Sequence
atgc intronic sequence ATGC exonic sequence...tgtttttgttgctatgcttagcagaaaaattctgcatttagattgcatgttctgtctcagtgtctcctgtccccatgcatcattctgttttgcttttcagCCCTCGCTGGTTGCTGAAGCAAGAGGTCCAAAAGTTGTCAAGTCTATCAACAGGCAGTTACGTGAAAAATCAATCAAGACAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G053644_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os02g07120.1 (Oryza sativa), 3'ss of exon 11
-----------------------------------------------------tgtttttgttgctatgc-ttagcagaaaaattctgcatttagattgcatgttctgtctcagt--gtctcctgtccccatgc-atcattctgttttgcttttcagCCCTCGCTGGTTGCTGAAGCAAGAGGT-CCAAAAGTTGTCAAGTCTATCAACAGGCAGTTACGTGAAAAATCAATCAAGACAAAG
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gcaagtctattgtgctcttatgtgcatcattattttcaacttctccaagttatagcatcttatgcagtttattggtgaaatacttttacatgcttgaagttgatcctaccatgtttagagcactgagcccatgttggcaatcc-ttttgcttttcagCCCTAGATGGTTGCTGAAACAAGAAGTACCTAAGGTTGTCAAATCCATCAATAGGCAGTTGCGTGAAAAATCAATCAAGACAAAG
upper sequence: GRMZM2G053644_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os02g07340.1 (Oryza sativa), 3'ss of exon 8
-----------------------------------tgtttttgttgctatgc-ttagcagaaaaattctgcatttagattgcatgttctgtctcagt--gtctcctgtccccatgc-atcattctgttttgcttttcagCCCTCGCTGGTTGCTGAAGCAAGAGGT-CCAAAAGTTGTCAAGTCTATCAACAGGCAGTTACGTGAAAAATCAATCAAGACAAAG
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tatttgcatcattattttcaacttttccaagttatagcatcttatgcagtttattggtgaaatacttttacatgcttgaagttgattctaccatgtttagAGCACTGAGCCTATGTTGGCAATCC-TTTTGCTTTTCAGCCCTAGATGGTTGCTGAAACAAGAAGTACCTAAGGTTGTCAAATCCATCAATAGGCAGTTGC-----------------------
upper sequence: GRMZM2G053644_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA07G40230.2 (Glycine max), 3'ss of exon 12
----tgtttttgttgctatgcttagcagaaaaattctgcattta-gattgcatgttctgtctcagtgtctcctgtccccatgcatcattctgttttgcttttcagCCCTCGCTGGTTGCTGAAGCAAGAGGT-CCAAAAGTTGTCAAGTCTATCAACAGGCAGTTACGTGAAAAATCAATCAAGACAAAG
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tggctatcacttcagcttttccta-tagttaagcccaggttttacaataacacataaaatg-cagcaattattgactgc---cttagcactgacatgcaatgcagTCCTCGATGGTTGTTGAAGCAAGAAGTGTCGAAGATTGTCAAATCTATAAATAGGCAGTTGCGTGAGAAATCTATCAAGACAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgttctgtctcagtgtctcctgtccccatgcatcattctgttttgcttttcagCCCTCGCTGGTTGCTGAAGCAAGAGGTCCAAAAGTTGTCAAGTCTATCAACAGGCAGTTACGTGAAAAATCAATCAAGACAAAG
ttctgttttgcttttc CT-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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtttttgttgctatgcttagcagaaaaattctgcatttagattgcatgttctgtctcagtgtctcctgtccccatgcatcattctgttttgcttttcagCCCTCGCTGGTTGCTGAAGCAAGAGGTCCAAAAGTTGTCAAGTCTATCAACAGGCAGTTACGTGAAAAATCAATCAAGACAAAG
- - - tgttgct
- - - - - - -atgctta
- - - - - - - - - - - agaaaaa
- - - - - - - - - - - - - - - -ctgcatt
- - - - - - - - - - - - - - - - - - - - - -tgcatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atgcatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tctgttt