Sequence
atgc intronic sequence ATGC exonic sequence...tggtatgcattcaccttagctcctgcccttacatttttgttgttgtatagatcttcctattttaacaatcattttgctatgccattgtatatccactgtaTACACTTAGGTGGCTATGACAAGGAGGACAAGGCAGCAAGGGCTTACGATTTGGCAGCTCTCAAGTATTGGGGCACTACGACAACAACAAATTTCCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G366434_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g40070.1 (Oryza sativa), 3'ss of exon 3
-------tggtatgcattcaccttagctcctgcccttacatttttgttgttgtatagatcttcctattttaacaatcattttgctatgccattgtatatccactgtaTACACTTAGGTGGCTATGACAAGGAGGACAAGGCAGCAAGGGCTTACGATTTGGCAGCTCTCAAGTATTGGGGCACTACGACAACAACAAATTTCCCT
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tttatcttggtatgcatgca----aacgccttcagtt---tttttttcattgtatata-------actatattagtgactgcacaat--cattatacttgtatcacgactactcagGTGGCTATGACAAGGAGGATAAAGCAGCGAGAGCTTATGATTTGGCAGCTCTGAAGTATTGGGGCACAACAACAACAACAAATTTCCCA
upper sequence: GRMZM2G366434_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA09G38370.1 (Glycine max), 3'ss of exon 1
tggtatgcattcaccttagctcctgcccttacatttttgttgttgtatagatcttcctattttaacaatcattttgctatgccattgtatatccactgtaTACACTT--AGGTGGCTATGACAAGGAGGACAAGGCAGCAAGGGCTTACGATTTGGCAGCTCTCAAGTATTGGGGCACTACGACAACAACAAATTTCCCT
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---------ttaaattataattgtattattattttttttgggccaaaagtaagaagagaacgttaaaatttgtttac-atttggttat-catttgttgtcactacttgcagGTGGTTATGATAAAGAAGAAAAGGCAGCTAGAGCCTACGATTTGGCAGCACTAAAATACTGGGGAACAACCACAACAACAAATTTTCCA
upper sequence: GRMZM2G366434_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv04s0023g00950.t01 (Vitis vinifera), 3'ss of exon 3
tggtatgcattcaccttagctcctgcccttacatttttgttgttgtatagatcttcctattttaacaatcattttgctatgccattgtatatccactgtaTACACTTAGGTGGCTATGACAAGGAGGACAAGGCAGCAAGGGCTTACGATTTGGCAGCTCTCAAGTATTGGGGCACTACGACAACAACAAATTTCCCT
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----ttgttttctctttttattcttttatcaaacctatatttccgttcagatttcttaactaccactgttgtttt-ctttgtttttgtttttgt----ttttcccatagGTGGTTATGACAAAGAAGAAAAGGCAGCTAGGGCTTACGATTTAGCAGCACTGAAGTATTGGGGTACCACCACCACAACAAATTTCCCT
upper sequence: GRMZM2G366434_T01 (Zea mays), 3'ss of exon 3
lower sequence: EFJ17692 (Selaginella moellendorffii), 3'ss of exon 1
---tggtatgcattcaccttagctcctgcccttacatttttgttgttgtatagatcttcctattttaacaatcattttgctatgccattgtatatccactgtaTACACTTAGGTGGCTATGACAAGGAGGACAAGGCAGCAAGGGCTTACGATTTGGCAGCTCTCAAGTATTGGGGCACTACGACAACAACAAATTTCCCT
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tcctccagtgtacttaggtgagtaat--ctatcgaatttttctcgat-tgtggagctaaac-ttttggtggttttcttttctttttttcttgcgttt--------tgcgtagGGGGGTATGATGCGGAGGAGAAGGCAGCAAGAGCTTACGATCTGGCAGCTCTCAAGTACTGGGGGCCTACGACAACTACAAACTTTCCG
upper sequence: GRMZM2G366434_T01 (Zea mays), 3'ss of exon 3
lower sequence: EFJ16224 (Selaginella moellendorffii), 3'ss of exon 1
---------------------------------------------------------------------------tggt--atgcattcaccttagctcctg-cccttacatttttgttgttgtatag---atcttccta--ttttaacaatcattttgctatgccattgtatatccactgtaTACACT---TAGGTGGCTATGACAAGGAGGACAAGGCAGCAAGGGCTTACGATTTGGCAGCTCTCAAGTATTGGGGCACTACGACAACAACAAATTTCCCT
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gtactgcttaaaagttttgagagttttttttcatggttttttttctctcttgggtgatttttccgtccttggatctggatggtgtttttggtgtggtacttgatccatcctccagtgtacttaggtgagtaatctatcgaatttttctcgattgtggagctaaacttttggtggttttctttgcgttttgcgtagGGGGATATGATGCGGAGGAGAAGGCAGCAAGAGCTTACGATCTGGCAGCTCTCAAGTACTGGGGGCCTACGACAACTACAAACTTTCCGMapped 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|148996173|gb|EE035443.2|EE035443EST: ATGGGATAATAGTTGTAGAAGGGAAGGGCAGAGTCGCAAGGGTAGGCAAG T
genomic: ATGGGATAATAGTTGTAGAAGGGAAGGGCAGAGTCGCAAGGGTAGGCAAGgtaatgaaac ... atccactgta-
EST:
gi|148996173|gb|EE035443.2|EE035443EST: ATGGGATAATAGTTGTAGAAGGGAAGGGCAGAGTCGCAAGGGTAGGCAAG T
genomic: ATGGGATAATAGTTGTAGAAGGGAAGGGCAGAGTCGCAAGGGTAGGCAAGgtaatgaaac ... atccactgta-
EST:
gi|148996173|gb|EE035443.2|EE035443EST: ATGGGATAATAGTTGTAGAAGGGAAGGGCAGAGTCGCAAGGGTAGGCAAG T
genomic: ATGGGATAATAGTTGTAGAAGGGAAGGGCAGAGTCGCAAGGGTAGGCAAGgtaatgaaac ... atccactgta-
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatagatcttcctattttaacaatcattttgctatgccattgtatatccactgtaTACACTTAGGTGGCTATGACAAGGAGGACAAGGCAGCAAGGGCTTACGATTTGGCAGCTCTCAAGTATTGGGGCACTACGACAACAACAAATTTCCCT
ttttaac putative branch site (score: 2)
tattttaacaatcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggtatgcattcaccttagctcctgcccttacatttttgttgttgtatagatcttcctattttaacaatcattttgctatgccattgtatatccactgtaTACACTTAGGTGGCTATGACAAGGAGGACAAGGCAGCAAGGGCTTACGATTTGGCAGCTCTCAAGTATTGGGGCACTACGACAACAACAAATTTCCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - -tgcattc
- - - - - - - - - gctcctg
- - - - - - - - - - - - - - -tacattt
- - - - - - - - - - - - - - - - - - -tgttgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttttgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgccatt