGTGTCTTGGTATGACAACGAGTGGGGCTACAG
|| |   | |||||   | || |  ||   | ||     ||  | | | |  || | ||| |  | |    |||   |       |||||| |||||||| ||||| ||||| || ||||   |||||      ||| ||||| | ||||| ||||||||||||||||||||||||||
gtaaggttgttgattttg-gatgggacgg-acttgtttgtggaattagtagcgtcg-tgacactaatggtgttgtaatgtcgatacagGTCGAGCATCTTCGATGCTAAGGCAGGAATTGCCTTGAGCGACAAGTTCGTGAAGTTGGTGTCGTGGTATGACAACGAGTGGGGCTACAG

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|31354565|gb|CD438922.1|CD438922
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|60345701|gb|DN212674.1|DN212674
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|60397796|gb|DN230612.1|DN230612
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTC
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTC
EST: gi|67023119|gb|CO451868.1|CO451868
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|33098323|gb|CF058283.1|CF058283
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|91869744|gb|EB400518.1|EB400518
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|31352951|gb|CD437308.1|CD437308
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|110490491|gb|EE013222.1|EE013222
EST:     TTCCAATGATTTTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTTGGACTGAGCTCTTCCTTCA
genomic: TTCCAATGA--TTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTA-TTGGACTGAGCTCTTCCTTCA
EST: gi|166463296|gb|EG157444.1|EG157444
EST:     GGCTACACANACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGAC
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGAC
EST: gi|71449916|gb|DR830966.1|DR830966
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|78543682|gb|DV621180.1|DV621180
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|16925198|gb|BM078266.1|BM078266
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|211011831|gb|FL066257.1|FL066257
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|21626017|gb|BQ620938.1|BQ620938
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|6526690|gb|AW215981.1|AW215981
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|149048877|gb|EE048377.2|EE048377
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|21809652|gb|BQ667970.1|BQ667970
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|37389585|gb|CF632014.1|CF632014
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|211340828|gb|FL479593.1|FL479593
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|110201672|gb|EC883569.1|EC883569
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|60347428|gb|DN214401.1|DN214401
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|6865068|gb|AW360418.1|AW360418
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|67014564|gb|CO443313.1|CO443313
EST:     GGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|32857247|gb|CD996928.1|CD996928
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|16927361|gb|BM080430.1|BM080430
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|71449917|gb|DR830967.1|DR830967
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|211391098|gb|FL437304.1|FL437304
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|60355829|gb|DN222802.1|DN222802
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|113702479|gb|EE679983.1|EE679983
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|21331210|gb|BQ486591.1|BQ486591
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTAGTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|116821354|gb|EC864654.1|EC864654
EST:     TTGTTGGTGATTCAAG                         GTC-AGCATCTTTGATGCCAA-GCTGGTA-TGGACTGAGCTCTTCCTTCAT
genomic: TTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|84977555|gb|DW475977.1|DW475977
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|71320203|gb|DR796854.1|DR796854
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|211111379|gb|FK984525.1|FK984525
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|113703938|gb|EE681442.1|EE681442
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
EST: gi|60396993|gb|DN229812.1|DN229812
EST:     GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG                         GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT
genomic: GGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCAT

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: 311

GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCATGAAGCTCGTGTCTTGGTATGACAACGAGTGGGGCTACAG


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 210

GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCATGAAGCTCGTGTCTTGGTATGACAACGAGTGGGGCTACAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 245

GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCATGAAGCTCGTGTCTTGGTATGACAACGAGTGGGGCTACAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 346

GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAGgtgactattt ... tgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCATGAAGCTCGTGTCTTGGTATGACAACGAGTGGGGCTACAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggcctgtgagttggaatgtagctgaaatcactatcattgcctttgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCATGAAGCTCGTGTCTTGGTATGACAACGAGTGGGGCTACAG
                                      ttgccttt  CT-rich tract
                                           tttgtatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgactattttgatccagcgacgcaaccttattttggcctgtgagttggaatgtagctgaaatcactatcattgcctttgtatatcagGTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCATGAAGCTCGTGTCTTGGTATGACAACGAGTGGGGCTACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC