Sequence
atgc intronic sequence ATGC exonic sequencegtatgtattacatactgaccctagtgtttgttctacattgtggatgctcgaaattaactaggtgttctgcatgtctgtagGCGTTGGATAAGATTAGGTTCCTTTCCCTTACTGATAAGGAAGTTTTGGGTGAAGGGGACACTGCAAAGCTTGAGATTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G110574_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA14G40320.4 (Glycine max), 3'ss of exon 3
------------------------gtatgtattacatactgaccctagtgtttg--ttctacattgtggatgctcgaa--attaactag------gtgttctgcatgtctgtagGCGTTGGATAAGATTAGGTTCCTTTCCCTTACTGATAAGGAAGTTTTGGGTGAAGGGGACACTGCAAAGCTTGAGATTCAG
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gtaagcgctttttttttaaaaaaaatat-ttttgtttaaaaatccttgcatttaaattttttatt-tgaattgttgaacgatttgttaatggcgaataatgtgcacat-tctagGCTTTGGACAAGATTAGGTTCCTCTCCCTCACGGATAAGGAGGTGTTGGGAGAAGGTGATAACACCAAGCTTGATATTCAG
upper sequence: GRMZM2G110574_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA17G37820.1 (Glycine max), 3'ss of exon 3
----------------------------------------------------------------gtatgtattacatactgaccc---tagtgtttgttctacattgtg--gatgc-tcgaaattaactaggtgttctgcatgt-ctgtagGCGTTGGATAAGATTAGGTTCCTTTCCCTTACTGATAAGGAAGTTTTGGGTGAAGGGGACACTGCAAAGCTTGAGATTCAG
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tgtaagcgttttttttttattgttatttatttgagttaaaacctacatctattcatatgcttgtttacattttgaaaatccatgcatttaaattttcatccaaactccaacgatgtgttattgttaatgacaaatgatgcttgcattctaGGCTTTGGACAAGATTAGGTTCCTTTCCCTCACGGATAAGGACGTTTTGGGAGAAGGTGATAACACCAAGCTTGATATTCA-
upper sequence: GRMZM2G110574_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT4G24190.2 (Arabidopsis thaliana), 3'ss of exon 3
gtatgta---ttacatac-tgaccctagtg----tttgttctacattgtggatgctcgaaattaactagg---tgttctgcatgtctgtagGCGTTGGATAAGATTAGGTTCCTTTCCCTTACTGATAAGGAAGTTTTGGGTGAAGGGGACACTGCAAAGCTTGAGATTCAG
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gtaagcagcttcgtgtacattgttttagtgagtttttgggatacctcgttaaataggggaactaataagtgtctgtgttggtgattttcagGCCTTGGACAAAATTAGGTTCCTTGCACTCACTGACAAAGACGTTTTGGGTGAAGGTGACACTGCTAAGCTTGAGATCCAG
upper sequence: GRMZM2G110574_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv18s0001g14500.t01 (Vitis vinifera), 3'ss of exon 3
gtatgtattacata--ctgaccctagtgtttgttctacattgtggatgctcgaaattaactaggtgttctgcatgtctgtagGCGTTGGATAAGATTAGGTTCCTTTCCCTTACTGATAAGGAAGTTTTGGGTGAAGGGGACACTGCAAAGCTTGAGATTCAG
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gtaagtattattttgtttgtttctaggaactttctttc--tgaagttgtt----acttaatggtaattctgcttgatttcagGCACTGGATAAGATTAGGTTCCTTTCCCTCACAGATAAGGAGATTTTAGGTGAAGGTGATACTGCAAAGCTTGATATCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttgttctacattgtggatgctcgaaattaactaggtgttctgcatgtctgtagGCGTTGGATAAGATTAGGTTCCTTTCCCTTACTGATAAGGAAGTTTTGGGTGAAGGGGACACTGCAAAGCTTGAGATTCAG
aattaac putative branch site (score: 2)
aaattaacta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtattacatactgaccctagtgtttgttctacattgtggatgctcgaaattaactaggtgttctgcatgtctgtagGCGTTGGATAAGATTAGGTTCCTTTCCCTTACTGATAAGGAAGTTTTGGGTGAAGGGGACACTGCAAAGCTTGAGATTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG