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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAAGGGTTGGAGGTCTTCATCAGAACACTGCTACTGAATCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacggatattcttatattccttcaaacatgagattgaaacactaacacatttctgtacacag

Basic information

species Zea mays
transcript GRMZM2G146472_T02
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G146472_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os11g06760.1 (Oryza sativa), 5'ss of exon 4
AGAAGGGTTGGAGGTCTTCATCAGAACACTGCTACTGAATCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaagga------cggatattcttatattccttcaaacatg----agattgaaacactaacacatttctgtacacag
|||||| | || |||||||||||||  ||  ||||||||||  |||| ||||| ||||| |||||||||||||||||||||||||||||||||| |      | ||       | |       | || |             ||||||    | | ||   |||||
AGAAGGATCGGTGGTCTTCATCAGATTACATCTACTGAATCAATTGACATCACGGACACTTGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaagtattttttcagaagaaaaaagaaaaggaaagacttatcgtgagccatgacactagtgtactgcttaccacag
















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|32830032|gb|CD969710.1|CD969710
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|28930818|gb|CB334179.1|CB334179
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|32829230|gb|CD968908.1|CD968908
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|15214979|gb|BI431119.1|BI431119
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|22542105|gb|BU092543.1|BU092543
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|32841469|gb|CD981150.1|CD981150
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|19822219|gb|BQ048243.1|BQ048243
EST:     TCTG-TGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|32839778|gb|CD979459.1|CD979459
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|76930615|gb|DV172453.1|DV172453
EST:     TCTGTTGACATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|24773481|gb|CA408735.1|CA408735
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|32831818|gb|CD971496.1|CD971496
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|32828756|gb|CD968434.1|CD968434
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|24774011|gb|CA409265.1|CA409265
EST:     TCTGTTGATATCACAGACACATGGCAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|76918295|gb|DV167234.1|DV167234
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|56462114|gb|CK986412.1|CK986412
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|31356464|gb|CD440821.1|CD440821
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|4753393|gb|AI657303.1|AI657303
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|60345407|gb|DN212380.1|DN212380
EST:     AGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: AGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|31359395|gb|CD443752.1|CD443752
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGGGGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|148933612|gb|EC877493.2|EC877493
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|24774111|gb|CA409365.1|CA409365
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|67031337|gb|CO460086.1|CO460086
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|14202293|gb|BG835970.1|BG835970
EST:     GGAACCTTTGGAAGAA-GCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATAACTGT-AAACTGTCAAAGAA
genomic: GGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|24961547|gb|CA483556.1|CA483556
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|31363502|gb|CD447859.1|CD447859
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|31354397|gb|CD438754.1|CD438754
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|24773581|gb|CA408835.1|CA408835
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|29577050|gb|CB617162.1|CB617162
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|149078577|gb|EE167361.2|EE167361
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|148939817|gb|EC884519.2|EC884519
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|32829344|gb|CD969022.1|CD969022
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|60344926|gb|DN211899.1|DN211899
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|32839644|gb|CD979325.1|CD979325
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|32839620|gb|CD979301.1|CD979301
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|148942045|gb|EC887040.2|EC887040
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|31364520|gb|CD448875.1|CD448875
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|32839780|gb|CD979461.1|CD979461
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|149101884|gb|EE287439.2|EE287439
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
EST: gi|32839645|gb|CD979326.1|CD979326
EST:     TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCC                         ACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA
genomic: TCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacgg ... ctgtacacagACTAGAGACAACTCGCCATGTGTCGATGATCACTGTGACACTGTCAAAGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAAGGGTTGGAGGTCTTCATCAGAACACTGCTACTGAATCTGTTGATATCACAGACACATGGGAACCTTTGGAAGAAGGCCTTCTCCCgtaaggacggatattcttatattccttcaaacatgagattgaaacactaacacatttctgtacacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG