Sequence
atgc intronic sequence ATGC exonic sequence...tttttttatggaaggaaaaaggcaccggttttttaaaagttagttctaacttatgctaggatatttaaaaaacagtaactaatcctttctgttcttccagAGTTTACGGCACAATCCAAATGGGAGGTTTGTTGCTGTATGTGGAGATGGAGAGTACATTATCTACACAGCGCTAGCATGGAGAAATAGATCCTTTGGGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G443953_T03 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 11
tttttttatggaaggaaaaaggcaccggttttttaaaagttagttctaacttatgctaggat-atttaaaaaacagtaactaatcctttctgttcttc------cagAGTTTACGGCACAATCCAAATGGGAGGTTTGTTGCTGTATGTGGAGATGGAGAGTACATTATCTACACAGCGCTAGCATGGAGAAATAGATCCTTTGGGT
| | || || | || || | | |||| | | || | | ||| | || || || || | | || |||| |||| |||||||||||||||||||||||||| ||||||||||||||| ||||||||||| ||||| || | |||||||||||||| || ||||| |
-----agaagtgagttttaaaataatagtcctt--attgcgggttcaattatcagcaatatttgttttatgggtggtggctgattgttgatttcatttattgtgcagAATTTAAAGCACAATCCAAATGGGAGGTTTGTTGTTGTATGTGGAGATGGTGAGTACATTATATACACTGCATTGGCATGGAGAAATAGGTCATTTGGTT
upper sequence: GRMZM2G443953_T03 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 11
tttttttatggaaggaaaaaggcaccggttttttaaaagttagttctaacttatgctaggat-atttaaaaaacagtaactaatcctt--tctgttct----tccagAGTTTACGGCACAATCCAAATGGGAGGTTTGTTGCTGTATGTGGAGATGGAGAGTACATTATCTACACAGCGCTAGCATGGAGAAATAGATCCTTTGGGT
| | || || || || || | | | |||| | | | | | ||| | || ||| || || | | | | | |||| |||| |||||||||||||||||||||||||| ||| ||||||||||| ||||||||||| ||||| || | |||||||||||||| || ||||| |
-----agaagtgagttttaaaacaatagtcctt--attgctggttcaattatcaacaatatttgtttcatgggtggtgacttattgttgatttaatttgttgtgcagAATTTAAAGCACAATCCAAATGGGAGGTTTGTTGTTGTGTGTGGAGATGGTGAGTACATTATATACACTGCATTGGCATGGAGAAATAGGTCATTTGGTT
upper sequence: GRMZM2G443953_T03 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA07G03890.1 (Glycine max), 3'ss of exon 11
tttttttatggaaggaaaaaggcaccggtt--ttttaaaagttagttctaacttatgctaggatatttaaaaaacagtaactaatcctt--tctgttctt-----ccagAGTTTACGGCACAATCCAAATGGGAGGTTTGTTGCTGTATGTGGAGATGGAGAGTACATTATCTACACAGCGCTAGCATGGAGAAATAGATCCTTTGGGT
|| || || |||| || |||||| | | || | |||| | || | | || || | | | | | || | |||||||| |||||||||| |||||||||||||||| ||| ||||||||||| ||||| ||||| ||||| | | ||||||||||||||||| ||||| |
---------taaaataataatccaccccttagttttaattatcaccacttatttattttttcatgcatgttgactggtgtctgacttgtgatttacttttatactcaagAGTTTAAGGCACAATCCGAATGGGAGGTTTGTTGTTGTTTGTGGAGATGGGGAGTATATTATATACACTGGTTTGGCATGGAGAAATAGATCATTTGGTT
upper sequence: GRMZM2G443953_T03 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 11
tttttttatggaaggaaaaaggcaccggttttttaaaagttagttctaacttatgctaggatatttaaaaaacagtaactaatccttt-ctgttcttc-cagAGTTTACGGCACAATCCAAATGGGAGGTTTGTTGCTGTATGTGGAGATGGAGAGTACATTATCTACACAGCGCTAGCATGGAGAAATAGATCCTTTGGGT
|||| | || || || |||||| || || || | || || || | | ||| | ||| || || ||| |||||| || |||||||||||||||||||||| |||| ||| ||||||||||| || || ||||| ||||| || | ||||||||||||||||| ||||| |
-agcttta-aaataataatctgccccttagttttaattatttccacttttttttttaagcatgttgactggtgtctgacttgtgatttacttttattctcagAGTCTAAGGCACAATCCAAATGGGAGGTTCGTTGTTGTTTGTGGAGATGGGGAATATATTATATACACTGCTTTGGCATGGAGAAATAGATCATTTGGTT
upper sequence: GRMZM2G443953_T03 (Zea mays), 3'ss of exon 12
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 11
tttttttatggaaggaaaaaggcaccggttttttaaaagttagttctaacttatgctaggatatttaaaaa--acagtaactaatcctttctgttcttccagAGTTTACGGCACAATCCAAATGGGAGGTTTGTTGCTGTATGTGGAGATGGAGAGTACATTATCTACACAGCGCTAGCATGGAGAAATAGATCCTTTGGGT
| | ||| | || | | | |||| || | | | | | || ||| ||| | | || || | || ||||| || |||||| || |||||||||||||| | || || || |||||||||||||| |||||||| || | || |||||||||||||| |||||||
-taatagatgataaaaatgaaac-tctgtttcatatgaagtcccaagagtgtggtccagaataattatgtcttgcctcacatatagctattctaactctcagAGCTTGAAGCACAACCCTAATGGGAGGTTTGTCGTAGTCTGCGGTGATGGAGAGTACATAATCTACACTGCTTTGGCGTGGAGAAATAGATCTTTTGGGT
upper sequence: GRMZM2G443953_T03 (Zea mays), 3'ss of exon 12
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 11
---tttttttatggaaggaaaaaggcaccggttttttaaaagttagttctaacttatgctaggatatttaaaaaacagtaactaatcctttctgttcttccagAGTTTACGGCACAATCCAAATGGGAGGTTTGTTGCTGTATGTGGAGATGGAGAGTACATTATCTACACAGCGCTAGCATGGAGAAATAGATCCTTTGGGT
|| || ||| | | | | | | | | || || | | ||||| | | ||||| | | | ||| | | || ||||| || || || ||||||||||||||||||| ||| ||||||||||| ||||||||||| || ||||| | |||||||| ||||| || ||||| |
gcattaagcta-ggatgaatgattgtttccaccatattttaatttattgttatttatgtt--tacatttatttcttccttttttttttttttttgtgtttcagAGCCTAAAACATAACCCAAATGGGAGGTTTGTTGTTGTTTGTGGAGATGGTGAGTACATTATATATACAGCTTTGGCATGGAGGAATAGGTCTTTTGGTT
upper sequence: GRMZM2G443953_T03 (Zea mays), 3'ss of exon 12
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 11
tttttttatggaaggaaaaaggcaccggttttttaaaagttagttctaacttatgctaggatatttaaaaaacagtaactaatcctttctgttct---tccagAGTTTACGGCACAATCCAAATGGGAGGTTTGTTGCTGTATGTGGAGATGGAGAGTACATTATCTACACAGCGCTAGCATGGAGAAATAGATCCTTTGGGT
||||| | ||| | ||| | | | | | | | | || || | | ||| | | | | ||| ||| | | |||||||| ||||||| | ||||| |||| ||||| ||| ||||| ||||| || ||||| || |||||| | | ||||||||||||||||| ||||| |
actttttctctaagaggcagtgcatagaatatgtgcgggctcagttt---ttttgttgtcacattatggttaatgacttttgtttttttggttttaatttcagAGTTTGAAGCACAATTCTAATGGAAGGTCTGTTGTTGTTTGTGGGGATGGGGAATACATAATATACACATCTTTGGCATGGAGAAATAGATCATTTGGCT
upper sequence: GRMZM2G443953_T03 (Zea mays), 3'ss of exon 12
lower sequence: PP1S243_63V6.1 (Physcomitrella patens), 3'ss of exon 11
tttttttatggaaggaaaaaggcaccggttttttaaaagttagttct---aacttatgct-----aggatatttaaaaaacagtaactaatc------ctttctgt-tcttccagAGTTTACGGCACAATCCAAATGGGAGGTTTGTTGCTGTATGTGGAGATGGAGAGTACATTATCTACACAGCGCTAGCATGGAGAAATAGATCCTTTGGGT
| | || | | ||||| ||| || | | || |||| | | |||| || || || ||| |||| ||| ||| ||||| | || ||||| ||||| |||||||| | || ||||| ||||| ||||| |||||||||||||| || || ||||| ||| |||| ||||| |
----gtgaccgattgctcgtctaaatttctttttgaaatttcatcttcgaaagatatgtttgctcaaaatatctatcaagtgaacgcttatcggttggctttgtgtgccttgcagAGCCTGAAACATAATCCGAATGGCAGGTTTGTGGTAGTTTGTGGTGATGGTGAGTATATTATCTACACAGCTCTTGCTTGGAGGAATCGATCATTTGGTTMapped 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|160481610|gb|EY254442.1|EY254442EST: GTCTGCCATTGGCTGTGAAGGAGCTAGGAAGTTGCGACCTTTACCCACAA AGTTTACGGCACAATCCAAATGGGAGGTTTGTTGCTGTATGTGGAGATGGA
genomic: GTCTGCCATTGGCTGTGAAGGAGCTAGGAAGTTGCGACCTTTACCCACAAgtaggtttat ... gttcttccagAGTTTACGGCACAATCCAAATGGGAGGTTTGTTGCTGTATGTGGAGATGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaacttatgctaggatatttaaaaaacagtaactaatcctttctgttcttccagAGTTTACGGCACAATCCAAATGGGAGGTTTGTTGCTGTATGTGGAGATGGAGAGTACATTATCTACACAGCGCTAGCATGGAGAAATAGATCCTTTGGGT
tcctttctgttcttcc CT-rich tract
atatttaaaaaacagt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttttatggaaggaaaaaggcaccggttttttaaaagttagttctaacttatgctaggatatttaaaaaacagtaactaatcctttctgttcttccagAGTTTACGGCACAATCCAAATGGGAGGTTTGTTGCTGTATGTGGAGATGGAGAGTACATTATCTACACAGCGCTAGCATGGAGAAATAGATCCTTTGGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA