Sequence
atgc intronic sequence ATGC exonic sequencegtactaaaccagtttctttaacactttttgcccttttcatttgcagttgtgttaatgtttgattaaataattattttttccttgtgatgtactgaagGTGCCCAAAAACTTGCTCGCATCTGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGATAATGACTCTCATGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G891276_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os11g31640.1 (Oryza sativa), 3'ss of exon 9
gtactaaaccagttt----ctttaacactttttgcccttttcatttgcagttgtgttaatgtttgattaaataattattt--tttccttgtgatgtactgaagGTGCCCAAAAACTTGCTCGCATCTGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGATAATGACTCTCATGT
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gtactagccttttcttctgcttcgaccctttcaatgcgctgcaggc-tatccatgtaagttttactttcaattcttatttattttggttttgatgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTCGGAGACAATGACTCTCCAGT
upper sequence: GRMZM5G891276_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA02G07250.1 (Glycine max), 3'ss of exon 9
---------gtactaaaccagtttctt---------taacactttttgcc--cttttcatttgcagttgtgt---taatgtttgattaaataattattttttccttgtgatgtact--------gaagGTGCCCAAAAACTTGCTCGCATCTGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGATAATGACTCTCATGT
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gtttggctggcactagttctgctctttgctttgcatttgtattgtttgatgattttttatgtgcatcaatccaaataatattcgtctactttgtttaccgtgcattgaagtaagttttttctatatagGTGCCCAGAAACTTGCACAAATTCGAGAGAATAGCAACTTTTTTAGGTCAGAACTGCAGAAGATGGGATTTGAGGTTCTTGGGGATAATGATTCTCCAGT
upper sequence: GRMZM5G891276_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 9
---------gtactaaaccagtttctt---taacactt---tttgcc--cttttcatttgcagttgtgt---taatgtttgattaaataattattttttccttgtgatgtactga--------agGTGCCCAAAAACTTGCTCGCATCTGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGATAATGACTCTCATGT
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gtttggctggcactagttctgctctttgctttgcatttgtatttgatggttttttacgtgcatcaatccaaataatattcatctactttgtttaccttgcattgaagtaagttgtttctatatagGTGCCCAGAAACTTGCACAAATTCGAGAAAATAGCAACTTTTTCAGGTCAGAATTGCAGAAGATGGGATTTGAGGTTCTTGGGGATAATGATTCTCCAGT
upper sequence: GRMZM5G891276_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv14s0068g01300.t01 (Vitis vinifera), 3'ss of exon 9
------------------gtactaaacc-agtttctttaacactttttgcccttttcatttgcagttgtgttaatgtttgattaaataattattttttccttgtgatgtac-tgaagGTGCCCAAAAACTTGCTCGCATCTGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGATAATGACTCTCATGT
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gtaggataaataaatcttctgtcatgcttggttttaacttctattcttgaatctttaggtttcagactctccattgctttaattgtttttgattttagtgctcttgtgtccatgtagGAGCCCAAAAACTTGCACAAATACGTGAGAATAGCAACTTTTTCAGGTCAGAACTGCAGAGCATGGGTTTTGAGGTTCTTGGGGATAATGACTCTCCAGT
upper sequence: GRMZM5G891276_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv17s0000g00500.t01 (Vitis vinifera), 3'ss of exon 10
--------------gtactaaaccagtttctttaacactttttgcccttttcatttgcagttgtgttaatgtttgattaaataattattttttccttgtgatgtactgaagGTGCCCAAAAACTTGCTCGCATCTGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGATAATGACTCTCATGT
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gttcaccctcttctatatttcaccatttatggtggctcatgcagctctgcaaacctaga-tcttgagcttatttgcttattgtttgatctgcttttgtttaaatatt--agGGGCTCAGAAATTGGCACGAATACGTGAGAACAGTAACTTTTTCAGATCAGAACTGCAGAAGATGGGCTTTGAGGTTCTTGGAGATAATGATTCTCCTGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcagttgtgttaatgtttgattaaataattattttttccttgtgatgtactgaagGTGCCCAAAAACTTGCTCGCATCTGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGATAATGACTCTCATGT
tgttaatgtttgatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactaaaccagtttctttaacactttttgcccttttcatttgcagttgtgttaatgtttgattaaataattattttttccttgtgatgtactgaagGTGCCCAAAAACTTGCTCGCATCTGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGATAATGACTCTCATGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG