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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatatttttctttcagtaattttggagtctgaaggacaagcttgatgtagtggtgagtgctgcctcactgagtcactaggtcgcgggttcgaagcag...

Basic information

species Zea mays
transcript GRMZM2G130332_T03
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G130332_T03 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os12g37960.1 (Oryza sativa), 5'ss of exon 4
CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattttt----ctttcagtaattttggagtctgaaggacaa----gcttgatgtagtggtgagtgctgcctcactg-agtcactaggtcgcgggttcgaagcag
|||||  ||||| ||||| ||||||   ||||||||||||||||||| ||||||  ||||||||   |||     ||| ||| ||| |  | | | ||| |  |    || |  || | | |   ||     | ||||| |||       || |             
CTTCAAAATTCACACTGGCGCTGGGCTAATCATTCCTGAAATACAAAATGATGGCAAGgtaaatgccttttagttttttagttattgtttacttttaagcatgataatgccttttgaatttgaaggtataaac-cactgtagtttgccattcacctccc--------
















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|148986800|gb|EE030596.2|EE030596
EST:     TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG                         GTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
EST: gi|87155814|gb|DY400603.1|DY400603
EST:     TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG                         GTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
EST: gi|91052902|gb|EB163320.1|EB163320
EST:     TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG                         GGAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAAACATCCC
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCC
EST: gi|93014173|gb|EB639693.1|EB639693
EST:     TCATACTGGTGCTGGGAAGATCATTTCCTGAAATACAAAGTGATGGGCAG                         GTAAAGGTTGATATG
genomic: TCATACTGGTGCTGGGAAGATCATT-CCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATG
EST: gi|91878422|gb|EB408379.1|EB408379
EST:     TTCATACTGGTGCTGGGAAGATCATTCCTGACATACAAAGTGATGGGCAG                         GTAAAGGTTTATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
EST: gi|148961368|gb|EE012101.2|EE012101
EST:     TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG                         GTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
EST: gi|71324621|gb|DR799009.1|DR799009
EST:     TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG                         GTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
EST: gi|71769300|gb|DR967237.1|DR967237
EST:     TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG                         GTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
EST: gi|78088914|gb|DV517307.1|DV517307
EST:     TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG                         GTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
EST: gi|76286735|gb|DV026303.1|DV026303
EST:     TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG                         GTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
EST: gi|78088792|gb|DV517185.1|DV517185
EST:     TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG                         GTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
EST: gi|50337846|gb|CO532972.1|CO532972
EST:     TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG                         GTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
EST: gi|211026296|gb|FL344450.1|FL344450
EST:     TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG                         GTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
EST: gi|22133843|gb|BQ833933.1|BQ833933
EST:     TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG                         GTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
EST: gi|24773782|gb|CA409036.1|CA409036
EST:     TTCATACTGG-GCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG                         GTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
EST: gi|71329026|gb|DR801212.1|DR801212
EST:     TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG                         GTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
EST: gi|26558147|gb|CA830382.1|CA830382
EST:     TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG                         GTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGC
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGC
EST: gi|76014966|gb|DT942136.1|DT942136
EST:     TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG                         GTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
EST: gi|101395236|gb|EB819548.1|EB819548
EST:     TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG                         GGAAAGGTTGATATGGGAGAGCCCATCCTTTCCGGAGCAGACATCCCCACA
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
EST: gi|148961806|gb|EE012586.2|EE012586
EST:     TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG                         GTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
EST: gi|71443835|gb|DR824885.1|DR824885
EST:     TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG                         GTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
EST: gi|26559567|gb|CA831802.1|CA831802
EST:     TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG                         GTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
EST: gi|101383177|gb|EB813643.1|EB813643
EST:     TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG                         GTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
EST: gi|148970899|gb|EE021693.2|EE021693
EST:     TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG                         GTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
EST: gi|74233526|gb|DT641440.1|DT641440
EST:     TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG                         GTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
EST: gi|76017579|gb|DT944749.1|DT944749
EST:     TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAG                         GTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA
genomic: TTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatattt ... ttgttttcagGTAAAGGTTGATATGGGAGAGCCCATCCTTTCTGGAGCAGACATCCCCACA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTCACTATTCATACTGGTGCTGGGAAGATCATTCCTGAAATACAAAGTGATGGGCAGgtaaatatttttctttcagtaattttggagtctgaaggacaagcttgatgtagtggtgagtgctgcctcactgagtcactaggtcgcgggttcgaagcag

- - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - AGATCA