Sequence
atgc intronic sequence ATGC exonic sequence...acgccttgtgttttgtttatcggttattttgagacaccgcgtgttaatgtgcagtatactgataaatgtttatttgaatgataattatttttttgtgcagGATAAATACATGCAAAACAGACTTGTGAGACTAGTTTGTGTTTTTCTGCAGAGTCTTATCCGAAACAAGATTATAAACG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G098815_T04 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os12g09610.1 (Oryza sativa), 3'ss of exon 9
acgccttgtgttttgtttatcggttattttgagaca---ccgcgtgttaatgtgcagtatactgataaatgtttatttgaatgataattatttttttgtgcagGATAAATACATGCAAAACAGACTTGTGAGACTAGTTTGTGTTTTTCTGCAGAGTCTTATCCGAAACAAGATTATAAACG
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-ctcattgggtgatgggtaatttgcattttgtggctgcctcacttgttaa-atgcgttactttcttgaagttccttcagtatgattatt-ttattatgtgcagGATAAATACATGCAGAACAGGTTGGTGAGACTAGTTTGTGTTTTCCTTCAGTCTCTCATCCGAAACAAGATCATAAACG
upper sequence: GRMZM2G098815_T04 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA02G00750.2 (Glycine max), 3'ss of exon 10
acgccttgtgttttgtttatcggttattttgagac-accgcgtgttaatgtgcagtatactgataaatgtttatttgaatgataattatttttttgtgcagGATAAATACATGCAAAACAGACTTGTGAGACTAGTTTGTGTTTTTCTGCAGAGTCTTATCCGAAACAAGATTATAAACG---------------------
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-tagtaaccatttctctccttgcatttcataagatgactatgctattgcttccccccctccccccataattaacatctctgctttctactttttttctcagGATAAATACATGCAGAACAGGCTTGTGAGACTTGTCTGTGTTTTTCTGCAAAGCCTCATTCGGAACAATATTATTAATGGTGAGTTTACCCAGTTGGACA
upper sequence: GRMZM2G098815_T04 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA10G00610.1 (Glycine max), 3'ss of exon 10
-acgccttgtgttttgtttatcggttattttgagacaccgc-gtgttaatgtgcagtatactgataaatgtttatttgaatgataattatttttttgtgcagGATAAATACATGCAAAACAGACTTGTGAGACTAGTTTGTGTTTTTCTGCAGAGTCTTATCCGAAACAAGATTATAAACG
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aatttagtaaccatttctctctttgcatttcataatatgactatgctattgcttt-tccccccataattaacatctctgatttctactttttttttct-cagGATAAATACATGCAGAACCGGCTTGTGAGACTTGTCTGTGTTTTTCTGCAAAGCCTCATTCGGAACAACATTATTAATG
upper sequence: GRMZM2G098815_T04 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA02G00750.1 (Glycine max), 3'ss of exon 10
acgccttgtgttttgtttatcggttattttgagac-accgcgtgttaatgtgcagtatactgataaatgtttatttgaatgataattatttttttgtgcagGATAAATACATGCAAAACAGACTTGTGAGACTAGTTTGTGTTTTTCTGCAGAGTCTTATCCGAAACAAGATTATAAACG
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-tagtaaccatttctctccttgcatttcataagatgactatgctattgcttccccccctccccccataattaacatctctgctttctactttttttctcagGATAAATACATGCAGAACAGGCTTGTGAGACTTGTCTGTGTTTTTCTGCAAAGCCTCATTCGGAACAATATTATTAATG
upper sequence: GRMZM2G098815_T04 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA10G00610.2 (Glycine max), 3'ss of exon 10
-acgccttgtgttttgtttatcggttattttgagacaccgc-gtgttaatgtgcagtatactgataaatgtttatttgaatgataattatttttttgtgcagGATAAATACATGCAAAACAGACTTGTGAGACTAGTTTGTGTTTTTCTGCAGAGTCTTATCCGAAACAAGATTATAAACG---------------------
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aatttagtaaccatttctctctttgcatttcataatatgactatgctattgcttt-tccccccataattaacatctctgatttctactttttttttct-cagGATAAATACATGCAGAACCGGCTTGTGAGACTTGTCTGTGTTTTTCTGCAAAGCCTCATTCGGAACAACATTATTAATGGTGAGTTTACCCAGTTGGGAC
upper sequence: GRMZM2G098815_T04 (Zea mays), 3'ss of exon 10
lower sequence: Vv07s0130g00310.t01 (Vitis vinifera), 3'ss of exon 10
acgccttgtgttttgtttatcggttat--tttgagacaccgcgtgttaatgtgcagtatactgataaatgtttatttgaatgataattatttt-tttgtgcagGATAAATACATGCAAAACAGACTTGTGAGACTAGTTTGTGTTTTTCTGCAGAGTCTTATCCGAAACAAGATTATAAACG
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---cttcctgttgtagtgggtggttatgtttctggtttgttcatatcagcaaacccagttagggtagaaacatctcaatcttcttcttcctttatctttccagGATAGGTACATGCAGAACAGACTTGTGAGACTTGTATGTGTATTCTTGCAGAGCCTAATTCGAAATAAAATTATTAACGMapped 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|5740633|gb|AI948323.1|AI948323EST: TTGTCCATGAGTACATCGCAAATTGTATCCAATCATGTCAAAACATAAAG GATAAATACATGCAAAACAGACTTGTGAGACTAGTTTGTGTTTTTCTGCAG
genomic: TTGTCCATGAGTACATCACAAATTGTATCCAATCATGTCAAAACATAAAGgtttgttctt ... ttttgtgcagGATAAATACATGCAAAACAGACTTGTGAGACTAGTTTGTGTTTTTCTGCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgtgcagtatactgataaatgtttatttgaatgataattatttttttgtgcagGATAAATACATGCAAAACAGACTTGTGAGACTAGTTTGTGTTTTTCTGCAGAGTCTTATCCGAAACAAGATTATAAACG
tactgat putative branch site (score: 2)
ttattttttt putative PPT
tatactgataaatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acgccttgtgttttgtttatcggttattttgagacaccgcgtgttaatgtgcagtatactgataaatgtttatttgaatgataattatttttttgtgcagGATAAATACATGCAAAACAGACTTGTGAGACTAGTTTGTGTTTTTCTGCAGAGTCTTATCCGAAACAAGATTATAAACG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG