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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATGGGGTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACCATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttccagcctcaaggtagctgctctttgtttatcatgcgtgcatttaccctggtgagctagtttcatatatattgcctccagtgctaaatctgttc...

Basic information

species Zea mays
transcript GRMZM2G138907_T01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G138907_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os11g37890.3 (Oryza sativa), 5'ss of exon 2
GGATGGGGTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACCATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttccagcctcaaggtagctgctctttgtttatcatgcgtgcatttaccctggtgagctagtttcatata-tattgcctccagtgctaaatctgttc---
||||||| ||||| || ||||| ||||| || |||||||||||||||||||||||||||||||||||||||||||| ||||| ||||| || ||||| |||||| ||     ||   |||    ||||| |   |  ||||  |   ||| | |   |    |  | |   ||  ||    ||     | || ||     |   
GGATGGGATTCATTCAATCCAATCACTCTGTTATCATGTACAACAACACCATGATCAGCTTTAACATGCTTGAGGCCGCTAGGATTAATGGTGTCAAAAGgtaacttttgaact---ggtgctggctctgtaaatcccatgttttatttttcaccaattga-tgctataggatgctaagatctgttaaggtatataaagcctat

upper sequence: GRMZM2G138907_T01 (Zea mays), 5'ss of exon 2
lower sequence: Vv05s0020g04510.t01 (Vitis vinifera), 5'ss of exon 2
GGATGGGGTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACCATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttccagcctcaaggtagctgctctttgtttatcatgcgtgcatttaccctggtgagct---agtttcatatatattgcctccagtgctaaatctgttc
| ||||| ||||| |||||||| ||||| || |||||||| |||||||| ||||| ||||| ||||||||||||||| | ||||| || || || |||||||   ||    |||     |  || ||  || ||     |    |   || ||  | |||  |   | ||   ||    |||   |||  |   | | | || 
GTATGGGCTTCATTCAGTCCAATCACTCTGTTATCATGTATAACAACACAATGATTAGCTTCAACATGCTTGAGGCTTCAAGAATCAATGGGGTTAAGAGgt---ttgtctccttggattcactacttatttttagctttatcagttctttccaagttgatttgagaattatctactatttgaaaccaaagaatacttttttg

upper sequence: GRMZM2G138907_T01 (Zea mays), 5'ss of exon 2
lower sequence: Vv14s0030g02180.t01 (Vitis vinifera), 5'ss of exon 2
GGATGGGGTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACCATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttccagcctcaaggtagctgctctttgttt--atcatgcg-tgcatttaccctggtgagctagtttcatatatattgcctcca---gtgctaaatctgttc----------------------------------------------------------------
| ||||||||||||||||||||||| || || || |||||||| ||||| ||||||||||| ||||||||||||||| |||| || || || || |||||||  ||     | ||||  |      || | | ||  |  | |   | |||||    ||   |  | ||||||| ||    || |  |   ||     |   ||                                                                  
GAATGGGGTTCATCCAGTCCAACCATTCAGTTATTATGTACAATAACACAATGATCAGCTTCAACATGCTTGAGGCTTCTAGGATCAATGGGGTTAAGAGgt--ttgttgtcttcaatttgttctatcctggctttgactaagttctccatttgatatga-aaattggtttcatgtactcagcatttatctgtctaggagacgtaaatttactaatgaatttttctggtcctgagaattctctaatatctgattattccacattgtgcag

upper sequence: GRMZM2G138907_T01 (Zea mays), 5'ss of exon 2
lower sequence: EDP09235 (Chlamydomonas reinhardtii), 5'ss of exon 3
---------GGATGGGGTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACCATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttccagcctcaaggtagctgctctttgtttatcatgcgtgcatttaccctggtgagctagtttcatatatattgcctccagtgctaaatctgttc-----
         ||   | |  ||    || |||||   ||| |  ||||  |  ||    | | |||   |  |||   ||     | |  |  ||  ||  |  || |  |  |   || |   |  ||| || |   || |     |          ||||   | || ||  ||| |  |  |  | ||  | ||   ||| | || |     
GGTGTGCGAGGGCTGTGAGCACGT-GTTCAACCTGGCCGCCGACATGGGCGGCATGGGCTTCATCCAGTCCAAC-CACT-----CCGTCATCATGTACAACAACACGgtgcga--gccggggccggggttgcgggctttgg---gccggttacctggttacgg-gctgggcgggttac-caggttgtcccgtctgttggaaagcagtgcggcga

upper sequence: GRMZM2G138907_T01 (Zea mays), 5'ss of exon 2
lower sequence: PP1S171_56V6.2 (Physcomitrella patens), 5'ss of exon 1
GGATGGGGTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACCATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttccagcctcaaggtagctgctctttgtttatcatgcgtgcatttaccctggtgagctag-tttcatatatattgcctccagtgctaaatctgttc----
| ||||| |||||||||||||| ||| | ||||| ||||||||||| |||||||||||||| ||||||||||| ||  |  | || || || |||   ||||   | |    |||      ||   ||    |||| | |       |  | |    |   || | ||||  |  | |   ||   |||| |  ||||||     
GCATGGGCTTCATCCAGTCCAATCACGCTGTCATTATGTACAACAATACCATGATCAGCTTCAACATGCTTGAAGCCTCACGCATCAATGGTGTCTCTAGgtgcatgctcctctct-----gcccttccaattttaccttagccatttccagctctttattcttgctttcgaaggtctctgcttatgtgcaatctctgtttctct

upper sequence: GRMZM2G138907_T01 (Zea mays), 5'ss of exon 2
lower sequence: PP1S98_250V6.1 (Physcomitrella patens), 5'ss of exon 1
GGATGGGGTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACCATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTC----AAGAGgtaatttccagcc-tcaaggtagctgctctttgtttatcatgcgtgcatttaccctggtgagctagtttcatatatattgcctccagtgctaaatctgttc
| ||||| ||||| |||||||||||| |||| |||||||||||||||||||||||||||||||||||||| ||||| ||  | || || ||||||        || ||       || |     | ||  ||||   | |  ||    || || | |  |   ||   |    || | |  |  |    | || |   | ||   
GCATGGGTTTCATTCAGTCCAACCACGCCGTGATCATGTACAACAACACCATGATCAGCTTTAACATGCTCGAGGCCGCGCGCATCAATGGCGTCTCTCGgttggcaacccttgccccttctttttgcctctctccctctcgcagctctggatcttctttt-cgaaaaaaaaacacacagttaacaatgaatgtttc-tttg---

upper sequence: GRMZM2G138907_T01 (Zea mays), 5'ss of exon 2
lower sequence: PP1S237_14V6.1 (Physcomitrella patens), 5'ss of exon 1
GGATGGGGTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACCATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttccagcctcaaggtagctgctctttgtttatca-tgcg---tgcatttaccctggtgagctagtttcatatatattgcctccagtgctaaatctgttc
| ||||| ||||||||||| |||||| ||||||| ||||||||||||||||||||||| || |||||||| || || ||| | || ||||| || |   |||      |   |||   ||   | || |    ||| || | ||   | || ||   ||       ||||   |  | | || | |  | | |||| |  ||| 
GTATGGGCTTCATCCAGTCTAACCACGCCGTCATTATGTACAACAACACCATGATCAGTTTCAACATGCTCGAAGCCGCTCGCATCAACGGTGTTACCCGgtg---cgcgctctcgcagtgctttctttgccattaccagttcgattttcacttcgtctctgccattagtgggaattttgtttcttttattcctaattgcgtt-

upper sequence: GRMZM2G138907_T01 (Zea mays), 5'ss of exon 2
lower sequence: EFJ37016 (Selaginella moellendorffii), 5'ss of exon 1
GGATGGGGTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACCATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttccagcctcaaggtagctgctctttgtttatcatgcgtgcatttaccctggtgagctagtttcatatatattgcctccagtgctaaatctgttc
||||||| ||||||||||| || ||||| |||||| | | |||||| |||||||||||||| |||||||| |||||  |  |||| || || ||||| ||||          ||   | |  |     ||||    |||    | | |||  | ||  |                                         
GGATGGGTTTCATCCAGTCGAATCACTCGGTCATCCTTTTCAACAATACCATGATCAGCTTCAACATGCTCGAGGCCTCCCGAATCAATGGAGTCAAAAGgtgtggattcttcttttgttc-cgagaatttggagctcacttttccttttggcttgcag-----------------------------------------

upper sequence: GRMZM2G138907_T01 (Zea mays), 5'ss of exon 2
lower sequence: EFJ19598 (Selaginella moellendorffii), 5'ss of exon 1
GGATGGGGTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACCATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttccagcctcaaggtagctgctctttgtttatcatgcgtgcatttaccctggtgagctagtttcatatatattgcctccagtgctaaatctgttc
| ||||| |||||||||||||| ||||| || ||  | | |||||||||||||||||| || |||||||| |||||  |  | || || || |||||||||||   |      |      || || ||||     |  ||  | |   | || ||   |      || ||                              
GAATGGGATTCATCCAGTCCAATCACTCTGTGATTCTCTTCAACAACACCATGATCAGTTTCAACATGCTCGAGGCGTCCCGGATCAATGGAGTCAAGAGgtagcctgtgatgtttcta-agttgttcttc-ccaaggatttg-gagctcactctctcgcttggcttccag-----------------------------

upper sequence: GRMZM2G138907_T01 (Zea mays), 5'ss of exon 2
lower sequence: EFJ37510 (Selaginella moellendorffii), 5'ss of exon 1
GGATGGGGTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACCATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttccagcctcaaggtagctgctctttgtttatcatgcgtgcatttaccctggtgagctagtttcatatatattgcctccagtgctaaatctgttc
||||||| ||||||||||| || ||||| |||||| | | |||||| |||||||||||||| |||||||| |||||  |  |||| || || ||||| ||||          ||   |||  |     ||||    ||||   | | |||  | ||  |                                         
GGATGGGTTTCATCCAGTCGAATCACTCGGTCATCCTTTTCAACAATACCATGATCAGCTTCAACATGCTCGAGGCCTCCCGAATCAATGGAGTCAAAAGgtgtggattcttcttttggttccgagaatttggagctcat-tttccttttggcttgcag-----------------------------------------

upper sequence: GRMZM2G138907_T01 (Zea mays), 5'ss of exon 2
lower sequence: EFJ33664 (Selaginella moellendorffii), 5'ss of exon 1
GGATGGGGTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACCATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttccagcctcaaggtagctgctctttgtttatcatgcgtgcatttaccctggtgagctagtttcatatatattgcctccagtgctaaatctgttc
||||||| ||||||||||| || ||||| |||||| | | |||||| |||||||||||||| |||||||| |||||  |  |||| || || ||||| ||||          ||    ||        ||||    |||    | | |||  | ||  |                                         
GGATGGGTTTCATCCAGTCGAATCACTCAGTCATCCTTTTCAACAATACCATGATCAGCTTCAACATGCTCGAGGCCTCCCGAATCAATGGAGTCAAAAGgtgtggattcttctttttgttctgagaatttggagctcacttttccttttggcttgcag-----------------------------------------

upper sequence: GRMZM2G138907_T01 (Zea mays), 5'ss of exon 2
lower sequence: EFJ10353 (Selaginella moellendorffii), 5'ss of exon 1
GGATGGGGTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACCATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttcca--gcctcaaggtagctgctctttgtttatcatgcgtgcatttaccctggtgagctagtttcatatatattgcctccagtgctaaatctgttc
| ||||| |||||||||||||| ||||| || ||  | | |||||||||||||||||| || |||||||| |||||  |  | || || || ||||| |||||   |     |  || | || | | ||        ||   | |  || |  | ||  ||      || ||                              
GAATGGGATTCATCCAGTCCAATCACTCTGTGATTCTCTTCAACAACACCATGATCAGTTTCAACATGCTCGAGGCCTCCCGGATCAATGGAGTCAAAAGgtagcctgtgatgtttctaagttgtt-cttcccaaggatttggagctcactctctctcttggc----ttccag-----------------------------

upper sequence: GRMZM2G138907_T01 (Zea mays), 5'ss of exon 2
lower sequence: EFJ18599 (Selaginella moellendorffii), 5'ss of exon 1
GGATGGGGTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACCATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttccagcctcaaggtagctgctctttgtttatcatgcgtgcatttaccctggtgagctagtttcatatatattgcctccagtgctaaatctgttc
| ||||| |||||||||||||| ||||| || ||  | | |||||||||||||||||| || |||||||| |||||  |  | || ||||| ||||| |||||   |      |      || || ||||     |  ||  | |   | || ||  |       || ||                              
GAATGGGATTCATCCAGTCCAATCACTCTGTGATTCTCTTCAACAACACCATGATCAGTTTCAACATGCTCGAGGCCTCCCGGATCAACGGAGTCAAAAGgtagcctgtgatgtttcta-agttgttcttc-ccaaggatttg-gagctcactctctttcttggcttccag-----------------------------

upper sequence: GRMZM2G138907_T01 (Zea mays), 5'ss of exon 2
lower sequence: EFJ36458 (Selaginella moellendorffii), 5'ss of exon 1
GGATGGGGTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACCATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttccagcctcaaggtagctgctctttgtttatcatgcgtgcatttaccctggtgagctagtttcatatatattgcctccagtgctaaatctgttc
| ||||| |||||||||||||| ||||| || ||  | | |||||||||||||||||| || |||||||| |||||  |  | || || || ||||| |||||   |   |  |      || || ||||     |  ||  | |   | || ||  |       || ||                              
GAATGGGATTCATCCAGTCCAATCACTCTGTGATTCTCTTCAACAACACCATGATCAGTTTCAACATGCTCGAGGCCTCCCGGATCAATGGAGTCAAAAGgtagcctgtggtgtttcta-agttgttcttc-ccaaggatttg-gagctcactctctttcttggcttccag-----------------------------

upper sequence: GRMZM2G138907_T01 (Zea mays), 5'ss of exon 2
lower sequence: EFJ34003 (Selaginella moellendorffii), 5'ss of exon 1
GGATGGGGTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACCATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttccagcctcaaggtagctgctctttgtttatcatgcgtgcatttaccctggtgagctagtttcatatatattgcctccagtgctaaatctgttc
||||||| ||||||||||| || ||||| |||||| | | |||||| |||||||||||||| |||||||| |||||  |  |||| || || ||||| ||||          ||    ||  |     ||||    |||    | | |||  | ||  |                                         
GGATGGGTTTCATCCAGTCGAATCACTCGGTCATCCTTTTCAACAATACCATGATCAGCTTCAACATGCTCGAGGCCTCCCGAATCAATGGAGTCAAAAGgtgtggattcttctttttgttccgagaatttggagctcacttttccttttggcttgcag-----------------------------------------

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|71318270|gb|DR795899.1|DR795899
EST:     ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAG                         GTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
genomic: ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttcca ... tacatggcagGTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
EST: gi|148949983|gb|EC895503.2|EC895503
EST:     ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAG                         GTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
genomic: ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttcca ... tacatggcagGTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
EST: gi|101386394|gb|EB815216.1|EB815216
EST:     ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAG                         GTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
genomic: ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttcca ... tacatggcagGTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
EST: gi|83279229|gb|DV943237.1|DV943237
EST:     ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAG                         GTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
genomic: ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttcca ... tacatggcagGTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
EST: gi|148945328|gb|EC890545.2|EC890545
EST:     ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAG                         GTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
genomic: ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttcca ... tacatggcagGTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
EST: gi|148931952|gb|EC875193.2|EC875193
EST:     ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAG                         GTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
genomic: ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttcca ... tacatggcagGTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
EST: gi|50337860|gb|CO532986.1|CO532986
EST:     ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAG                         GTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
genomic: ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttcca ... tacatggcagGTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
EST: gi|116813381|gb|EC855825.1|EC855825
EST:     TGATCAGC-TTAACGTGCTTGAGGCTGCTAAAATT-ACGG-GTC-AGAG                         GTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
genomic: TGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttcca ... tacatggcagGTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
EST: gi|76287580|gb|DV027148.1|DV027148
EST:     ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAG                         GTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
genomic: ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttcca ... tacatggcagGTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
EST: gi|211181474|gb|FL002108.1|FL002108
EST:     ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAG                         GTTCTTCTATGC
genomic: ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttcca ... tacatggcagGTTCTTCTATGC
EST: gi|211361419|gb|FL074507.1|FL074507
EST:     TGATCAGCTTTAACATGCTTGAGGCTGCCAAGAATTAACGGCGTCAAGAG                         GTTCTTCTATGCA
genomic: TGATCAGCTTTAACATGCTTGAGGCTGCTA-GAATTAACGGCGTCAAGAGgtaatttcca ... tacatggcagGTTCTTCTATGCA
EST: gi|4646491|gb|AI621789.1|AI621789
EST:     ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAG                         GTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
genomic: ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttcca ... tacatggcagGTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
EST: gi|32866083|gb|CF005765.1|CF005765
EST:     ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAG                         GTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
genomic: ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttcca ... tacatggcagGTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
EST: gi|76282746|gb|DV022314.1|DV022314
EST:     ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAG                         GTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
genomic: ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttcca ... tacatggcagGTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
EST: gi|149071845|gb|EE160234.2|EE160234
EST:     ATGATCAGATTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAG                         GTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
genomic: ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttcca ... tacatggcagGTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
EST: gi|78119627|gb|DV538011.1|DV538011
EST:     ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAG                         GTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA
genomic: ATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttcca ... tacatggcagGTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGA

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: 45 (upstream exon), 47 (downstream exon)
Score: 40

GGATGGGGTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACCATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttcca ... tacatggcagGTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGAAACTGTAGTTAGCTTGAAGGAGTCCGATGCTTGGCCTGCCGAG


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 200

GGATGGGGTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACCATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttcca ... tacatggcagGTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGAAACTGTAGTTAGCTTGAAGGAGTCCGATGCTTGGCCTGCCGAG


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 160

GGATGGGGTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACCATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttcca ... tacatggcagGTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGAAACTGTAGTTAGCTTGAAGGAGTCCGATGCTTGGCCTGCCGAG


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 116

GGATGGGGTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACCATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttcca ... tacatggcagGTTCTTCTATGCATCAAGTGCCTGCATCTACCCTGAGTTCAAGCAGCTGGAAACTGTAGTTAGCTTGAAGGAGTCCGATGCTTGGCCTGCCGAG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGATGGGGTTCATCCAGTCCAACCACTCCGTCATCATGTACAACAACACCATGATCAGCTTTAACATGCTTGAGGCTGCTAGAATTAACGGCGTCAAGAGgtaatttccagcctcaaggtagctgctctttgtttatcatgcgtgcatttaccctggtgagctagtttcatatatattgcctccagtgctaaatctgttc

- - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT