Sequence
atgc intronic sequence ATGC exonic sequencegtgagaattgagatatgttggctacattgtgtgtctacaataatctacttttgtgcatagtcctttgaagtcaaacctcaagagtagtaaattacgactatggtgtgtattgctgaacattatcaatcaggcttacactatctaccctatctttgtgcagTGCTGGAATTTCAATAGGCAGTGAGATGTCTGGCGGAGTTGCAAATGTTACTGTGGAGAATGTGCGCATCTGGGAATCAAGGAGAGGTGTGAGGATAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G348602_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g54030.1 (Oryza sativa), 3'ss of exon 2
gtgagaattgagatatgtt-ggctacattg-tgtgtctacaataatct-----acttttgtgcatagtcct--ttgaagtcaaacctcaagag--------tagtaaattacgacta----------tggtgtgtattg----ctgaacattatcaatcaggcttacactatctaccctatctttgtgcagTGCTGGAATTTCAATAGGCAGTGAGATGTCTGGCGGAGTTGCAAATGTTACTGTGGAGAATGTGCGCATCTGGGAATCAAGGAGAGGTGTGAGGATAAAG
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gtaacagttgagtcatttttggctgcattgcttcatctaaaatatttctttgcatatctttttcaaatcctgctcaagataaaatggtatgagaaagaaactattaaattaggattaacttttaagttcttttgaattgaatatagagtattacaggtaaggtttacaacagttgtcttgg-tgtgtgcagTGCTGGAATTTCAATTGGCAGTGAGATGTCTGGTGGGATTGCAAATGTTACAGTGGAGGATGTCCGCATTTGGGAGTCACGGCGAGGTTTGAGAATAAAG
upper sequence: GRMZM2G348602_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA17G05550.1 (Glycine max), 3'ss of exon 4
gtgagaattgagatatgttggctacattgtgtgtctacaataatctacttttgtgcatagtcctttgaagtcaaacctcaagagtagtaaattacgactatggtgtgtattgctgaacattatcaatcaggcttacactatctaccctatctttgtgcagTGCTGGAATTTCAATAGGCAGTGAGATGTCTGGCGGAGTTGCAAATGTTACTGTGGAGAATGTGCGCATCTGGGAATCAAGGAGAGGTGTGAGGATAAAG
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-------------------------------------------------------gttaaattttgacagcttcatatcag--tttgtgtctgtctatctcatcatgtattgg-ggtcttcat--atcttaatgattttattttttatcaaatggaacagTGCTGGCATCTCAATAGGCAGTGAAATGTCTGGCGGGGTATCCAATGTCACGGTGGAGAATCTTCTTATATGGGATTCTAGGCGCGGTGTGAGGATCAAG
upper sequence: GRMZM2G348602_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA13G17170.1 (Glycine max), 3'ss of exon 4
gtgagaattgagatatgttggctacattgtgtgtctacaataatctacttttgtgcatagtcctttgaagtcaaacctcaagagtagtaaattacgactatggtgtgtattgctgaacattatcaatcaggcttacactatctaccctatct----ttgtgcagTGCTGGAATTTCAATAGGCAGTGAGATGTCTGGCGGAGTTGCAAATGTTACTGTGGAGAATGTGCGCATCTGGGAATCAAGGAGAGGTGTGAGGATAAAG
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---------------------------------------------------------------gttaaattttgacagcttca-tatcagtttgtgtctgtctgtcttatcatttattggggtcttcatatcttaaatgattttatttttatcaaatggaacagTGCTGGCATCTCAATAGGCAGTGAGATGTCTGGCGGGGTATCCAACGTCATGGTGGAGAATATTCTTATATGGGATTCTAGGCGTGGTGTGAGGATCAAG
upper sequence: GRMZM2G348602_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA15G19820.1 (Glycine max), 3'ss of exon 4
gtgagaattgagatatgttggctacattgtgtgtctacaataatctacttttgtgcatagtcctttgaagtcaaacctcaagagtagtaaattacg-actatggtgtgtattgctgaacattatcaatcaggcttacactatctaccctatctttgtgcagTGCTGGAATTTCAATAGGCAGTGAGATGTCTGGCGGAGTTGCAAATGTTACTGTGGAGAATGTGCGCATCTGGGAATCAAGGAGAGGTGTGAGGATAAAG
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--------------------------------------------------------ctagttaac--aacttgatattcattagtgtcttcccatgtgctaaagtcttcacattgtaataatttaacttgggacttttgtttgtatgagatgca---acagTGCTGGCATCTCAATAGGCAGTGAGATGTCTGGTGGGGTATCCAATGTCCTGGTGGAGAACATTCTTGTATGGGAATCAAGGCGTGCCATGAGAATCAAG
upper sequence: GRMZM2G348602_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA09G08270.1 (Glycine max), 3'ss of exon 4
gtgagaattgagatatgttggctacattgtgtgtctacaataatctacttttgtgcatagtcctttgaagtcaaacctcaagagtagtaaattacgactatggtgtgtattgctgaacattatcaatcaggcttac-actatctaccctatct--ttgtgcagTGCTGGAATTTCAATAGGCAGTGAGATGTCTGGCGGAGTTGCAAATGTTACTGTGGAGAATGTGCGCATCTGGGAATCAAGGAGAGGTGTGAGGATAAAG
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-------------------------------------------------------------attgcatattcgttactcattagtactaacttccca-tgtgctgag-gtcttcacattttaataatttaacttaggacttttctttgtgtgaaatgcaacagTGCTGGCATCTCAATAGGCAGTGAGATGTCTGGTGGGGTATCCAACGTCCTGGTGGAGAACATTCTTGTATGGGAATCAAGGCGTGCCATGAGAATCAAGMapped 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|94473219|gb|EB702177.1|EB702177EST: CCATCTTCTGACATTTTAATTCGCAATGTAACCGCCCGTTCTCTTGTGAG TGCTGGAATTTCAATAGGCAGTGAGATGTCTGGCGGAGTTGCAAATGTTAC
genomic: CCATCTTCTGACATTTTAATTCGCAATGTAACCGCCCGTTCTCTTGTGAGgtgagaattg ... ctttgtgcagTGCTGGAATTTCAATAGGCAGTGAGATGTCTGGCGGAGTTGCAAATGTTAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtattgctgaacattatcaatcaggcttacactatctaccctatctttgtgcagTGCTGGAATTTCAATAGGCAGTGAGATGTCTGGCGGAGTTGCAAATGTTACTGTGGAGAATGTGCGCATCTGGGAATCAAGGAGAGGTGTGAGGATAAAG
ggcttac putative branch site (score: 3)
tctaccctatcttt putative PPT
attatcaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagaattgagatatgttggctacattgtgtgtctacaataatctacttttgtgcatagtcctttgaagtcaaacctcaagagtagtaaattacgactatggtgtgtattgctgaacattatcaatcaggcttacactatctaccctatctttgtgcagTGCTGGAATTTCAATAGGCAGTGAGATGTCTGGCGGAGTTGCAAATGTTACTGTGGAGAATGTGCGCATCTGGGAATCAAGGAGAGGTGTGAGGATAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT