Sequence
atgc intronic sequence ATGC exonic sequencegtgagcccgatcgaacgagctagcacaccatgcgtgcgccgcccgtaattgtgcgcaggcaaacaatgcgtttctcctgcaggcggtaggtaatccatcttgatctgtggactgaaacgcggccggcgggcttgaaattctggcagGATCCTTGCCAACCGGCAGTCGGCTCAGAGGTCGCGGGTGAGGAAGCTGCAGTACATCTCCGAGCTCGAGCGCAGCGTCACAACACTGCAGGTACGTATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G170079_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g55150.1 (Oryza sativa), 3'ss of exon 1
gtgagcccgatcgaacgagctagcacaccatgcgtgcgccgcccgtaattgtgcgcaggcaaacaatgcgtttctcctgcaggcggtaggtaatccatcttgatctgtggactgaaacgcggccggcgggcttgaaattctggcagGATCCTTGCCAACCGGCAGTCGGCTCAGAGGTCGCGGGTGAGGAAGCTGCAGTACATCTCCGAGCTCGAGCGCAGCGTCACAACACTGCAGGTACGTATA
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------gtaagcgagcgaacgcgcccggt-tgggcactgcgtccatgcatgcatctagtgatcaattacaaatcactttacgacactataaattcc---tcgattaatt------accgtgttctcttctttggaaatgtcttcagGATACTGGCTAATCGGCAGTCGGCCCAGAGGTCGCGAGTGAGGAAGCTTCAGTACATCTCCGAGCTCGAGCGCAGCGTCACAACCCTGCAG---------
upper sequence: GRMZM2G170079_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv19s0014g01780.t01 (Vitis vinifera), 3'ss of exon 1
gtgagcccgatcgaacgagctagcacaccatgcgtgcgccgcccgtaattg----tgcgcaggcaaacaatgcgtttctcctgcag-gcggtaggtaatccatcttgatctgtggactgaaacgcggccggcgggcttgaaattctggcagGATCCTTGCCAACCGGCAGTCGGCTCAGAGGTCGCGGGTGAGGAAGCTGCAGTACATCTCCGAGCTCGAGCGCAGCGTCACAACACTGCAGGTACGTATA
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---------------------------------------tattcttaattagcattaagcaattatacaatggattattgtatcgccgaagctcataatcaaaattatatttc--atcaactcttttttggtggtctt----------cagAATTTTGGCAAACCGGCAATCAGCTCAGAGGTCAAGGGTGAGGAAGCTACAATACATTTCAGAGCTTGAGCGGAGCGTAACATCTTTACAA--------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatccatcttgatctgtggactgaaacgcggccggcgggcttgaaattctggcagGATCCTTGCCAACCGGCAGTCGGCTCAGAGGTCGCGGGTGAGGAAGCTGCAGTACATCTCCGAGCTCGAGCGCAGCGTCACAACACTGCAGGTACGTATA
tcttgat putative branch site (score: 4)
ttgaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagcccgatcgaacgagctagcacaccatgcgtgcgccgcccgtaattgtgcgcaggcaaacaatgcgtttctcctgcaggcggtaggtaatccatcttgatctgtggactgaaacgcggccggcgggcttgaaattctggcagGATCCTTGCCAACCGGCAGTCGGCTCAGAGGTCGCGGGTGAGGAAGCTGCAGTACATCTCCGAGCTCGAGCGCAGCGTCACAACACTGCAGGTACGTATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG