Sequence
atgc intronic sequence ATGC exonic sequence...cttggtatgcattcaccttagctcctgcccttacatttttgttgttgtatagatcttcctattttaacaatcattttgctatgccattgtatatccactgTATACACTTAGGTGGCTATGACAAGGAGGACAAGGCAGCAAGGGCTTACGATTTGGCAGCTCTCAAGTATTGGGGCACTACGACAACAACAAATTTCCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G366434_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g40070.1 (Oryza sativa), 3'ss of exon 3
-----cttggtatgcattcaccttagctcctgcccttacatttttgttgttgtatagatcttcctattttaacaatcattttgctatgccattgtatatccactgTATACACTTAGGTGGCTATGACAAGGAGGACAAGGCAGCAAGGGCTTACGATTTGGCAGCTCTCAAGTATTGGGGCACTACGACAACAACAAATTTCCCT
|||||||||||| || | | ||| | || ||||| | ||||||| | | | || | | | | | || |||| || | | ||| ||||||||||||||||||||| || ||||| || ||||| |||||||||||||| |||||||||||||| || |||||||||||||||||
tttatcttggtatgcatgca----aacgccttcagtt---tttttttcattgtatata-------actatattagtgactgcacaat--cattatacttgtatcacgactactcagGTGGCTATGACAAGGAGGATAAAGCAGCGAGAGCTTATGATTTGGCAGCTCTGAAGTATTGGGGCACAACAACAACAACAAATTTCCCA
upper sequence: GRMZM2G366434_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA09G38370.1 (Glycine max), 3'ss of exon 1
cttggtatgcattcaccttagctcctgcccttacatttttgttgttgtatagatcttcctattttaacaatcattttgctatgccattgtatatccactgTATACACTTAGGTGGCTATGACAAGGAGGACAAGGCAGCAAGGGCTTACGATTTGGCAGCTCTCAAGTATTGGGGCACTACGACAACAACAAATTTCCCT
|| | | | ||| | | || | | | ||| | | | ||| | ||||| | ||| |||| | | |||| | || ||||| ||||| || || || |||||||| || || |||||||||||||| || || || ||||| || || |||||||||||||| ||
-ttaaattataattgtatta-ttattttttttgggccaaaagtaa-gaagagaacgttaaaatttgttta-catttggttat--catt-tgttgtcactacttgca----gGTGGTTATGATAAAGAAGAAAAGGCAGCTAGAGCCTACGATTTGGCAGCACTAAAATACTGGGGAACAACCACAACAACAAATTTTCCA
upper sequence: GRMZM2G366434_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv04s0023g00950.t01 (Vitis vinifera), 3'ss of exon 3
cttggtatgcattcaccttagctcctgcccttacatttttgttgttgtatagatcttcctattttaacaatcattttgctatgccattgtatatccactgTATACACTTAGGTGGCTATGACAAGGAGGACAAGGCAGCAAGGGCTTACGATTTGGCAGCTCTCAAGTATTGGGGCACTACGACAACAACAAATTTCCCT
|| ||| | || | || | | | | | || || |||| | | | || | |||| || || |||| | | | | | | ||||||| |||||||| || || |||||||| |||||||||||||| ||||| || ||||||||||| || || || |||||||||||||||
------ttgttttctctttttattcttttatcaaacctatatttccgttcagatttcttaactaccactgttgtttt-ctttgtttttgtttttgt----ttttcccatagGTGGTTATGACAAAGAAGAAAAGGCAGCTAGGGCTTACGATTTAGCAGCACTGAAGTATTGGGGTACCACCACCACAACAAATTTCCCT
upper sequence: GRMZM2G366434_T02 (Zea mays), 3'ss of exon 3
lower sequence: EFJ17692 (Selaginella moellendorffii), 3'ss of exon 1
-cttggtatgcattcaccttagctcctgcccttacatttttgttgttgtatagatcttcctattttaacaatcattttgctatgccattgtatatccactgTATACACTTAGGTGGCTATGACAAGGAGGACAAGGCAGCAAGGGCTTACGATTTGGCAGCTCTCAAGTATTGGGGCACTACGACAACAACAAATTTCCCT
| | || | | | | || | | |||||| | | | | | || || |||| | | || | | | | | |||| || ||||| |||||| ||||||||||| ||||||||| |||||||||||||||| ||||| |||||||||| ||||| || ||
tcctccagtgtacttaggtgagtaat--ctatcgaatttttctcgat-tgtggagctaaac-ttttggtggttttcttttctttttttcttgcgttt--------tgcgtagGGGGGTATGATGCGGAGGAGAAGGCAGCAAGAGCTTACGATCTGGCAGCTCTCAAGTACTGGGGGCCTACGACAACTACAAACTTTCCG
upper sequence: GRMZM2G366434_T02 (Zea mays), 3'ss of exon 3
lower sequence: EFJ16224 (Selaginella moellendorffii), 3'ss of exon 1
--------------------------------------------------------------------------cttggta-tgcattcaccttagctcctg-cccttacatttttgttgttgtatag---atcttccta--ttttaacaatcattttgctatgccattgtatatccactgTATACACT---TAGGTGGCTATGACAAGGAGGACAAGGCAGCAAGGGCTTACGATTTGGCAGCTCTCAAGTATTGGGGCACTACGACAACAACAAATTTCCCT
|| | | || || | | | || || | | ||| || | |||| | | |||| | || | |||| | ||| | || | | |||| || ||||| |||||| ||||||||||| ||||||||| |||||||||||||||| ||||| |||||||||| ||||| || ||
gtactgcttaaaagttttgagagttttttttcatggttttttttctctcttgggtgatttttccgtccttggatctggatggtgtttttggtgtggtacttgatccatcctccagtgtacttaggtgagtaatctatcgaatttttctcgattgtggagctaaacttttggtggttttctttgcgttttgcgtagGGGGATATGATGCGGAGGAGAAGGCAGCAAGAGCTTACGATCTGGCAGCTCTCAAGTACTGGGGGCCTACGACAACTACAAACTTTCCGMapped 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|148996173|gb|EE035443.2|EE035443EST: ATGGGATAATAGTTGTAGAAGGGAAGGGCAGAGTCGCAAGGGTAGGCAAG TTTAC-CTT-GGTGGCTATGACAAGGAGGACAAGGCAGCAAGGGCTTACGA
genomic: ATGGGATAATAGTTGTAGAAGGGAAGGGCAGAGTCGCAAGGGTAGGCAAGgtaatgaaac ... atatccactgTATACACTTAGGTGGCTATGACAAGGAGGACAAGGCAGCAAGGGCTTACGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtatagatcttcctattttaacaatcattttgctatgccattgtatatccactgTATACACTTAGGTGGCTATGACAAGGAGGACAAGGCAGCAAGGGCTTACGATTTGGCAGCTCTCAAGTATTGGGGCACTACGACAACAACAAATTTCCCT
ttttaac putative branch site (score: 2)
tattttaacaatcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttggtatgcattcaccttagctcctgcccttacatttttgttgttgtatagatcttcctattttaacaatcattttgctatgccattgtatatccactgTATACACTTAGGTGGCTATGACAAGGAGGACAAGGCAGCAAGGGCTTACGATTTGGCAGCTCTCAAGTATTGGGGCACTACGACAACAACAAATTTCCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - -tgcattc
- - - - - - - - - - gctcctg
- - - - - - - - - - - - - - - -tacattt
- - - - - - - - - - - - - - - - - - - -tgttgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttttgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgccatt