Sequence
atgc intronic sequence ATGC exonic sequencegtaatacctatctttctctgaagatttcttctgcagttgctgctacattatttttataattcaattaattctcccactttaaaagGTATGCTATGAATAAATCTGCTGACTTTGAGACTGTCAGAGAAATAAAAGAGAAGCTATGTTATATAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G342386_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os08g28190.1 (Oryza sativa), 3'ss of exon 7
-----------------------------gtaatacctatctttctctgaagattt---cttctgcagttgct-gctacattatttttataattcaattaattctcccactttaaaagGTATGCTATGAATAAATCTGCTGACTTTGAGACTGTCAGAGAAATAAAAGAGAAGCTATGTTATATAAG
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gtaatactctttatcatttttatatgtttgtag-ataaaagatgctctgaaaacacaggcttatgcaattgtttgcttcagtgtttttcttatcaacttaatt-tcgtgctttaaa-gGTATGCTATGAACAAATCTGCCGACTTTGAAACAGTCCGGGAAATAAAAGAGAAACTATGTTATTTAAG
upper sequence: GRMZM2G342386_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA19G26630.1 (Glycine max), 3'ss of exon 7
gtaatacctatctttctctgaagatttcttctgcagttgctgctacattattt--ttataattcaattaattctcccactttaaaagGTATGCTATGAATAAATCTGCTGACTTTGAGACTGTCAGAGAAATAAAAGAGAAGCTATGTTATATAAG
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gtaggggctaactcctttc----atttcagttgtaatatcttatgtctgcttcaattctaactggaacataattttctttccttaagGTATGCATTAAATAGGACTGCTGATTTTGAGACTGTCAGGGAAATCAAAGAGAAGCTATGCTATATTAG
upper sequence: GRMZM2G342386_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA16G05780.1 (Glycine max), 3'ss of exon 7
gtaatacctatctttctctgaagatttcttctgcagttgctgctacattatttttataattcaattaattctcccactttaaaagGTATGCTATGAATAAATCTGCTGACTTTGAGACTGTCAGAGAAATAAAAGAGAAGCTATGTTATATAAG
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gtagaggctaactcctttcattaaagttgtaatatcttatgtatgcttcaattctaactggaacataatttttcttcctta--agGTATGCACTAAATAGGAATGCTGATTTTGAGACTGTTAGGGAAATCAAAGAGAAGCTATGCTATATAAG
upper sequence: GRMZM2G342386_T02 (Zea mays), 3'ss of exon 7
lower sequence: AT3G27000.1 (Arabidopsis thaliana), 3'ss of exon 7
--gtaatacctatctttctctgaagatttcttctgcagttgctgctacattatttttataattcaattaatt--ctcccactttaaaagGTATGCTATGAATAAATCTGCTGACTTTGAGACTGTCAGAGAAATAAAAGAGAAGCTATGTTATATAAG
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gtgagaaactgattcatagactcacattcattttaatgatgttgagatgtt-ttaaattagctaaactaaaagactgtttgttcaacagATATGCGATGAACAAAACAGCTGACTTTGAGACGGTTAGGGAAATTAAAGAGAAGCTCTGCTATATAAG
upper sequence: GRMZM2G342386_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv14s0068g01630.t01 (Vitis vinifera), 3'ss of exon 7
--------------------------------gtaatacctatctttctctgaagatt--tcttctgcagttgctgctacattatttttataattcaattaattctcccactttaaaagGTATGCTATGAATAAATCTGCTGACTTTGAGACTGTCAGAGAAATAAAAGAGAAGCTATGTTATATAAG
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gtaagtgacaatgtttttgctaaaatatgttactagtttcaatatgactttcactattcatgttcttcaaatgatatttcttt--tctgattgtaacactgaactttctattctaaa-gGTATGCCATGAATCGTACTGCTGATTTTGAGACAGTCAGAGAAATCAAAGAGAAGCTCTGCTATATAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgcagttgctgctacattatttttataattcaattaattctcccactttaaaagGTATGCTATGAATAAATCTGCTGACTTTGAGACTGTCAGAGAAATAAAAGAGAAGCTATGTTATATAAG
aattaat putative branch site (score: 3)
ttctcccacttt CT-rich tract
tacattatttttataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatacctatctttctctgaagatttcttctgcagttgctgctacattatttttataattcaattaattctcccactttaaaagGTATGCTATGAATAAATCTGCTGACTTTGAGACTGTCAGAGAAATAAAAGAGAAGCTATGTTATATAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC