Sequence
atgc intronic sequence ATGC exonic sequencegtgagttgggattgtgatgctgtttctccccagaattccattgttaaacatttttttattcttctttgtatgtctagGTTATTTTAACACCGACCCATCTTGCTATTGTCATGGAATATGCCTCTGGCGGTGAGCTTTTTGAGAGGATATGTAAGAACGTGCGATTCAGTGAAGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G138861_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g55600.1 (Oryza sativa), 3'ss of exon 2
gtgagttggga---ttgtgatgctgtttctc---cccagaattc--cattgttaaacatttttttattcttctttgtatgtcta--gGTTATTTTAACACCGACCCATCTTGCTATTGTCATGGAATATGCCTCTGGCGGTGAGCTTTTTGAGAGGATATGTAAGAACGTGCGATTCAGTGAAGATG
|| ||| ||| | ||| ||| ||||| || |||| ||| | | || | |||| | | | |||| |||||||||||| || || |||||||||||||||||||||||||||||||| ||||||||||| ||||| || |||||||| || || |||||||||||||
gtaagtcaggatcttcatgacgctcattctctagttcaccattcaatattttccagcaaaaataagttctctatcatgtatctacagGTTATTTTAACCCCAACTCATCTTGCTATTGTCATGGAATATGCCTCTGGTGGTGAGCTTTTCGAGAGAATTTGTAAGAATGTACGGTTCAGTGAAGATG
upper sequence: GRMZM2G138861_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA11G06250.1 (Glycine max), 3'ss of exon 2
------gtgagttgggattgtgatgctgtttctccccagaattccattgttaaacatttttttattcttctttgta----tgtctagGTTATTTTAACACCGACCCATCTTGCTATTGTCATGGAATATGCCTCTGGCGGTGAGCTTTTTGAGAGGATATGTAAGAACGTGCGATTCAGTGAAGATG
| || ||| || | || | | || | | | | ||||||| | |||| ||||||||||| || ||||| || ||||| ||||||||||| ||||| || ||||| ||||||| || || || | || || | ||| ||||
gttggtatatttttatatttatatatttttatgttcagaggtggaataatcgtattcagggaaaatgttctttgaaatttcactcagGTCATTTTAACACCTACTCATCTGGCCATTGTAATGGAATATGCATCTGGTGGAGAGCTATTTGAGAAAATCTGCAATGCAGGGCATTTTAATGAGGATG
upper sequence: GRMZM2G138861_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA02G15330.1 (Glycine max), 3'ss of exon 2
gtgagttgggattgtgatgctgtttctccccagaattccattgttaaacatttttttattcttctttgt---atgtctagGTTATTTTAACACCGACCCATCTTGCTATTGTCATGGAATATGCCTCTGGCGGTGAGCTTTTTGAGAGGATATGTAAGAACGTGCGATTCAGTGAAGATG
||| || || | ||| | || | ||| ||| ||| | ||| | ||| | |||||||| || ||||| || ||| | || ||||| ||||||||||| ||||| || ||||| |||||||| ||||| || | | | |||||||| ||||
gtgtgt-aaacttttaatgtcttatcctatttcttcctatcttagaaatattgtttagtccttttctgttgcgactttagGTTATATTGACACCAACACATTTGGCAATTGTGATGGAATATGCTTCTGGAGGAGAGCTATTTGAGAGAATATGCAATGCAGGGAGGTTCAGTGAGGATG
upper sequence: GRMZM2G138861_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA01G39020.2 (Glycine max), 3'ss of exon 2
------gtgagttgggattgtgatgctgtttctccccagaattccattgttaaacatttttttattcttctttg-tatgt---ctagGTTATTTTAACACCGACCCATCTTGCTATTGTCATGGAATATGCCTCTGGCGGTGAGCTTTTTGAGAGGATATGTAAGAACGTGCGATTCAGTGAAGATG
| || | ||| || | || | | | || | | | | | | ||||||| ||| | |||||||||||||||| || ||||| || ||||| ||||||||||| ||||| || || || ||||||| || || || | ||| || | ||| ||||
gttggtatatatttgtatttatatatttttatgttcagaggtacaataatcatattcatggaaaatgttctttgatatttgactcagGTTATTTTAACACCTACTCATCTGGCCATTGTAATGGAATATGCATCTGGTGGAGAACTATTTGAGAAAATCTGCAATGCAGGGCGTTTTAATGAGGATG
upper sequence: GRMZM2G138861_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA17G20610.2 (Glycine max), 3'ss of exon 2
-------------gtgagttgggattgtgatgc-----tgtttctccccagaattccattgttaaacatttttttattcttctttgtatgtcta------gGTTATTTTAACACCGACCCATCTTGCTATTGTCATGGAATATGCCTCTGGCGGTGAGCTTTTTGAGAGGATATGTAAGAACGTGCGATTCAGTGAAGATG
| | || ||| | | ||| ||| ||| | | ||||| ||| | | | | ||| || ||| ||||||||||| || |||||||||||||| ||||||||||| ||||| || ||||| ||||||| || || || | ||| || | || ||||
ccttgatatttttataattttatattatattctacgaatgtgtctgtatagaggaggggcaatca-catttatttgtgatgttctatataattacacgcagGTAATTTTAACACCTACTCATCTTGCTATTGTAATGGAATATGCATCTGGGGGAGAGCTCTTTGAGAAAATCTGCAATGCTGGGCGTTTTACCGAGGATG
upper sequence: GRMZM2G138861_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA05G09460.1 (Glycine max), 3'ss of exon 2
-------------------gtgagttgggattgtgatgctgtttctccccagaattccattg-ttaaacatttttttattcttctttgtatgtcta----gGTTATTTTAACACCGACCCATCTTGCTATTGTCATGGAATATGCCTCTGGCGGTGAGCTTTTTGAGAGGATATGTAAGAACGTGCGATTCAGTGAAGATG
| | | ||| | | | ||||||| |||| | | | ||| || |||| | || | | ||| ||||||||||| || |||||||||||||| ||||||||||| ||||| || ||||| ||||||| || || || | || || | ||| ||||
tgaaaaacttaatatttttataattgtatattct-acgatgtttctatacagaggaggggcaatcgagtttatttgtaacgttctatataatttcacgcagGTAATTTTAACACCTACTCATCTTGCTATTGTAATGGAATATGCATCTGGGGGAGAGCTCTTTGAGAAAATCTGCAATGCTGGACGTTTTACTGAGGATG
upper sequence: GRMZM2G138861_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv07s0197g00080.t01 (Vitis vinifera), 3'ss of exon 2
----------------gtgagttgggattgtgatgctgtttctccccagaatt---ccattgttaaacatttttttattcttctttgtatg----tctagGTTATTTTAACACCGACCCATCTTGCTATTGTCATGGAATATGCCTCTGGCGGTGAGCTTTTTGAGAGGATATGTAAGAACGTGCGATTCAGTGAAGATG
|| | | || | ||| ||| || | || | |||| | | ||| | | || || | ||||| || |||||||| |||||||| |||||||| ||||||||||| |||| || ||||||||||| | ||||| ||| | ||| |||| ||| ||||
tgatgagtcagcttttgtagcatcactctttgttattgtacctctttcaaagtggatgatagctaaatttgctattactttcctggaaatcacactttagGTCATATTAACACCAACCCATCTAGCTATTGTGATGGAATATGCTGCTGGTGGAGAGCTTTTTGAACGTATATGCAAGGCAGGGCGCTTCATTGAGGATG
upper sequence: GRMZM2G138861_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv03s0063g01080.t01 (Vitis vinifera), 3'ss of exon 2
-----------gtgagttgggattg-tgatgctgtttctccccagaat--tccattgttaaacatttttttattcttctttgtatgtctagGTTATTTTAACACCGACCCATCTTGCTATTGTCATGGAATATGCCTCTGGCGGTGAGCTTTTTGAGAGGATATGTAAGAACGTGCGATTCAGTGAAGATG
||| || | | | | ||| |||| | | ||| || | |||| | || || | |||||||||| || ||||| ||||| ||||||||||| ||||||||||||||||| || ||||| |||||| ||||||| || || || |||||||| ||||
gtctggtcgaaatgaatttttcccaaccacattttctatccagtgaatgattctcagttcaataattttatgttttttaatcatactctagGTTATATTGACACCAACCCACCTTGCTATTGTGATGGAATATGCCTCTGGAGGAGAGCTCTTTGAGCGGATATGCAATGCCGGCCGGTTCAGTGAGGATG
upper sequence: GRMZM2G138861_T01 (Zea mays), 3'ss of exon 3
lower sequence: EFJ28967 (Selaginella moellendorffii), 3'ss of exon 2
gtgagttgggattgtgatgctgtttctccccagaattccattgttaaacatttttttattcttctttgtatgt--ctagGTTATTTTAACACCGACCCATCTTGCTATTGTCATGGAATATGCCTCTGGCGGTGAGCTTTTTGAGAGGATATGTAAGAACGTGCGATTCAGTGAAGATG
|| |||| | | || | | | ||| || | | | | | | | | |||| || | || || || ||||| ||||||||||||||||| || | ||||||||||| || |||||||| || || |||| |||||||| |
----gtggggaatttttcgccatagcgatc----attttgttcctgctttcctcccggacttatctcgcctcttaccagGTCATGCTGACGCCTACTCATCTCGCTATTGTCATGGAATACGCTGCCGGCGGTGAGCTCTTCGAGAGGATTTGCAACGCGACCAGATTTAGTGAAGACGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|33467528|gb|CF244577.1|CF244577EST: TAATTAACCATAGATCATTGAAGCACCCTAACATTATTAGGTTTAAAGAG GTTATTTTAACACCGACCCATCTTGCTATTGCCATGGAATATGCCTCTGGC
genomic: TAATTAACCATAGATCATTGAAGCACCCTAACATTATTAGGTTTAAAGAGgtgagttggg ... gtatgtctagGTTATTTTAACACCGACCCATCTTGCTATTGTCATGGAATATGCCTCTGGC
EST:
gi|30087424|gb|CB885630.1|CB885630EST: TAATTAACCATAGATCATTGAAGCACCCTAACATTATTAGGTTTAAAGAG GTTATTTTAACACCGACCCATCTTGCTATTGTCATGGAATATGCCTCTGGC
genomic: TAATTAACCATAGATCATTGAAGCACCCTAACATTATTAGGTTTAAAGAGgtgagttggg ... gtatgtctagGTTATTTTAACACCGACCCATCTTGCTATTGTCATGGAATATGCCTCTGGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttctccccagaattccattgttaaacatttttttattcttctttgtatgtctagGTTATTTTAACACCGACCCATCTTGCTATTGTCATGGAATATGCCTCTGGCGGTGAGCTTTTTGAGAGGATATGTAAGAACGTGCGATTCAGTGAAGATG
catttttttattcttc CT-rich tract
attgttaaacattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttgggattgtgatgctgtttctccccagaattccattgttaaacatttttttattcttctttgtatgtctagGTTATTTTAACACCGACCCATCTTGCTATTGTCATGGAATATGCCTCTGGCGGTGAGCTTTTTGAGAGGATATGTAAGAACGTGCGATTCAGTGAAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG