Sequence
atgc intronic sequence ATGC exonic sequencegtatgttatgtatctgcctcgctcgctcgctcgctcatcaaatacggtctctttgtttcttctggacgccgacgtgcgcaaggctaagtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgttttgaatggtttcgtgcagCGTGGTGGTACCGGCCGGAGTACATAATAAACGAGCTCAACATCAACTCGGTGATCACCACGCCGGGACACGACGAGGTGCTGCCCATCAACGCCCTGAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G428027_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g53130.1 (Oryza sativa), 3'ss of exon 1
gtatgttatgtatctgcctcgctcgctcgctcgctcatcaaatacggtctctttgtttcttctggacgccgacgtgcgcaaggctaagtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgttttgaatggtttcgtgcagCGTGGTGGTACCGGCCGGAGTACATAATAAACGAGCTCAACATCAACTCGGTGATCACCACGCCGGGACACGACGAGGTGCTGCCCATCAACGCCCTGAC
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-----------------------------gtaattaaccaaccatatcttcctcgaacgcactgcacg---agacacacattgttgcatctttgtg-atcttaacttgtgtgttttttttttggattat---gtgcagCTTGGTGGTACAAGCCGGAGTACATGATAAACGAGCTGAACATAAACTCGGTGATCACCACGCCGGGACACGATGAGGTGCTCCCCATCAATGCGCTGAC
upper sequence: GRMZM2G428027_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT1G37130.1 (Arabidopsis thaliana), 3'ss of exon 1
-------------------------------------------gtatgttatgtatctgcctcgctcgctcgctcgctcatcaaatacggtctctttgtttcttctggacgccgacgtgcgcaaggctaagtgtg-tgtgtgtgtgtgtg---tgtgtgtgtgtgttttgaatggtttcgtgc-agCGTGGTGGTACCGGCCGGAGTACATAATAAACGAGCTCAACATCAACTCGGTGATCACCACGCCGGGACACGACGAGGTGCTGCCCATCAACGCCCTGAC
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gtacataaaatctttttgcttcaataaatctcattaagatgaactaattgatatgtttaaaaagtctccgaacctataggagaaaaacaaaaacagaaatcatattaaaaaatgaaaaactaatgttggtggatgatgtcagcttctgtgacttacataaattcaaattcaatggttttgttttagGTTGGTGGTATAAGCCAGAGTACATAATCAACGAGCTAAACATAAACTCCGTGATTACGACGCCATGTCACGAGGAGATTCTTCCCATCAACGCTTTCAC
upper sequence: GRMZM2G428027_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ26567 (Selaginella moellendorffii), 3'ss of exon 3
gtatgttatgtatctgcctcgctcgctcgctcgctcatcaaatacggtctctttgtttcttctggacgccgacgtgcgcaaggctaagtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgttttgaatggtttcgtgc--agCGTGGTGGTACCGGCCGGAGTACATAATAAACGAGCTCAACATCAACTCGGTGATCACCACGCCGGGACACGACGAGGTGCTGCCCATCAACGCCCTGAC
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gtcagtagtataatt-ctttccttgttccccatctcttttgtttctctcgcgtcatagaatctccactccaa-gaatctggg---aagagctcgctctcatctccatttttgttttttttttgttttgctccatttctagGGTGGTGGAAGAGGCCCGAGTATGTGATCAACGAGCTCAACATCAACTCGGTTATCACCACTCCCGCGCACGGCGACAGCCTGCCCATCAACCCGGTGTC
upper sequence: GRMZM2G428027_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ14822 (Selaginella moellendorffii), 3'ss of exon 2
gtatgttatgtatctgcctcgctcgctcgctcgctcatcaaatacggtctctttgtttcttctggacgccgacgtgcgcaaggctaagtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgttttgaatggtttcgtgcagCGTGGTGGTACCGGCCGGAGTACATAATAAACGAGCTCAACATCAACTCGGTGATCACCACGCCGGGACACGACGAGGTGCTGCCCATCAACGCCCTGAC
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-----------------gtcagtagtataattctttctttgttcccatgtcttttgtttctcttgcgtcatagaatctccactccgagaatctggg---aagagctcaatttagtcttttttgctccattt--tccagGGTGGTGGAAGAGGCCCGAGTATTTGATCAACGAGCTCAACATCAACTCGGTTATCACCACTCCCGCGCACGGCGACAGCCTGCCCATCAATCCGGTGTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaagtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgttttgaatggtttcgtgcagCGTGGTGGTACCGGCCGGAGTACATAATAAACGAGCTCAACATCAACTCGGTGATCACCACGCCGGGACACGACGAGGTGCTGCCCATCAACGCCCTGAC
ttttgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttatgtatctgcctcgctcgctcgctcgctcatcaaatacggtctctttgtttcttctggacgccgacgtgcgcaaggctaagtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgttttgaatggtttcgtgcagCGTGGTGGTACCGGCCGGAGTACATAATAAACGAGCTCAACATCAACTCGGTGATCACCACGCCGGGACACGACGAGGTGCTGCCCATCAACGCCCTGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC