Sequence
atgc intronic sequence ATGC exonic sequencegtaaggtttattagcgttgcattatccctatagtgaaatgatgtccacagccacacgctgctatacacggttacattacatgtgcgcagTTCAACAAGGAAGCTGATAAGGTAATCGAGGAAATGAAGCTCAAGGTTGTCTACACATTACCTAGCTGCGGAGGTTCAGATGACTCTAGCGTATCATCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G171406_T05 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os10g40140.1 (Oryza sativa), 3'ss of exon 5
------------------------------gtaaggtttattagcgttgcattatccctatagtgaaatgatgtccacagccacacgctgctatacacggttacattacatgtgcgcagTTCAACAAGGAAGCTGATAAGGTAATCGAGGAAATGAAGCTCAAGGTTGTCTACACATTACCTAGCTGCGGAGGTTCAGATGACTCTAGCGTATCATCTT---
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gtgagcatacaatgcaaatatagatgatttgcaagctttattagtaatgtattattgttacaatgacat--tgactactgatgcac-caactatattccatgcatttttgtg-gttcagTTCAACAAGGAAGTCGATAAGGTGATTGAGGAAATGAAGCTTAAGGTTGTTTATACAGTTCCCAGT---GGAAGTTCTGACGACTCTGGTATTACATCTTTAG
upper sequence: GRMZM2G171406_T05 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g43594.1 (Oryza sativa), 3'ss of exon 5
---------------------gtaaggttta----ttagcgttgcattatccctatagtgaaatgatgtccacagccacacgctgctatacacggttacattacatgtgcgcagTTCAACAAGGAAGCTGATAAGGTAATCGAGGAAATGAAGCTCAAGGTTGTCTACACATTACCTAGCTGCGGAGGTTCAGATGACTCTAGCGTATCATCTT---
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gtgagcataaaatgcaaatatatgattttcaagctttagtgatgcattattgttaaaatgacatgacttcta-acctacaaact---atatgccatt----tttgtgtgtccagTTCAACAAGGAAGTTGATAAGGTGATTGAGGAAATAAAGCTTAAGGTTGTTTATACAGTGCCTAGT---GGAAGTTCCGACGACTCTGGTATTACATCTTTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaatgatgtccacagccacacgctgctatacacggttacattacatgtgcgcagTTCAACAAGGAAGCTGATAAGGTAATCGAGGAAATGAAGCTCAAGGTTGTCTACACATTACCTAGCTGCGGAGGTTCAGATGACTCTAGCGTATCATCTT
ttacatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggtttattagcgttgcattatccctatagtgaaatgatgtccacagccacacgctgctatacacggttacattacatgtgcgcagTTCAACAAGGAAGCTGATAAGGTAATCGAGGAAATGAAGCTCAAGGTTGTCTACACATTACCTAGCTGCGGAGGTTCAGATGACTCTAGCGTATCATCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG