Sequence
atgc intronic sequence ATGC exonic sequencegtatgcaagcacacaagtttactttagtaatcactaccggcacagtatataccaacttctttttttttgactttctgcagGTCGATAGTATGCTAGGAAGGAGAGAAAATCCAGGGGAGCATGAAGCGATGCGCAAGATGAAGAATGAATTTATGGTAAATTGGGATGGGTTGCACACTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G435582_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os11g43970.1 (Oryza sativa), 3'ss of exon 23
gtatgc--aagcacacaagtttactttagtaatcactaccggcacagtatataccaacttctttttt------tttgactttctgcagGTCGATAGTATGCTAGGAAGGAGAGAAAATCCAGGGGAGCATGAAGCGATGCGCAAGATGAAGAATGAATTTATGGTAAATTGGGATGGGTTGCACACTA
|||||| |||| ||| |||| | ||| || | | | | | | | | | || || |||||| ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||| || ||||||||||| ||||||||||| || | |||||
gtatgcttgagcatgtgggttggttttattg-tcattagtgatttatttggtcacggtatgatccatacaaaatgcaacatttggcagGTTGATAGTATGCTAGGAAGGAGAGAGAATCCAGGGGAGCATGAAGCGATGCGCAAGATGAAAAACGAATTTATGGTGAATTGGGATGGATTACGCACTA
upper sequence: GRMZM2G435582_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 18
-----------gtatgcaagcacacaagtttactttagtaatcactaccggcacagtatataccaact-tct-------ttttttttgac--tttctgcagGTCGATAGTATGCTAGGAAGGAGAGAAAATCCAGGGGAGCATGAAGCGATGCGCAAGATGAAGAATGAATTTATGGTAAATTGGGATGGGTTGCACACTA
|| || | || ||| | | ||| |||| | | | ||| | ||| ||| || || | || |||||| ||||||||||| || || | ||||| || | |||||||| || ||||| || ||||| ||||| |||||||||||||||||||| ||| || |
tgaagaactaaacatttaaat-ctcatattttttatggtagctactatggattttcttagtttcaattatctgtgttgatttgttgtggcaattgtggcagGTTGATAGTATGCTTGGGAGACGTGAAAACCCTAGTGAGCATGAGGCTATGCGAAAAATGAAAAATGAGTTTATGGTAAATTGGGATGGTCTGCGTACAA
upper sequence: GRMZM2G435582_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA10G02410.1 (Glycine max), 3'ss of exon 19
---------gtatgcaagcacacaagtttactttagtaatcactaccggcacagtatataccaacttctttttttttgactttctg------------cagGTCGATAGTATGCTAGGAAGGAGAGAAAATCCAGGGGAGCATGAAGCGATGCGCAAGATGAAGAATGAATTTATGGTAAATTGGGATGGGTTGCACACTA
||| ||| | ||| |||| ||| |||| | | | | ||| || | | | ||||| || ||| ||||| ||||||||| ||||||| | |||||||| || |||||||| || ||||| || |||||||||||||| ||||| ||||||||||| |||| || |
ggcttaaacatattcaaatctagtgtttttctttggtagcttctacggatattcttagtttcaa-ttatctgtgtttgatttgctgtgttactgatggcagGTTGATAGTATGTTAGGAAGACGTGAAAATCCTGGTGAGCATGAGGCTATGCGTAAAATGAAGAATGAATTCATGGTTAATTGGGATGGTTTGCGAACAA
upper sequence: GRMZM2G435582_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA06G17940.1 (Glycine max), 3'ss of exon 23
gtatgcaagc-acacaagtttactt---tagtaatcact--accggcacagtatataccaacttctttttttttgactttctgca--gGTCGATAGTATGCTAGGAAGGAGAGAAAATCCAGGGGAGCATGAAGCGATGCGCAAGATGAAGAATGAATTTATGGTAAATTGGGATGGGTTGCACACTA
||| || | || | | ||| | ||| | | || | | ||| | || | | || ||| || | ||| ||||| ||| | || ||||| |||||||| ||||||||||| || ||||| |||||||| |||||||| ||||| ||||||||||| || | ||| |
gtaagccttttgtataaatgttcttagtttgtatcaattcaacagctgaaaaataaatcagtgaaaactagtatggcttcttgtatagGTTGATAGCATGTTGGGCAGGAGGGAAAATCCTGGGGAGCATGAGGCCATGCGAAAGATGAAAAATGAATTCATGGTGAATTGGGATGGCTTACGCACAA
upper sequence: GRMZM2G435582_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA04G37050.1 (Glycine max), 3'ss of exon 6
gtatgcaa---gcacacaagttt---actttagtaatcactaccggcacagtatataccaacttctttttttttgactttctgca--gGTCGATAGTATGCTAGGAAGGAGAGAAAATCCAGGGGAGCATGAAGCGATGCGCAAGATGAAGAATGAATTTATGGTAAATTGGGATGGGTTGCACACTA
||| || ||||| | |||| | || | | | | | || ||| | || | || | || ||| || | ||| ||||| ||| | || ||||| |||||||| ||||||||||| || ||||| |||||||| |||||||| ||||| || |||||||| || | ||| |
gtaagccttttgcacaaatgtttttaatttgtatcaattcatctgctgcaaaataaatcagttaaaacttgtatggcttcttgtatagGTTGATAGCATGTTGGGCAGGAGGGAAAATCCTGGGGAGCATGAGGCCATGCGAAAGATGAAAAATGAATTCATGGTGAACTGGGATGGCTTACGCACAA
upper sequence: GRMZM2G435582_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA05G03270.1 (Glycine max), 3'ss of exon 19
gtatgcaagcacacaagtttactt-tagtaatcactaccggcacagtatataccaacttctttttttttgactttctgcagGTCGATAGTATGCTAGGAAGGAGAGAAAATCCAGGGGAGCATGAAGCGATGCGCAAGATGAAGAATGAATTTATGGTAAATTGGGATGGGTTGCACACTA
| |||| | ||| || | | || | || | || ||||| | |||| | ||||| || || ||| | || | || ||||| ||||| |||||||| || ||||| |||||||| |||||||| ||||| ||||||||||| || | ||| |
----gtaagccttttaacttaagggtattgttttgtattgattcattggatgt-aactttactagctttgttt-----cagGTTGACAGCATGTTGGGTCGTAGGGAAAACCCAGGAGAGCATGAGGCCATGCGAAAGATGAAAAATGAATTCATGGTGAATTGGGATGGCTTACGCACGA
upper sequence: GRMZM2G435582_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 22
-----------gtatgcaagcacacaagtttactttagtaatcactaccggcacagtatataccaact-tct-------ttttttttgac--tttctgcagGTCGATAGTATGCTAGGAAGGAGAGAAAATCCAGGGGAGCATGAAGCGATGCGCAAGATGAAGAATGAATTTATGGTAAATTGGGATGGGTTGCACACTA
|| || | | | ||| | | || |||| | | ||| | ||| ||| || || | || |||||| |||||||||||||| || | ||||| || | |||||||| || ||||| || ||||| ||||| |||||||||||||||||||| ||| || |
tgaagacctaaacatttaaat-ctccaattttttatgatagctactatgaattttcttagtttcaattatctgtgttgatttgttgtggcaattgtggcagGTTGATAGTATGCTAGGGAGACGTGAAAACCCTAGTGAGCATGAGGCTATGCGAAAAATGAAAAATGAGTTTATGGTAAATTGGGATGGTCTGCGTACAA
upper sequence: GRMZM2G435582_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA17G13850.1 (Glycine max), 3'ss of exon 21
gtatgcaagcacacaagtttactttagtaatcactaccggcacagtatataccaacttctttttttttgactttctgcagGTCGATAGTATGCTAGGAAGGAGAGAAAATCCAGGGGAGCATGAAGCGATGCGCAAGATGAAGAATGAATTTATGGTAAATTGGGATGGGTTGCACACTA
| |||| | | || | || | || | ||| ||||| | |||| | ||||| || || ||| | || |||| ||||| ||||| |||||||| || ||||| |||||||| |||||||| ||||| |||||||||||||| | ||| |
----gtaagccttttaaccaagggtattgtgttgtattgattcattgaatat-aactttactagctttgttt-----cagGTTGACAGCATGTTGGGTCGGAGGGAAAACCCAGGAGAGCATGAGGCCATGCGAAAGATGAAAAATGAATTCATGGTGAATTGGGATGGGTTACGCACGA
upper sequence: GRMZM2G435582_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA02G17400.1 (Glycine max), 3'ss of exon 19
------gtatgca-agcacacaagtttactttagtaatcactaccggcacagtatataccaacttc-----------tttttttttgacttt--ctgcagGTCGATAGTATGCTAGGAAGGAGAGAAAATCCAGGGGAGCATGAAGCGATGCGCAAGATGAAGAATGAATTTATGGTAAATTGGGATGGGTTGCACACTA
| || || | | ||| |||| ||| |||| | | | | ||| | || |||| |||| || |||||| ||||||||| ||||||| | |||||||| || || ||||| || ||||| || |||||||||||||| ||||| ||||||||||| ||| || |
aaatgagcattcagaatctagtgtttttctttggtagcttctacagatattcttgctttcaattatctgtgtttgatttgttttgtgacattggtggcagGTTGATAGTATGTTAGGAAGACGTGAAAATCCTGGTGAACATGAGGCTATGCGTAAAATGAAGAATGAATTCATGGTTAATTGGGATGGTTTGAGAACAA
upper sequence: GRMZM2G435582_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT1G02890.2 (Arabidopsis thaliana), 3'ss of exon 21
-------------gtatgcaagcacacaagtttactttagtaatcactaccggcacagtatataccaacttcttttttt-------ttgactttctgcagGTCGATAGTATGCTAGGAAGGAGAGAAAATCCAGGGGAGCATGAAGCGATGCGCAAGATGAAGAATGAATTTATGGTAAATTGGGATGGGTTGCACACTA
|| | | | || | | | | | | ||| | | | | | | | | |||| | | || || |||| ||||| ||||| ||||| | || |||||||| || |||||||| ||||| ||||||||||| ||||| ||| |||| ||||| || || | ||| |
atgaggtatgttgctagacgttaagaacagctctcatacctgtttattacagttcctttttctttctgaatatcttttgaacgggatcaaaattatgtagGTTGATAGCATGCTGGGAAGACGTGAGAATCCAGGAGAACATGAAGCTATGCGTAAGATGAAGAACGAATTCATGATAAACTGGGACGGCTTACGCACAA
upper sequence: GRMZM2G435582_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT1G02890.1 (Arabidopsis thaliana), 3'ss of exon 22
--------gtatgcaagcacacaagtttactttagtaatcactaccggcacagtatataccaacttcttttttt-------ttgactttctgcagGTCGATAGTATGCTAGGAAGGAGAGAAAATCCAGGGGAGCATGAAGCGATGCGCAAGATGAAGAATGAATTTATGGTAAATTGGGATGGGTTGCACACTA
|| | | | || | | | | | | ||| | | | | | | | | |||| | | || || |||| ||||| ||||| ||||| | || |||||||| || |||||||| ||||| ||||||||||| ||||| ||| |||| ||||| || || | ||| |
gtatgttgctagacgttaagaacagctctcatacctgtttattacagttcctttttctttctgaatatcttttgaacgggatcaaaattatgtagGTTGATAGCATGCTGGGAAGACGTGAGAATCCAGGAGAACATGAAGCTATGCGTAAGATGAAGAACGAATTCATGATAAACTGGGACGGCTTACGCACAA
upper sequence: GRMZM2G435582_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT4G02480.1 (Arabidopsis thaliana), 3'ss of exon 22
----gtatgcaagcac--acaagtttactttagtaatcactaccggcacag------tatataccaacttctttttttt--tgact-----------ttctgcagGTCGATAGTATGCTAGGAAGGAGAGAAAATCCAGGGGAGCATGAAGCGATGCGCAAGATGAAGAATGAATTTATGGTAAATTGGGATGGGTTGCACACTA
|| || | | | ||| | || | | | ||| || | | || |||| | | | ||| | || | ||||| ||||| ||| | || || | |||||||||||||| |||||||| ||||| ||||||||||| || || |||||||| |||||||| || || |
gtatgtttgaagatattaaaaagcgttctctgttctctcccacctttgaagccagtctttttatgtactttctcgatctgatgattgtggaaaatcattattcagGTTGATAGCATGTTGGGTAGACGTGAAAATCCAGGGGAACATGAAGCTATGCGTAAGATGAAGAACGAGTTCATGGTAAACTGGGATGGTTTAAGAACAA
upper sequence: GRMZM2G435582_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 22
-----------------------------------------------------------------------------------------gtatgcaagcacacaagtttactttagtaatcactaccggcacagtatatacc---------aacttcttttt--ttttgactttctg---cagGTCGATAGTATGCTAGGAAGGAGAGAAAATCCAGGGGAGCATGAAGCGATGCGCAAGATGAAGAATGAATTTATGGTAAATTGGGATGGGTTGCACACTA
| | ||| | | || | | | ||| || | | | | || || || || || || || || ||||| || || ||| |||| || | ||||||||||| || |||||||| ||| | || ||||||||||| || ||||| || |||||||| | | || |
gtaagttgaataaatctttaaattcatccacaacttttgctataatgttcctcactctttttatgggtccatggatttagtgacggtaactgttcaatccttttaattcgccattctgatctttagtttctttcttcttttcctgttaaaaaatttattgttaacttagatttattgtttcagGTTGACAGCATGTTAGGGAGACGTGAAAATCCAGGAGAACATGAAGCTATGAGGAAAATGAAGAATGAGTTCATGGTGAACTGGGATGGCCTACGTACAA
upper sequence: GRMZM2G435582_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv17s0000g01550.t01 (Vitis vinifera), 3'ss of exon 23
gtatgcaagcacacaagtttactttagtaatcactaccggcacagtatataccaacttctttttttttgactttctgcagGTCGATAGTATGCTAGGAAGGAGAGAAAATCCAGGGGAGCATGAAGCGATGCGCAAGATGAAGAATGAATTTATGGTAAATTGGGATGGGTTGCACACTA
|| || || | || | | || || | | || | | | | || | || |||| | |||| ||||| ||||| || |||| || ||||||||||| ||||| || ||||| |||||||| || ||||||||||| || |||||||| |||| ||| |
gtgagctt-catataactctttttgtttatatattgtttgcttcctctctgcttgcta--tattctttgtttggtcttagGTTGATAGCATGCTGGGCCGGAGGGAGAATCCAGGGGAACATGAGGCCATGCGTAAGATGAAAAACGAATTTATGGTCAACTGGGATGGCTTGCGCACAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtaatcactaccggcacagtatataccaacttctttttttttgactttctgcagGTCGATAGTATGCTAGGAAGGAGAGAAAATCCAGGGGAGCATGAAGCGATGCGCAAGATGAAGAATGAATTTATGGTAAATTGGGATGGGTTGCACACTA
ttttgac putative branch site (score: 3)
cttctttttttttgac CT-rich tract
aacttcttttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcaagcacacaagtttactttagtaatcactaccggcacagtatataccaacttctttttttttgactttctgcagGTCGATAGTATGCTAGGAAGGAGAGAAAATCCAGGGGAGCATGAAGCGATGCGCAAGATGAAGAATGAATTTATGGTAAATTGGGATGGGTTGCACACTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
