Sequence
atgc intronic sequence ATGC exonic sequencegtttacaattatactgtccctgtcagacctatctttgcttctgtaatgttatgctaattatgtgagtttctctgctgcagGTAAAAGGTCTTGATGTCGATACCCTCTATGTGTCACACATTCAAGTGAACCAGGCTCAGAAGCAGCGGCGCAGGACCTACCGCGCTCATGGGCGCATCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G119169_T04 (Zea mays), 3'ss of exon 3
lower sequence: PP1S97_78V6.3 (Physcomitrella patens), 3'ss of exon 2
-------------------------------------gtttacaattatactgtccctgtcagacctatctttgcttctgtaatgttatgctaattatgtgagtttctctgctgcagGTAAAAGGTCTTGATGTCGATACCCTCTATGTGTCACACATTCAAGTGAACCAGGCTCAGAAGCAGCGGCGCAGGACCTACCGCGCTCATGGGCGCATCA
| | | | || | || |||| | | | ||| || | | |||||| || | || |||| || ||||| ||||| || || || ||| |||||||||||||| |||||||| ||||||||||| | | || ||||| || || ||||| ||||
gttggtccgaaaaacatgtgatcgggtgctttaatgaatatgttagtttagattgtttgaatgacc-acgatgtcacctgcaaattgacattaattaaact--ctttttgactatagGTGAAGGGTCTCGATGTGGACACTCTTGTTGTATCACACATTCAAGTCAACCAGGCGCAGAAGCAGCGAAGACGTACTTACCGTGCCCACGGGCGTATCA
upper sequence: GRMZM2G119169_T04 (Zea mays), 3'ss of exon 3
lower sequence: EFJ21308 (Selaginella moellendorffii), 3'ss of exon 3
gtttacaattatactgtccctgtcagacctatctttgcttctgtaatgttatgctaattatgtgagtttctctgctgcagGTAAAAGGTCTTGATGTCGATACCCTCTATGTGTCACACATTCAAGTGAACCAGGCTCAGAAGCAGCGGCGCAGGACCTACCGCGCTCATGGGCGCATCA
| | || |||||| |||| || | | | | | ||| | | ||||| ||||| | || | |||||||| ||||| || ||||| ||||| |||||||| ||||||||||| || ||||| ||||| |||||||| || ||||
-------------------gtaaaaatcccatcttt-cttcagtga-atcacggtgattcttt--------------cagGTGAAAGGCTTGGACGCGGATACCCTGTATGTCTCGCACATCCAAGTCAACCAGGCACAGAAGCAGCGCCGGAGGACTTACCGAGCTCATGGCCGGATCA
upper sequence: GRMZM2G119169_T04 (Zea mays), 3'ss of exon 3
lower sequence: EFJ26852 (Selaginella moellendorffii), 3'ss of exon 3
gtttacaattatactgtccctgtcagacctatctttgcttctgtaatgttatgctaattatgtgagtttctctgctgcagGTAAAAGGTCTTGATGTCGATACCCTCTATGTGTCACACATTCAAGTGAACCAGGCTCAGAAGCAGCGGCGCAGGACCTACCGCGCTCATGGGCGCATCA
| | || |||||| |||| || | | | |||| | | || |||| ||||| | || | |||||||| ||||| || ||||| ||||| |||||||| ||||||||||| || ||||| ||||| |||||||| || ||||
-------------------gtaaaaatcccatcttt-cttcagtga---------atcaaggtgattctttc------agGTGAAAGGCTTGGACGCGGATACCCTGTATGTCTCGCACATCCAAGTCAACCAGGCACAGAAGCAGCGCCGGAGGACTTACCGAGCTCATGGCCGGATCAMapped 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|30704742|gb|CD058589.1|CD058589EST: CTGCTAGATTCATTCTAGACCTTCTCAAGAATGCTGAGAGCAATGCTGAG GTAAAAGGTCTTGATGTCGATACCCTCTATGTGTCACACATTCAAGTGAAC
genomic: CTGCTAGATTCATTCTAGACCTTCTCAAGAATGCTGAGAGCAATGCTGAGgtttacaatt ... tctgctgcagGTAAAAGGTCTTGATGTCGATACCCTCTATGTGTCACACATTCAAGTGAAC
EST:
gi|29167874|gb|CB411134.1|CB411134EST: CTGCTAGATTCATTCTAGACCTTCTCAAGAATGCTGAGAGCAATGCTGAG GTAAAAGGTCTTGATGTCGATACCCTCTATGTGTCACACATTCA
genomic: CTGCTAGATTCATTCTAGACCTTCTCAAGAATGCTGAGAGCAATGCTGAGgtttacaatt ... tctgctgcagGTAAAAGGTCTTGATGTCGATACCCTCTATGTGTCACACATTCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gacctatctttgcttctgtaatgttatgctaattatgtgagtttctctgctgcagGTAAAAGGTCTTGATGTCGATACCCTCTATGTGTCACACATTCAAGTGAACCAGGCTCAGAAGCAGCGGCGCAGGACCTACCGCGCTCATGGGCGCATCA
tgctaat putative branch site (score: 2)
tttctctgct putative PPT
taatgttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttacaattatactgtccctgtcagacctatctttgcttctgtaatgttatgctaattatgtgagtttctctgctgcagGTAAAAGGTCTTGATGTCGATACCCTCTATGTGTCACACATTCAAGTGAACCAGGCTCAGAAGCAGCGGCGCAGGACCTACCGCGCTCATGGGCGCATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC