Sequence
atgc intronic sequence ATGC exonic sequencegtttgatggaaacagactctgtggctatccttagttgacgtttacaacgagttctggatttactcgtttcaaccgtgaaagtaactcaccttaagctccacgtgccttgcagTGCTATATCAGGTGGAATTGTTGATAGAGCAATCGAAGCAGAGGACAGGAAGCATGGGGATTTCATGAGGATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G132866_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g06840.2 (Oryza sativa), 3'ss of exon 6
gtttgatggaaacagactctgtggctatccttagttgacgtttacaacgagttctggatttactcgtttcaaccgtgaaag-taactcaccttaagctccacgtgccttgcagTGCTATATCAGGTGGAATTGTTGATAGAGCAATCGAAGCAGAGGACAGGAAGCATGGGGATTTCATGAGGATA
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-------gtacaaagaacgtgttgcatttttcagtactcagtagtcatggttccttattttgattttggtttctgttattgacaaaacaactcactcattccatgtcttccagTGCTATATCAGGTGGAATTGTTGATAGAGCAATTGAAGCAGAGGACAGAAAACATGGTGACTTCATGAGAATT
upper sequence: GRMZM2G132866_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA12G10520.1 (Glycine max), 3'ss of exon 5
gtttgatggaaacagactctgtggctatcc-ttagttga-cgtttacaacgagttctggatttactcgtttcaaccgtgaaagtaactcaccttaagctccacgtgccttgcagTGCTATATCAGGTGGAATTGTTGATAGAGCAATCGAAGCAGAGGACAGGAAGCATGGGGATTTCATGAGGATA
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-------acttattaattgt-tacttatccattaatttatcagtcataactaa---tgaatata-ttacacgaattataaatttgatatgtttttttttctcctt--tatctagTGCTACATCAGGTGGTATTTTAGACAGAGCTATTGAAGCAGAGGACAGAAAGCATGGAGATTTCTTAAGGCTG
upper sequence: GRMZM2G132866_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA06G46230.2 (Glycine max), 3'ss of exon 5
gtttgatggaaacagactctgtggctatccttagttgacgtttacaacgagttctggatttactcgtttcaaccgtgaaagtaactcaccttaagctccacgtgccttgcagTGCTATATCAGGTGGAATTGTTGATAGAGCAATCGAAGCAGAGGACAGGAAGCATGGGGATTTCATGAGGATA
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--ttactgcacacatattactcgtccaa--taatttatcagtcataactaa---tgaatatattagtca-aactataaatttaatatggttttttctcc----tttttctagTGCTACATCAGGTGGTATTCTAGACAGAGCTATTGAAGCAGAGGACAGAAAGCATGGAGATTTCTTGAGGCTG
upper sequence: GRMZM2G132866_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv19s0090g00560.t01 (Vitis vinifera), 3'ss of exon 5
gtttgatggaaacagactctgtggctatccttagttgacgtttacaacgagttctggatttactcgttt-caaccgtgaaagtaactcaccttaag-ctccacgtgccttgcagTGCTATATCAGGTGGAATTGTTGATAGAGCAATCGAAGCAGAGGACAGGAAGCATGGGGATTTCATGAGGATA
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------------taca-tctgta-ctgtcttattatattgtttgcaagttatgatgattacagcggaatataatcttcacatttattgtttctgattctctattctgtataaagTGCTACATCAGGGGGCATTCTTGATAGAGCTATTGAAGCAGAGGACAGAAGGCATGGTGACTTTTTAAGGCTGMapped 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|211309888|gb|FL092753.1|FL092753EST: AAGCTTGAAGAAGAGAAGGGGATCATTATTCGGTTCGTCATTGGCCACAG TGCTATATCAGGTGGAATTGTTGATAGAGCAATCGAAGCAGAGGACAGGAA
genomic: AAGCTTGAAGAAGAGAAGGGGATCATTATTCGGTTCGTCATTGGCCACAGgtttgatgga ... tgccttgcagTGCTATATCAGGTGGAATTGTTGATAGAGCAATCGAAGCAGAGGACAGGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttactcgtttcaaccgtgaaagtaactcaccttaagctccacgtgccttgcagTGCTATATCAGGTGGAATTGTTGATAGAGCAATCGAAGCAGAGGACAGGAAGCATGGGGATTTCATGAGGATA
aactcac putative branch site (score: 2)
aaagtaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgatggaaacagactctgtggctatccttagttgacgtttacaacgagttctggatttactcgtttcaaccgtgaaagtaactcaccttaagctccacgtgccttgcagTGCTATATCAGGTGGAATTGTTGATAGAGCAATCGAAGCAGAGGACAGGAAGCATGGGGATTTCATGAGGATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT