Sequence
atgc intronic sequence ATGC exonic sequencegtatgtattacatctgacccctgtgtttgttctgcattgtggatgctcgaaattaactgggtgttctgcatgtctgtagGCGTTGGATAAGATTAGGTTCCTTTCCCTTACTGATAAGGAAGTTCTGGGTGAAGGGGACACTGCAAAGCTTGAGATTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G141931_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os06g50300.1 (Oryza sativa), 3'ss of exon 3
---------------gtatgtattacatctgacccctgtgtttgttctgcatt----gtggatgctcgaaattaactgggtg--ttctgcatgtctgtagGCGTTGGATAAGATTAGGTTCCTTTCCCTTACTGATAAGGAAGTTCTGGGTGAAGGGGACACTGCAAAGCTTGAGATTCAG
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attcctatgaaattcccgggaaaagcctccaatccaaatgagcccttaaggttattagtagatgctaggaatttaatgtgtgctttttttttatgtgtagGCTTTGGACAAGATTAGGTTCCTGGCTCTCACTGATAAGGAGGTTTTGGGCGAAGGTGACACTGCTAAGCTTGAAATCCAG
upper sequence: GRMZM2G141931_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA17G37820.1 (Glycine max), 3'ss of exon 3
----------------------------------------------------------gtatgtattacatct----gacccctgtgtttgt-tctgcattgtg--------gatgc-tcgaaattaactgggtgttctgcatgt-ctgtagGCGTTGGATAAGATTAGGTTCCTTTCCCTTACTGATAAGGAAGTTCTGGGTGAAGGGGACACTGCAAAGCTTGAGATTCAG
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tgtaagcgttttttttttattgttatttatttgagttaaaacctacatctattcatatgcttgt-ttacattttgaaaatccatgcatttaaattttcatccaaactccaacgatgtgttattgttaatgacaaatgatgcttgcattctaGGCTTTGGACAAGATTAGGTTCCTTTCCCTCACGGATAAGGACGTTTTGGGAGAAGGTGATAACACCAAGCTTGATATTCA-
upper sequence: GRMZM2G141931_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT4G24190.2 (Arabidopsis thaliana), 3'ss of exon 3
------------gtatgtattacatctgacccctgtgtttgttctgcattgtggatgctcgaaattaactgggtgttctgcatgtctgtagGCGTTGGATAAGATTAGGTTCCTTTCCCTTACTGATAAGGAAGTTCTGGGTGAAGGGGACACTGCAAAGCTTGAGATTCAG
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gtaagcagcttcgtgtacattgttttagtgagtttttgggatacctcgttaaataggggaactaataagtgtctgtgttggtgattttcagGCCTTGGACAAAATTAGGTTCCTTGCACTCACTGACAAAGACGTTTTGGGTGAAGGTGACACTGCTAAGCTTGAGATCCAG
upper sequence: GRMZM2G141931_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv18s0001g14500.t01 (Vitis vinifera), 3'ss of exon 3
gtatgtattacatctgacccctgtgtttgttctgcattgtggatgctcgaaattaactgggtgttctgcatgtctgtagGCGTTGGATAAGATTAGGTTCCTTTCCCTTACTGATAAGGAAGTTCTGGGTGAAGGGGACACTGCAAAGCTTGAGATTCAG
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gtaagtatta--ttttgtttgtttctaggaactttctttctgaagttgttacttaa-tggtaattctgcttgatttcagGCACTGGATAAGATTAGGTTCCTTTCCCTCACAGATAAGGAGATTTTAGGTGAAGGTGATACTGCAAAGCTTGATATCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttgttctgcattgtggatgctcgaaattaactgggtgttctgcatgtctgtagGCGTTGGATAAGATTAGGTTCCTTTCCCTTACTGATAAGGAAGTTCTGGGTGAAGGGGACACTGCAAAGCTTGAGATTCAG
aattaac putative branch site (score: 2)
aaattaact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtattacatctgacccctgtgtttgttctgcattgtggatgctcgaaattaactgggtgttctgcatgtctgtagGCGTTGGATAAGATTAGGTTCCTTTCCCTTACTGATAAGGAAGTTCTGGGTGAAGGGGACACTGCAAAGCTTGAGATTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG