Sequence
atgc intronic sequence ATGC exonic sequence...catattcttgttgggaatcttagtacagatagagttgtagagttagtattttgcggtattatttcaatgtaatgtcctctttttttctatttttgtttagACTGACCAAAAGCTGCGCCTGTGTGACATATGTGGAGCATTCTTGAGCGTATATGACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G028096_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os02g39300.1 (Oryza sativa), 3'ss of exon 8
---------------------------------------------------catattcttgttgggaatcttagtacagatagagttgtagagtta-----gtattttgcggtattatttcaatgt-aatgtcctctttttttctatttttgtttagACTGACCAAAAGCTGCGCCTGTGTGACATATGTGGAGCATTCTTGAGCGTATATGACAG
| | ||||| | || || | || ||| || | | |||||| || | || || | ||| | | |||||| || | |||||||||||| |||||| ||||||||||||||||||||||||||||||||||||||||||||||
gtaagtgtggtgaatcgctcattgcagtgcacataaaaaattgatatatttagttgttttgttttcactccaagaaattatcactgtgttgaactgtggatgcattttgttgtgatgcttttatattgatgatttttatttttcaatctctgtttagACTGATCAAAAGTTGCGCCTGTGTGACATATGTGGAGCATTCTTGAGCGTATATGACAG
upper sequence: GRMZM2G028096_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT3G03340.1 (Arabidopsis thaliana), 3'ss of exon 8
catattcttgttgggaatcttagtacagatagagttgtagagttagtattttgcggtattatttcaatgtaatgtcctctttt----tttctatttttgtttagACTGACCAAAAGCTGCGCCTGTGTGACATATGTGGAGCATTCTTGAGCGTATATGACAG
|||| | | | | | | | | ||| | | | ||| || || | | |||| || || |||| | | | |||| ||||||||| |||| || ||||||||||||||||||||||||||||| ||||||||
--tatttggaccaaaagtataacatct--tcgcatcccctgtttaatgtatctacacattggtttcatcttctaacctcacttattgttcctatatcttctcagACAGACCAAAAGTTGCGTCTATGTGACATATGTGGAGCATTCTTGAGCGTCTATGACAG
upper sequence: GRMZM2G028096_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT5G17440.1 (Arabidopsis thaliana), 3'ss of exon 8
catattcttgttgggaatct-tagtacagatagagttgtagagttagtattttgcggtattatttcaatgtaatgtcctctttttttctatttttgtt----tagACTGACCAAAAGCTGCGCCTGTGTGACATATGTGGAGCATTCTTGAGCGTATATGACAG
| || | || | | | || | |||||| | | | | | | |||||| || | ||| | || || |||| ||||| |||||||| || ||||||||||| |||||||| |||||||| ||||||||
-----tgaagtgaagtatataccattttctcatctctgctcgctgtatattttttgtcactgtgttggttggtagtcctcattctctcttctcttattgtctcagACAGACCAGAAGCTGCGTCTATGTGACATATGCGGAGCATTTTTGAGCGTCTATGACAG
upper sequence: GRMZM2G028096_T02 (Zea mays), 3'ss of exon 8
lower sequence: Vv04s0023g00800.t01 (Vitis vinifera), 3'ss of exon 8
-----catattcttgttgggaatcttagtacagatagagttgtagagttagtattttgcggtattatttcaatgtaatgtcctctttttttctatttttgtttagACTGACCAAAAGCTGCGCCTGTGTGACATATGTGGAGCATTCTTGAGCGTATATGACAG
| | | |||| || | | | ||| || || | ||| | || | | || | |||| || | || || || || | ||||||| || ||||| ||| | |||||||| ||||||||||| |||||||| ||||| ||
aattgaaaacacgagttgatgataatgg-atgcatatgtttttatattta---tcctgtatttcttactct-tttaatttctttttaattctgatgttacctcagACTGATCAGAAGCTACGCGTATGTGACATTTGTGGAGCATTTTTGAGCGTTTATGATAGMapped 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|50324674|gb|CO519800.1|CO519800EST: GACCACAGGCTGTTCCAGACTCTACAAAAATGAGCGCTCATGTCCAGATA ACTGACCAAAAGCTGCGCCTGTGTGACATATGTGGAGCATTCTTGAGCGTA
genomic: GACCACAGGCTGTTCCAGACTCTACAAAAATGAGCGCTCATGTCCAGATAgtaagtttgg ... ttttgtttagACTGACCAAAAGCTGCGCCTGTGTGACATATGTGGAGCATTCTTGAGCGTA
EST:
gi|60347441|gb|DN214414.1|DN214414EST: GACCACAGGCTGTTCCAGACTCTACAAAAATGAGCGCTCATGTCCAGATA ACTGACCAAAAGCTGCGCCTGTGTGACATATGTGGAGCATTCTTGAGCGTA
genomic: GACCACAGGCTGTTCCAGACTCTACAAAAATGAGCGCTCATGTCCAGATAgtaagtttgg ... ttttgtttagACTGACCAAAAGCTGCGCCTGTGTGACATATGTGGAGCATTCTTGAGCGTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtattttgcggtattatttcaatgtaatgtcctctttttttctatttttgtttagACTGACCAAAAGCTGCGCCTGTGTGACATATGTGGAGCATTCTTGAGCGTATATGACAG
tgtcctctttttttct CT-rich tract
tctttttttctatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catattcttgttgggaatcttagtacagatagagttgtagagttagtattttgcggtattatttcaatgtaatgtcctctttttttctatttttgtttagACTGACCAAAAGCTGCGCCTGTGTGACATATGTGGAGCATTCTTGAGCGTATATGACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA