Sequence
atgc intronic sequence ATGC exonic sequence...tgcatctgttctcatttggattctgtaatattggttattctttatgcattggtattttgtatgatacttcattttctctaaatccatgccattaatgcagTTTGAACCAGAATCTTCTAGTGCCATGGGGTTTGGCTTCAGATGTGGGTTCCTTGGTCTTCTCCATATGGAAATAGTTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G003157_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g06300.1 (Oryza sativa), 3'ss of exon 12
tgcatctgttctcatttggattctgtaatattggttattctttatgcattg-gtattttgtatgatacttcattttctctaaatccat-------gccattaatgcagTTTGAACCAGAATCTTCTAGTGCCATGGGGTTTGGCTTCAGATGTGGGTTCCTTGGTCTTCTCCATATGGAAATAGTTCAG
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------agatgccaaattgccaatgttg-attggtgactaatta-gcattgtgcattgcatttctcatctttgcttttctaaaggcagtaacaaggttttcaatgcagTTTGAACCAGAATCTTCAAGTGCCATGGGTTTTGGCTTCAGATGTGGATTTCTCGGTCTTCTTCATATGGAGATTGTGCAG
upper sequence: GRMZM2G003157_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA06G16700.1 (Glycine max), 3'ss of exon 12
tgcatctgttctcatttggattctgtaatattggttattctttatgcattggtattttgtatgatacttcattt-----tctctaaatccatgccattaatgcagTTTGAACCAGAATCTTCTAGTGCCATGGGGTTTGGCTTCAGATGTGGGTTCCTTGGTCTTCTCCATATGGAAATAGTTCAG
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----tttttttttcctaaatatccatgtttcttacagtcaagctgacaatggtaggattagtgactgattattcgaagatttcattatcttttctggtt-tacagTTTGAACCTGAGACATCAAGTGCCATGGGATTTGGCTTTAGATGTGGGTTTCTGGGCCTTCTTCATATGGAAATTGTTCAG
upper sequence: GRMZM2G003157_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA04G38360.1 (Glycine max), 3'ss of exon 12
tgcatctgttctcatttggattctgtaatattggttattctttatgcattggtattt-tgtatgatacttcattttctctaaatccatgccattaatgcagTTTGAACCAGAATCTTCTAGTGCCATGGGGTTTGGCTTCAGATGTGGGTTCCTTGGTCTTCTCCATATGGAAATAGTTCAG
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-gtttttttccttaaatatccatgtttcttacagtcaagctgacaatggtggggttagtgattaattattcaaagatttcattctcttttctggtttacagTTTGAACCTGAGACATCGAGTGCCATGGGATTTGGCTTTAGATGTGGGTTTCTGGGCCTTCTTCATATGGAAATTGTTCAG
upper sequence: GRMZM2G003157_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA04G33480.1 (Glycine max), 3'ss of exon 6
tgcatctgttctcatttggattctgtaatattggttattctttatgcattggtattt-tgtatgatacttcattttctctaaatccatgccattaatgcagTTTGAACCAGAATCTTCTAGTGCCATGGGGTTTGGCTTCAGATGTGGGTTCCTTGGTCTTCTCCATATGGAAATAGTTCAG
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-gtttttttccttaaatatccatgtttcttatagtcaaactgacaatggtggggttagtgattaattattcaaagatttcattcttttttctggtttacagTTTGAACCTGAGACATCGAGTGCCATGGGATTTGGCTTTATATGTGGGTTTCTGGGCCTTCTTCATATGGAAATTGTTCAG
upper sequence: GRMZM2G003157_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT5G08650.1 (Arabidopsis thaliana), 3'ss of exon 12
tgcatctgttctcatttggattctgtaatattggtt---attctttatgcattggtattttgtatgatacttcattt-tctctaaatccatgccattaatgcagTTTGAACCAGAATCTTCTAGTGCCATGGGGTTTGGCTTCAGATGTGGGTTCCTTGGTCTTCTCCATATGGAAATAGTTCAG
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---atgtatctttgttaaaaatattcacatttggtctaaggagcgtatacgttagcatta-acatatctataggtttgtcctcaacttggtttttatcctgcagTTTGAGCCTGAAACTTCGAGTGCCATGGGATTTGGCTTTAGATGCGGGTTTTTGGGTCTTCTCCACATGGAAATTGTGCAG
upper sequence: GRMZM2G003157_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 12
---tgcatctgttctcatttggattctgtaatattggttattctttatgcattggtattttgtatgatacttcattttctctaaatccatgccattaatgcagTTTGAACCAGAATCTTCTAGTGCCATGGGGTTTGGCTTCAGATGTGGGTTCCTTGGTCTTCTCCATATGGAAATAGTTCAG
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ctattgtttggttgtaataagggcgtagttttaatggta--tatgcagatcttggttacttgc-taaagaattgtgctcccttcttcaatgtccattttgcagTTTGAGCCTGAGACATCCAGTGCCATGGGCTTTGGCTTTAGGTGTGGGTTCTTGGGTCTTCTCCATATGGAAATCATTCAGMapped 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|93282528|gb|EB674792.1|EB674792EST: AGTTGCGGGAAGCGCTGGAAAAACTTCAGCTAAATGATGCTGCCCTAAAG TTTGAACCAGAATCTTCTAGTGCCATGGGGTTTGGCTTCAGATGTGGGTTC
genomic: AGTTGCGGGAAGCGCTGGAAAAACTTCAGCTAAATGATGCTGCCCTAAAGgtggggtttc ... attaatgcagTTTGAACCAGAATCTTCTAGTGCCATGGGGTTTGGCTTCAGATGTGGGTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcattggtattttgtatgatacttcattttctctaaatccatgccattaatgcagTTTGAACCAGAATCTTCTAGTGCCATGGGGTTTGGCTTCAGATGTGGGTTCCTTGGTCTTCTCCATATGGAAATAGTTCAG
cattaat putative branch site (score: 3)
tattttgtatgata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcatctgttctcatttggattctgtaatattggttattctttatgcattggtattttgtatgatacttcattttctctaaatccatgccattaatgcagTTTGAACCAGAATCTTCTAGTGCCATGGGGTTTGGCTTCAGATGTGGGTTCCTTGGTCTTCTCCATATGGAAATAGTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
-gcatctg
- - - - - -tcatttg
- - - - - - - - - gattctg
- - - - - - - - - - - - - - - - - - - - - -atgcatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgtatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tccatgc