Sequence
atgc intronic sequence ATGC exonic sequence...catgcagttgtagccctccctttaatgttcctgtaacccctaattcgtgggcactactttgcaaccaatgctataaatcatgtgatttcttgtcttgcagGGCTTATCACCATACGAGAAGAAAAAATATGTATGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTTGATTTTGGGCATATGGAAACTGTCTCGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G137236_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g02150.1 (Oryza sativa), 3'ss of exon 1
-----catgcagttgtagccctccctttaatgttcctgtaacccctaattcgtgggcactactttgcaaccaatgctataaatcat-gtgatttcttgtcttgcagGGCTTATCACCATACGAGAAGAAAAAATATGTATGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTTGATTTTGGGCATATGGAAACTGTCTCGT
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gccctcaggaaacggagaaaattcct---gcgttccagaggctc--aaaccactgacaggaaatttaaacct-tactgaaaatcaccatgatctaccgtcttgcagGGACTATCGCCTTATGAGAAGAAAAAGTACGTATGGAAAATGCTTTACATATATATGCTGGGTTATGATGTTGACTTTGGGCACATGGAAACTGTTTCTT
upper sequence: GRMZM2G137236_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA17G05410.1 (Glycine max), 3'ss of exon 1
catgcagttgtagccctccctttaatgttcctgtaaccccta-attcgtgggcactactttgcaaccaatgctataaatcatgtgatt--tcttgtcttgcagGGCTTATCACCATACGAGAAGAAAAAATATGTATGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTTGATTTTGGGCATATGGAAACTGTCTCGT
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-agaaattgatgatccatgattccctggat-tgcaatgtcaagaatttcttttattgactagtaaactaatatatcttttttacctttggttctatctt-tagGCTTTGACTCCATATGAGAAAAAGAAATATGTTTGGAAAATGCTTTACATATATATGCTTGGATATGATGTGGATTTTGGTCACATGGAAGCTGTTTCTC
upper sequence: GRMZM2G137236_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA12G30520.1 (Glycine max), 3'ss of exon 1
----catgcagttgtagccctccctttaatgttcctgtaacccctaattcgtgggcactactttgcaaccaatgctataaatcatgtgatttcttgtcttgcagGGCTTATCACCATACGAGAAGAAAAAATATGTATGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTTGATTTTGGGCATATGGAAACTGTCTCGT
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ttgatgatccatggttccctggattgcaatgtcacaagaatttctt-ttgttgactagtaaactaatatttatttttttttacctttggttc--tatctt-tagGCTCTGACTCCATATGAGAAAAAGAAATATGTTTGGAAAATGCTTTACATATATATGCTTGGCTATGATGTGGATTTTGGTCACATGGAAGCTGTTTCTC
upper sequence: GRMZM2G137236_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT5G22780.1 (Arabidopsis thaliana), 3'ss of exon 1
-catgcagttgtagccc-tccctttaatgttcctgtaacccctaattcgtgggcactactttgcaaccaatgctataaatcatgtgatttcttgtcttgcagGGCTTATCACCATACGAGAAGAAAAAATATGTATGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTTGATTTTGGGCATATGGAAACTGTCTCGT
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ggatccatgtgtggccagttggaccaacaccaaacttattttaaaatgttagaaataaattaatcatgcactct-tactttaacttgttttatgtttt-cagGTCTTAACACCATACAAAAAGAAGAAATATGTCTGGAAAATGCTTTATATACATATGCTAGGCTACGATGTGGATTTTGGCCATATGGAGGCAGTTTCTC
upper sequence: GRMZM2G137236_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT5G22770.1 (Arabidopsis thaliana), 3'ss of exon 1
catgcagttgtagccctccctttaatgttcctgtaacccctaattcgtgg-gcactactttgcaaccaatgctataaatcatgtgatttcttgtctt-gcagGGCTTATCACCATACGAGAAGAAAAAATATGTATGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTTGATTTTGGGCATATGGAAACTGTCTCGT
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--agttggaccaacattaaacttattctttttcggggttcatgttagaaatgaattaatcaagaactctttgattacttgacattctgttttatttttgcagGTTTTGACACCATATAAAAAGAAGAAATATGTCTGGAAAATGCTTTATATACATATGCTAGGCTACGATGTGGATTTTGGCCATATGGAGGCGGTTTCTC
upper sequence: GRMZM2G137236_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 1
------------catgcagttgtagccctccctttaatgttcctgtaacccctaattcgtgggcactactttgcaaccaatgctataaatcatgtgatttcttgtcttgcagGGCTTATCACCATACGAGAAGAAAAAATATGTATGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTTGATTTTGGGCATATGGAAACTGTCTCGT
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gcattattaacccatgttgatgt-gcaggctgtctaat-tttttttatttatttcttcttctgtatcttcctttaaccca------aaatttgatggtcctttg----acagGGTTTGACACCATATGAAAAAAAGAAATATGTCTGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTAGATTTTGGTCACATGGAAGCAGTTTCTC
upper sequence: GRMZM2G137236_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S507_6V6.1 (Physcomitrella patens), 3'ss of exon 1
catgcagttgtagccctccctttaatgttcctgtaacccctaattcgtgggcactact---ttgcaaccaatgctataaatca-tgtgatttcttgtcttgcagGGCTTATCACCATACGAGAAGAAAAAATATGTATGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTTGATTTTGGGCATATGGAAACTGTCTCGT
| | | ||| ||| ||| || | || | | ||| || | | | | | | |||| | || | |||||||| || ||||| || || ||||||||||| || ||||| ||||| ||||| |||||||| ||||| || |||||| | || ||||| |||||||| ||||||||
gaagaacttgatgcctga----taaagtgacatcaagctgtttttcatgagacgtgcggagtcttacatgaggctacactgcaactttttttcttgtattccagGGGTTGACAGTGTACGAGAAGAAGAAGTATGTGTGGAAGATGCTCTACATTTACATGCTTGGGTATGATATGGACTTTGGACATATGGAGACTGTCTCTC
upper sequence: GRMZM2G137236_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S26_36V6.1 (Physcomitrella patens), 3'ss of exon 1
-----catgcagttgtagccctccctttaatgttcctgtaacccctaattcgtgggcactactttgcaaccaatgctataaatcatgtgatttcttgtcttgcagGGCTTATCACCATACGAGAAGAAAAAATATGTATGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTTGATTTTGGGCATATGGAAACTGTCTCGT
| || || | | | | || || || | | || | | | || ||| | || | || |||| | || |||||||| || |||||||||||| || ||||| ||||| ||||| |||||||| ||||| || |||||||| || || || || |||||||| ||
tttttcttgaggtagcctgtatggcatcaaatgtcatggattgtcgaacccaagacttttcacacgcggt--atgttgcaa-ttttgccatttgtgttcc--cagGGCTTGTCTGTATACGAGAAGAAGAAGTATGTTTGGAAGATGCTATACATTTACATGCTTGGCTATGATGTGGACTTCGGACACATGGAAACAGTGCAAC
upper sequence: GRMZM2G137236_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ34224 (Selaginella moellendorffii), 3'ss of exon 1
catgcagttgtagccctccctttaatgttcctgtaacccctaattcgtgggcactactttgcaaccaatgctataaatcatgtgatttcttgtcttgcagGGCTTATCACCATACGAGAAGAAAAAATATGTATGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTTGATTTTGGGCATATGGAAACTGTCTCGT
| | || || | | | | | | |||| | ||| | | || | || | || | ||||| || | || || |||||||||||||| || ||||| ||||| ||||| | ||||| ||||||||||| ||||| |||||||||||| | || || |
--------------------gtgagtgatctttt---tcttgctgcttggg--tttcttcgtctcggattgctaagattgcccgcttgcgc------cagGGATTGACGCCTTATGAGAAGAAAAAATACGTTTGGAAGATGCTCTACATCTTCATGCTTGGTTATGATGTCGATTTCGGGCATATGGAAGCGGTGTCTT
upper sequence: GRMZM2G137236_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ21842 (Selaginella moellendorffii), 3'ss of exon 1
catgcagttgtagccctccctttaatgttcctgtaacccctaattcgtgggcactactttgcaaccaatgctataaatcatgtgatttcttgtcttgcagGGCTTATCACCATACGAGAAGAAAAAATATGTATGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTTGATTTTGGGCATATGGAAACTGTCTCGT
| | || || | | | | | | |||| | ||| | | || | || || | |||| ||||| || | || || |||||||||||||| || ||||| ||||| ||||| | ||||| ||||||||||| ||||| |||||||||||| |||| || |
--------------------gtgagtgatctttt---tcttgctgcttggg--tttcttcgtctcggattgctaagat----tgctcgcttgcgc--cagGGATTGACGCCTTATGAGAAGAAAAAATACGTTTGGAAGATGCTCTACATCTTCATGCTTGGTTATGATGTCGATTTCGGGCATATGGAAGCTGTGTCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgtgggcactactttgcaaccaatgctataaatcatgtgatttcttgtcttgcagGGCTTATCACCATACGAGAAGAAAAAATATGTATGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTTGATTTTGGGCATATGGAAACTGTCTCGT
tttcttgtctt CT-rich tract
tataaatcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catgcagttgtagccctccctttaatgttcctgtaacccctaattcgtgggcactactttgcaaccaatgctataaatcatgtgatttcttgtcttgcagGGCTTATCACCATACGAGAAGAAAAAATATGTATGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTTGATTTTGGGCATATGGAAACTGTCTCGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- -gcagttg
- - - - - - - - - - - - - gttcctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtgatt