Sequence
atgc intronic sequence ATGC exonic sequencegtgtgtttctggctcaagattatcttaattaattgccacactgcataaccttgaacttagtccttttcgcatatttgctagATGGAAGAGCGTATGACACTATGCAACATGGTTATTGAAGCTGGTGGAAAGAACGGTGTTGTGCCTGCTGATGAAACTACATTTAAATACCTTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G010044_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os02g03260.1 (Oryza sativa), 3'ss of exon 7
gtgtgtttctggctcaagattatcttaattaattg---ccacactgcataaccttgaacttagtccttttcgcatatttgctagATGGAAGAGCGTATGACACTATGCAACATGGTTATTGAAGCTGGTGGAAAGAACGGTGTTGTGCCTGCTGATGAAACTACATTTAAATACCTTGAG
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gtatgctccgtgctcataactagattgatcaattattttcatctttcatggcttttaacctaata-tttccgcaaacttggtagATGGAAGAGCGAATGACACTGTGCAACATGGTTATTGAAGCTGGTGGCAAGAATGGTGTTGTGCCTGCCGATCAAACTACATTTAACTATCTTGAG
upper sequence: GRMZM2G010044_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA20G34160.1 (Glycine max), 3'ss of exon 9
----gtgtgtttctggctcaagattatcttaattaattgccacact-gca-taaccttgaacttagtccttttcgcat-atttgctagATGGAAGAGCGTATGACACTATGCAACATGGTTATTGAAGCTGGTGGAAAGAACGGTGTTGTGCCTGCTGATGAAACTACATTTAAATACCTTGAG
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gtatgcatacttttaacactgttttctttctatatggtatgttatttgcactagtataagacttttgaattgttgtattgtattgtagATGGAAGAAAGGATGACACTGTGCAACATGGTTATAGAAGCTGGAGGGAAAAACGGTATTGTTGCTGCTGATAGAACCACATACAAATACCTTGAG
upper sequence: GRMZM2G010044_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA17G37540.1 (Glycine max), 3'ss of exon 8
--------------------gtgtgtttctggctcaagattatc-ttaattaattgccacactgcataaccttgaacttagtccttttcgcatatttgctagATGGAAGAGCGTATGACACTATGCAACATGGTTATTGAAGCTGGTGGAAAGAACGGTGTTGTGCCTGCTGATGAAACTACATTTAAATACCTTGAG
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aaaacacaagtaaacgggccataaatttttc-ttcaatctcagaactctttcttttttattataaataaaagttgttttggtaatttgttcctcttggataGATGGAAGAACGGATGACATTGTGCAACATGGTTGTTGAAGCTGGTGGAAAGAATGGTGTTGTTCCTGCTGACAGCACTACATTTAAATATCTTGA-
upper sequence: GRMZM2G010044_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA14G40570.1 (Glycine max), 3'ss of exon 8
--------------------------gtgtgtttctggctcaagattatcttaattaattgccacactgcataaccttgaacttagtccttttcgcatatttgctagATGGAAGAGCGTATGACACTATGCAACATGGTTATTGAAGCTGGTGGAAAGAACGGTGTTGTGCCTGCTGATGAAACTACATTTAAATACCTTGAG
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gaaaacacaagtaaacgggccctaaatttttcttcaatctcggaactctttcttttgattataa------ataaaattgt-tttggtaatttgttcctcttggatagATGGAAGAACGGATGACATTGTGCAACATGGTTGTTGAAGCTGGTGGAAAGAATGGTGTTGTTCCTGCTGACAGCACTACATTTAAATATCTTGAG
upper sequence: GRMZM2G010044_T02 (Zea mays), 3'ss of exon 7
lower sequence: AT4G13430.1 (Arabidopsis thaliana), 3'ss of exon 8
-----------------------------gtgtgtttctgg-ctcaagattatcttaattaattgc--cacactgcataaccttgaactta------gtccttttcgcatattt-----gctagATGGAAGAGCGTATGACACTATGCAACATGGTTATTGAAGCTGGTGGAAAGAACGGTGTTGTGCCTGCTGATGAAACTACATTTAAATACCTTGAG
|| || || || | || ||||||| || || | | | | | | ||| || || | ||| ||||||||||||| | |||||| | |||||||||||| | |||||||| |||||||| ||||| | ||| |||||| || ||||| || || |||||
gtaagaaatcattctatatttcctacattatgggtcccttctcttatagaaataaaaattaatagctgcatatgatgttatcattgatttataaatggttgcttgaatcttttttggctgctagATGGAAGAAAGAATGACATTGTGCAACATGGTTGTGGAAGCTGGGGGAAAGAATGGTGTCATCCCTCCTGATGCGACGACATTAAATTATGTTGAG
upper sequence: GRMZM2G010044_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv05s0049g01980.t01 (Vitis vinifera), 3'ss of exon 8
----------------------------------------------gtgtgtttctggctcaagattatcttaattaattgccacactgcataaccttgaacttagtccttttcgcatatttgctagATGGAAGAGCGTATGACACTATGCAACATGGTTATTGAAGCTGGTGGAAAGAACGGTGTTGTGCCTGCTGATGAAACTACATTTAAATACCTTGAG
|| |||||| | | || | | | || || | |||| | || || | | | | |||||||||| | |||||| ||||||||||||||||||||||||| |||||||| |||||||| ||||||||| |||||| ||| |||||||||
gtaggtgcacttttatagatcttccactgcaagtatctaaatcactgttcatttctgtgtggaatttgtttaatcagcctgttctggatcacagttttga-ttgtttcattgttctaaactgaaaagATGGAAGAAAGAATGACATTATGCAACATGGTTATTGAAGCTGGGGGAAAGAATGGTGTTGTCCCTGCTGATAGTACTACACATAAGTACCTTGAG
upper sequence: GRMZM2G010044_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv08s0056g01640.t01 (Vitis vinifera), 3'ss of exon 8
-----------------------------------------------gtgtgtttctggctcaagattatcttaattaattgccacactgcataaccttgaacttagtccttttcgcatatttgctagATGGAAGAGCGTATGACACTATGCAACATGGTTATTGAAGCTGGTGGAAAGAACGGTGTTGTGCCTGCTGATGAAACTACATTTAAATACCTTGAG
|| ||||| || || || | | | || ||| || || | | | | || || | | |||||||||| | |||||| |||||||||||||| |||||||||| |||||||| |||||||| ||||||||| |||||| ||| |||||||||
gtaagttcacttttacagatcttcccctgcaaaaatctcaagtcattctgcatttctttctgaaatttgtataatcaaactgcactggattatggttttaattgttttattcctctca-actgaaaagATGGAAGAAAGGATGACATTATGCAACATGGTTGTTGAAGCTGGAGGAAAGAATGGTGTTGTTCCTGCTGATAGTACTACACATAAGTACCTTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattaattgccacactgcataaccttgaacttagtccttttcgcatatttgctagATGGAAGAGCGTATGACACTATGCAACATGGTTATTGAAGCTGGTGGAAAGAACGGTGTTGTGCCTGCTGATGAAACTACATTTAAATACCTTGAG
gcataac putative branch site (score: 3)
atattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgtttctggctcaagattatcttaattaattgccacactgcataaccttgaacttagtccttttcgcatatttgctagATGGAAGAGCGTATGACACTATGCAACATGGTTATTGAAGCTGGTGGAAAGAACGGTGTTGTGCCTGCTGATGAAACTACATTTAAATACCTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT