Sequence
atgc intronic sequence ATGC exonic sequencegtaattcagttattaaatatttatgtagttgttggtgaatcacactcttaaaattaatatgccacttgaataatatatgcatacttttgtaggcggaggtttttagaatgtcttagtagttggtgcagatgctctttcaaactacgtggattggacagACAGAGGTACATGCATTCTTTTTGGTGATGCTGCTGGTGCTGTGTTGGTACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G111677_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA09G41380.1 (Glycine max), 3'ss of exon 4
gtaattcagttattaaatatttatgtagttgttggtgaatcacac---tcttaaaattaatatgccacttgaataatatatgcatacttttgtaggcggaggtttttagaatgtcttagtagttggtgcagatgctctttcaaactacgtggattggacagACAGAGGTACATGCATTCTTTTTGGTGATGCTGCTGGTGCTGTGTTGGTACAG
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-----gtatgaattggctatttttgttgtc-ttgataattcctaaatatgttgaaaatcat-tgcccttt----attgtgtgagttc------agGAGGTGGGTTTAATAATGTTCTAGTTATTGGGGCGGATGCTCTTTCACGATATGTTGATTGGACAGACAGAGGGACCTGTATTCTTTTTGGGGATGCTGC-------------------
upper sequence: GRMZM2G111677_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA18G44350.1 (Glycine max), 3'ss of exon 4
gtaattcagttattaaatatttatgtagttgttggtgaatcacactcttaaaattaatatgccacttgaataatatatgcatacttttgtaggcggaggtttttagaatgtcttagtagttggtgcagatgctctttcaaactacgtggattggacagACAGAGGTACATGCATTCTTTTTGGTGATGCTGCTGGTGCTGTGTTGGTACAG
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----------tatgaattggttattt--ttgtcagcttgatagttcctaaatatggggaaaatcattgccctttat---tgtgtgaatgcaggAGGTGGATTTAATAATGTTCTAGTTATTGGGGCGGATGCTCTCTCACGATATGTTGATTGGACAGACAGAGGGACCTGTATTCTTTTTGGGGATGCTGCT------------------
upper sequence: GRMZM2G111677_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S11_305V6.1 (Physcomitrella patens), 3'ss of exon 6
----gtaattcagttat--taaatatttatgt--agttgttggtgaatcacactcttaaaattaatatgccacttgaataatatatgcatacttttgtaggcggaggtttttagaatgtcttagtagttggtgcagatgctctttcaaactacgtggattggacagACAGAGGTACATGCATTCTTTTTGGTGATGCTGCTGGTGCTGTGTTGGTACAG
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tgttatatttttgtcttcctaagcaatcgaattgagttctttcaacttggtaaaccaatcgaaagttgtctcctaaagctaaatttgaaggtgtgtgcagGAGGTGGTTACGAAAATGTTCTTGTGGTTGGTTCTGATGCTCTTTCAAGATACGTGGATTGGACGGATAGAGGAACGTGTATCCTATTTGGTGATGCTTC-------------------
upper sequence: GRMZM2G111677_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S119_22V6.2 (Physcomitrella patens), 3'ss of exon 6
--gtaattcagtta--ttaaatatttatgtagttgttggtgaatcacactcttaaaatta-at-atgccacttgaataata-----tatgcatacttttgtaggcggaggtttttagaatgtcttagtagttggtgcagatgctctttcaaactacgtggattggacagACAGAGGTACATGCATTCTTTTTGGTGATGCTGCTGGTGCTGTGTTGGTACAG
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gggaaactaagtccactgaaaggtgcacttaattcatcct--atc-tacttagagaatcacatgatgttggctgtctaaaactaacttcgaaagtgtgtgcagGAGGAGGTTACAAGAATGTACTTGTGGTGGGTGCGGATGCTCTATCGCGATACGTGGATTGGACTGACAGAGGGACATGTATTCTGTTTGGCGATGCCTC------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagaatgtcttagtagttggtgcagatgctctttcaaactacgtggattggacagACAGAGGTACATGCATTCTTTTTGGTGATGCTGCTGGTGCTGTGTTGGTACAG
tttcaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattcagttattaaatatttatgtagttgttggtgaatcacactcttaaaattaatatgccacttgaataatatatgcatacttttgtaggcggaggtttttagaatgtcttagtagttggtgcagatgctctttcaaactacgtggattggacagACAGAGGTACATGCATTCTTTTTGGTGATGCTGCTGGTGCTGTGTTGGTACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT