Sequence
atgc intronic sequence ATGC exonic sequencegtgaattcttactatcccccttgtggtgaatagttgaacaatctgctaagagcattacttgttgcacagtttataagccttccggtgaatgttgcagGTGGAATTGACCCTCACACGCACCTGGAGATGGAGTTCATGGGCACCGTGACCATAGATGACTTCTTCAGCGGCCATGCTGCGGCACTGGCGGGTGGGAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G020002_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g59340.2 (Oryza sativa), 3'ss of exon 6
gtgaattcttactatcccccttgtggtgaatagttgaacaatctgctaagagcattacttgttgcacag-tttataagccttccggtgaatgttgca--gGTGGAATTGACCCTCACACGCACCTGGAGATGGAGTTCATGGGCACCGTGACCATAGATGACTTCTTCAGCGGCCATGCTGCGGCACTGGCGGGTGGGAC------------------------------------------------------------------------------------
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gtaaattcttacggttt------tgataaacattttgg-aattagtta------ttacttgctcttcgggtttatcattcttctggcaaatgtcacacaggtggaattgaccctcacactcacctggagatggaattcatgggaactgtaaccattgatgatttctttagtggtcatgctgcagCATTGGCTGGTGGGACAACAATGCACATTGACTTCGTCATTCCAGTGAATGGCAATTTAACTGCAGGTTTGGAATCCTACAAACAGAAGGCAGAAAAATC
upper sequence: GRMZM2G020002_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g59340.3 (Oryza sativa), 3'ss of exon 6
gtgaattcttactatcccccttgtggtgaatagttgaacaatctgctaagagcattacttgttgcacag-tttataagccttccggtgaatgttgca--gGTGGAATTGACCCTCACACGCACCTGGAGATGGAGTTCATGGGCACCGTGACCATAGATGACTTCTTCAGCGGCCATGCTGCGGCACTGGCGGGTGGGAC
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gtaaattcttacggttt------tgataaacattttgg-aattagtta------ttacttgctcttcgggtttatcattcttctggcaaatgtcacacagGTGGAATTGACCCTCACACTCACCTGGAGATGGAATTCATGGGAACTGTAACCATTGATGATTTCTTTAGTGGTCATGCTGCAGCATTGGCTGGTGGGAC
upper sequence: GRMZM2G020002_T03 (Zea mays), 3'ss of exon 3
lower sequence: Vv06s0009g02790.t01 (Vitis vinifera), 3'ss of exon 3
gtgaattcttactatcccccttgtggtgaatagttgaacaatctgctaagagcat-tacttgttgcacagtttataagccttccggtg--aatgtt-gcagGTGGAATTGACCCTCACACGCACCTGGAGATGGAGTTCATGGGCACCGTGACCATAGATGACTTCTTCAGCGGCCATGCTGCGGCACTGGCGGGTGGGAC
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aagtttaattagcatgtccatgtccatgtccatttccgtc-tctaagaactacatatatttgatccatatatattgcaacattaaattttaatgtttacagGTGGAATTGATCCTCACACACACCTAGCAATGGAGTTTATGGGTACTGAGACCATTGATGACTTTTTCAGTGGTCAAGCTGCTGCACTAGCAGGTGGAACMapped 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|149082368|gb|EE171552.2|EE171552EST: TGTTGATAATGTCAGGGTAATCGACGCAACAGGAAAATATGTCATGCCAG GTGGAATTGACCCTCACACGCACCTGGAGATGGAGTTCATGGGCACCGTGA
genomic: TGTTGATAATGTCAGGGTAATCGACGCAACAGGAAAATATGTCATGCCAGgtgaattctt ... aatgttgcagGTGGAATTGACCCTCACACGCACCTGGAGATGGAGTTCATGGGCACCGTGA
EST:
gi|87152398|gb|DY397187.1|DY397187EST: TGTTGATAATGTCAGGGTAATCGACGCAACAGGAAAATATGTCATGCCAG GTGGAATTGAC
genomic: TGTTGATAATGTCAGGGTAATCGACGCAACAGGAAAATATGTCATGCCAGgtgaattctt ... aatgttgcagGTGGAATTGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgctaagagcattacttgttgcacagtttataagccttccggtgaatgttgcagGTGGAATTGACCCTCACACGCACCTGGAGATGGAGTTCATGGGCACCGTGACCATAGATGACTTCTTCAGCGGCCATGCTGCGGCACTGGCGGGTGGGAC
agtttataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaattcttactatcccccttgtggtgaatagttgaacaatctgctaagagcattacttgttgcacagtttataagccttccggtgaatgttgcagGTGGAATTGACCCTCACACGCACCTGGAGATGGAGTTCATGGGCACCGTGACCATAGATGACTTCTTCAGCGGCCATGCTGCGGCACTGGCGGGTGGGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC