Sequence
atgc intronic sequence ATGC exonic sequence...ctttgttcatccattttatggtgtaactgaccttttccctaataacatgatgccccattctgtatgatggataacgtatttttttttgggggggcatcagATATTGGACTTCCATCTGGAAAGTCACTTTTCCAACTCCAAGCTGAACGGATCTTGTGCGTTCAGAAGCTGGCTGCTCAATCCAGTGAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G019986_T04 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os04g52370.1 (Oryza sativa), 3'ss of exon 4
---ctttgttcatccattttatggtgtaactgaccttttccctaataacatg-atgccc-cattctgtatgatggataacgtatttttttttgggggggcatcagATATTGGACTTCCATCTGGAAAGTCACTTTTCCAACTCCAAGCTGAACGGATCTTGTGCGTTCAGAAGCTGGCTGCTCAATCCAGTGAAA
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agtgtggaattgctcagttgctcttttcgataattcttggtccaactctgtctatgtatatatcatggcttatttttaacctcttatttct-----gccctttagGTATCGGACTTCCGTCTGGAAAGTCGCTTTTCCAACTCCAAGCTGAACGGATTTTGTGTGTTCAAAAGCTTGCTGCTCAATCAAGTGATA
upper sequence: GRMZM2G019986_T04 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os04g52370.2 (Oryza sativa), 3'ss of exon 4
---ctttgttcatccattttatggtgtaactgaccttttccctaataacatg-atgc-cccattctgtatgatggataacgtatttttttttgggggggcatcagATATTGGACTTCCATCTGGAAAGTCACTTTTCCAACTCCAAGCTGAACGGATCTTGTGCGTTCAGAAGCTGGCTGCTCAATCCAGTGAAA
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agtgtggaattgctcagttgctcttttcgataattcttggtccaactctgtctatgtatatatcatggcttatttttaacctcttatttct-----gccctttagGTATCGGACTTCCGTCTGGAAAGTCGCTTTTCCAACTCCAAGCTGAACGGATTTTGTGTGTTCAAAAGCTTGCTGCTCAATCAA------
upper sequence: GRMZM2G019986_T04 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA05G26240.1 (Glycine max), 3'ss of exon 4
ctttgttcatccattttatggtgtaactgaccttttccc-taataacatgatgccccattc--tgtatgatggataacgtatttttttttgggggggcatc--agATATTGGACTTCCATCTGGAAAGTCACTTTTCCAACTCCAAGCTGAACGGATCTTGTGCGTTCAGAAGCTGGCTGCTCAATCCA---GTGAAA
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-----tctaagtaagttgtggtatttttgtcattttaatgtgctttgagggtaaatcatgaaatacatcttttttattgtattattatattatattatattttagATATTGGACTTCCATCTGGAAAATCACTTTTTCAACTTCAAGCTGAGAGGATTTTGTGTGCACAGAGACTAGCTGCTCAAGCTACAAATGAGA
upper sequence: GRMZM2G019986_T04 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA08G09170.2 (Glycine max), 3'ss of exon 5
ctttgttcatccattttatggtgtaactgaccttttccctaataacatgatgccccattctgtatgatggata-acgtatttttttttgggggggcatc--agATATTGGACTTCCATCTGGAAAGTCACTTTTCCAACTCCAAGCTGAACGGATCTTGTGCGTTCAGAAGCTGGCTGCTCAATCCA---GTGAAA
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-tatgtctaagtaagttgtggtatttttgtcattttaat--gtgctttgagggtaaatcatgaaatatatctttatgtattattatattatattatattttagATATTGGACTTCCATCTGGAAAATCACTTTTTCAACTTCAAGCTGAGAGGATTTTGTGTGCACAGAGACTAGCTGCTCAAGCTACAAATGAGA
upper sequence: GRMZM2G019986_T04 (Zea mays), 3'ss of exon 4
lower sequence: Vv00s1959g00010.t01 (Vitis vinifera), 3'ss of exon 1
-------ctttgttcatccattttatggtgtaactgaccttttccctaataacatgatgccccattctgtatgatggataacgtatttttttttgggggggcatcagATATTGGACTTCCATCTGGAAAGTCACTTTTCCAACTCCAAGCTGAACGGATCTTGTGCGTTCAGAAGCTGGCTGCTCAATCCAGTGAAA---
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attcagtccatgtttgttgaatttatagaggtggtt-tttattttcagataat-tgttcctcaaattcttctgtttatttgtgtacgcctatttca-----tgtcagATATTGGACTTCCATCAGGAAAGTCACTCTTTCAACTTCAAGCTGAACGAATTTTGTGTGTTCAAAGACTTGCTGCTCAATCTACAAATGAGG
upper sequence: GRMZM2G019986_T04 (Zea mays), 3'ss of exon 4
lower sequence: Vv01s0011g01420.t01 (Vitis vinifera), 3'ss of exon 4
--------ctttgttcatccattttatggtgtaactgaccttttccctaataacatgatgccccattctgtatgatggataacgtatttttttttgggggggcatcagATATTGGACTTCCATCTGGAAAGTCACTTTTCCAACTCCAAGCTGAACGGATCTTGTGCGTTCAGAAGCTGGCTGCTCAATCCAGTGAAA---
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nnntcagtccatgtttgttgaatttatagaggtggtt-tttattttcagataat-tgttcctcaaattcttctgtttatttgtgtacgctatttca------tgtcagATATTGGACTTCCATCAGGAAAGTCACTCTTTCAACTTCAAGCTGAACGAATTTTGTGTGTTCAAAGACTTGCTGCTCAATCTACAAATGAGGMapped 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|148950927|gb|EC896559.2|EC896559EST: GGTACTCGTCTGGGAAGCTCAGATCCTAAGGGATGTTTCA ATATTGGACTTCCATCTGGAAAGTCACTTTTCCAACTCCAAGCTGAACGGA
genomic: GGTACTCGTCTGGGAAGCTCAGATCCTAAGGGATGTTTCAgtaagttgct ... ggggcatcagATATTGGACTTCCATCTGGAAAGTCACTTTTCCAACTCCAAGCTGAACGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgatgccccattctgtatgatggataacgtatttttttttgggggggcatcagATATTGGACTTCCATCTGGAAAGTCACTTTTCCAACTCCAAGCTGAACGGATCTTGTGCGTTCAGAAGCTGGCTGCTCAATCCAGTGAAA
ggataac putative branch site (score: 3)
ataacgtatttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctttgttcatccattttatggtgtaactgaccttttccctaataacatgatgccccattctgtatgatggataacgtatttttttttgggggggcatcagATATTGGACTTCCATCTGGAAAGTCACTTTTCCAACTCCAAGCTGAACGGATCTTGTGCGTTCAGAAGCTGGCTGCTCAATCCAGTGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT