Sequence
atgc intronic sequence ATGC exonic sequence...ccttatcatatatgttgcatactacagcttaaatgcatttgttgccattcctatttcattctagcatccctttaaaagcttgcaccatggttttatgcagGTAAAACTGTATTTACTAGTGATCATGCACTAAAACTTGAGTCAGTCCCTGAATGGATTGCTATTGTTGGAAGTGGTTACATTGGACTTGAATTCAGTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G145595_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g23610.1 (Oryza sativa), 3'ss of exon 4
----ccttatcatatatgttgcatactacagctta--aatgcatttgttgccattcctatttcattctagcatccctttaaaagcttgcaccatggttttatgcagGTAAAACTGTATTTACTAGTGATCATGCACTAAAACTTGAGTCAGTCCCTGAATGGATTGCTATTGTTGGAAGTGGTTACATTGGACTTGAATTCAGTGA
| || | ||| || |||| || | | || || |||||| | | |||| | | ||| | |||| || ||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||| ||||| ||||||||||| || ||||| |||||||||||||| |||||||||||
gctcctttctaataccatttacata-tattattcaggaaaatatgtgttgcatatgcacattcact-----agttcttacagagctcgctgaatggttttatgcagGTAAAACCGTATTTACTAGTGATCATGCACTAAAACTTGAGTCAGTTCCTGACTGGATTGCTATCGTGGGAAGCGGTTACATTGGACTGGAATTCAGTGA
upper sequence: GRMZM2G145595_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA07G37050.2 (Glycine max), 3'ss of exon 4
--ccttat-catatatgttgcatactacagcttaaatgcatttgttgccattcctatttcattctagcatccctt--taaaagcttgcaccatggttttatgcagGTAAAACTGTATTTACTAGTGATCATGCACTAAAACTTGAGTCAGTCCCTGAATGGATTGCTATTGTTGGAAGTGGTTACATTGGACTTGAATTCAGTGA
| || | | |||||| | | | ||| | ||| | | | | | || | | | || | ||| ||| | | | | | |||| || ||||| |||| |||||||| ||||| ||||| || || || ||||| ||||| || ||||| |||||||| || ||||| ||||||||||||||
acctttgtatctttatgtttttttccatctcttgattgcttcta-----agttttgttgggtataattactttttagtgaaaactttcctaaaaatcatcttcagGGAAGACTGTGATTACCAGTGATCACGCACTCAAACTGGAATCTGTTCCTGATTGGATAGCAATTGTAGGAAGTGGATATATTGGTCTTGAATTCAGTGA
upper sequence: GRMZM2G145595_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA15G15310.1 (Glycine max), 3'ss of exon 4
ccttatcatatatgttgcatactacagcttaaatgcatttgttgccattcctatttcattctagcatccctt-taaaagcttgcaccatggttttatgcagGTAAAACTGTATTTACTAGTGATCATGCACTAAAACTTGAGTCAGTCCCTGAATGGATTGCTATTGTTGGAAGTGGTTACATTGGACTTGAATTCAGTGA
||| | | ||||| || | | |||| || | ||| | | | ||| | | |||||| | | | || |||| || ||||| |||| ||||| |||||||| ||||| ||| | || ||||| ||||| || ||||| ||||||||||| ||||| ||||||||||||||
ggggatctttgttcactgatactgtccctcttgtttttctgtt-ttgttatttcttcttcttggtatcattaatgaaagctcaccaagtaaatgcattcagGAAAGACTGTGATTACCAGTGACCATGCACTCAAACTGGAGACTGTTCCTGATTGGATAGCAATTGTAGGAAGTGGTTATATTGGCCTTGAATTCAGTGA
upper sequence: GRMZM2G145595_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA17G03560.1 (Glycine max), 3'ss of exon 4
---ccttatca-tatatgttgcatactacagcttaaatgcatttgttgccattcctatttcattctagcatccctttaaaagcttgcaccatggttttatgcagGTAAAACTGTATTTACTAGTGATCATGCACTAAAACTTGAGTCAGTCCCTGAATGGATTGCTATTGTTGGAAGTGGTTACATTGGACTTGAATTCAGTGA
|||| | | |||||| | | | || | ||| | ||| | | || | | | | ||| || | | || | |||| || ||||| |||| ||||| || ||||| ||||| ||||| || ||||| ||||| || ||||| |||||||| || ||||| ||||||||||||||
aaaccttgtttctttatgtttt-tcccatctctggattgcttcaa--agtattgttgagt-atgattactttttagtgaaaattttcctaaaaattaccttcagGGAAGACTGTGATTACCAGTGACCACGCACTCAAACTGGAGTCTGTTCCTGATTGGATAGCAATTGTAGGAAGTGGATATATTGGTCTTGAATTCAGTGA
upper sequence: GRMZM2G145595_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT3G16950.1 (Arabidopsis thaliana), 3'ss of exon 4
ccttatcatatatgttgcatactacagcttaaatgcatttgttgccattcctatttcattctagcatccctttaaaagcttgcaccatggttttatgcagGTAAAACTGTATTTACTAGTGATCATGCACTAAAACTTGAGTCAGTCCCTGAATGGATTGCTATTGTTGGAAGTGGTTACATTGGACTTGAATTCAGTGA
|| ||| | | | | | | | ||||| | | | | || |||| || | || || ||| | ||||| || ||||| | || ||||| ||||| | ||| | ||||| |||||||| |||||||| ||||| ||||||||||| ||||| ||||| ||||||||
---------gtacgtttcttgttttgg---acgtagagttgttaagggagcatgcagacttgattattcctt-gaatgtttacattttggcgct--gcagGAAAGACTGTGATCACCAGTGACCATGCTTTGAAATTAGAGTCTGTCCCTGAGTGGATTGCAATTGTAGGAAGTGGTTATATTGGTCTTGAGTTCAGTGA
upper sequence: GRMZM2G145595_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT4G16155.1 (Arabidopsis thaliana), 3'ss of exon 4
-----ccttatcatatatgttgcatactacagcttaaatgcatttgttgcca----ttcctatttcattc----tagcatccctttaaaagcttgcaccatggttttatgcagGTAAAACTGTATTTACTAGTGATCATGCACTAAAACTTGAGTCAGTCCCTGAATGGATTGCTATTGTTGGAAGTGGTTACATTGGACTTGAATTCAGTGA
|| | |||| | || | || | ||| | ||| ||| ||||| || ||||| || | || | | |||||| || ||||| | || |||||||||||| | ||| | ||||| || ||||| |||||||| || || ||||||||||| || || ||||| ||||||||
gtatgtgtttttgtataaatgatatgtgaaaggggagttgcctcaaaaaccaaagcttctcatttcttttagtatagcaagtaccctaatattcctcatattttgtgctgcagGAAAGACTGTTATCACAAGTGATCATGCATTGAAATTGGAGTCCGTTCCTGACTGGATTGCGATAGTAGGAAGTGGTTATATCGGTCTTGAGTTCAGTGA
upper sequence: GRMZM2G145595_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv05s0077g01210.t01 (Vitis vinifera), 3'ss of exon 4
--ccttatcatatatgttgcatactacagct-taa-atgcatttgttgccattcctatttcattctagcatccctttaaaagcttgcaccatggttttatgcagGTAAAACTGTATTTACTAGTGATCATGCACTAAAACTTGAGTCAGTCCCTGAATGGATTGCTATTGTTGGAAGTGGTTACATTGGACTTGAATTCAGTGA
|||| | | | ||| | | | | || ||| ||| |||||| || ||| | | | || || | ||| || ||||| || ||||| |||| || |||||||| || ||||| ||||| || ||||| ||||| || ||||| ||||||||||| ||||| ||||||||||||||
ttccttgtattcca-gttatctgcaaaatctataatatgaatttgtcaatcttttggtttttgtgttcaaagatttctaatcaccagataatgactt---gcagGGAAGACTGTTATTACCAGCGATCATGCGCTCAAACTGGAGTCTGTTCCTGATTGGATAGCCATTGTAGGAAGTGGTTATATTGGTCTTGAATTCAGTGA
upper sequence: GRMZM2G145595_T02 (Zea mays), 3'ss of exon 3
lower sequence: PP1S112_186V6.1 (Physcomitrella patens), 3'ss of exon 4
ccttatcatatatgttgcatactacagcttaaatgcatttgttgccattcctatttcattctagcatccctttaaaagcttgcaccatggttttatgcagGTAAAACTGTATTTACTAGTGATCATGCACTAAAACTTGAGTCAGTCCCTGAATGGATTGCTATTGTTGGAAGTGGTTACATTGGACTTGAATTCAGTGA
| | | ||| | | | | |||||| ||| | | || | ||| || | || || || | ||| |||| || || || || || || |||||||| || || || |||| |||| || |||||||| ||||||||||||||||||||||| ||||| ||||| ||
-gtaagaagtcatggtcgttggtg-gattaaaatgcttttaaagtttatgctggtcgattgtaaaaatgattatctcttgatcaaactgcgtgtatccagGAAAGACGGTGTTCACCAGCGATCATGCGCTGAAGCTGGAGTGGATCCCAGACTGGATTGCCATTGTTGGAAGTGGTTACATTGGTCTTGAGTTCAGCGA
upper sequence: GRMZM2G145595_T02 (Zea mays), 3'ss of exon 3
lower sequence: PP1S35_94V6.1 (Physcomitrella patens), 3'ss of exon 4
ccttatcatatatgttgcatacta-cagcttaaatgcatttgttgccattcctatttcattctagcatccctttaa--aagcttgcaccat---ggttttatgcagGTAAAACTGTATTTACTAGTGATCATGCACTAAAACTTGAGTCAGTCCCTGAATGGATTGCTATTGTTGGAAGTGGTTACATTGGACTTGAATTCAGTGA
|| | |||| || | | || | || | ||| ||| || | | | | || || || ||| | | |||| || || || || || ||||| ||||| | || || |||| | || || ||||| ||||||| ||||||||||||||||| ||||| ||||||||
-------------gtaagaaactatcatcgttgatactttagatgct-ttcaaatcttgtattgccgcgataagaacaaaatctgattcatatggaggatgctcagGAAAGACGGTGTTCACGAGTGACCATGCGTTGAAGCTGGAGTGGATTCCCGACTGGATCACTATTGTCGGAAGTGGTTACATTGGTCTTGAGTTCAGTGAMapped 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|149070832|gb|EE159242.2|EE159242EST: AATTGCCACTGGATCTGTTCCTTTTGTCCCCAAGGGCATTGAAATAGATG GTAAAACTGTATTTACTAGTGATCATGCACTAAAACTTGAGTCAGTCCCTG
genomic: AATTGCCACTGGATCTGTTCCTTTTGTCCCCAAGGGCATTGAAATAGATGgtagttactg ... ttttatgcagGTAAAACTGTATTTACTAGTGATCATGCACTAAAACTTGAGTCAGTCCCTG
EST:
gi|89249248|gb|DY621034.1|DY621034EST: AATTGCCACTGGATCTGTTCCTTTTGTCCCCAAGGGCATTGAAATAGATG GTAAAACTGTATTTACTAGTGATCATGCACTAAAACTTGAGTCAGTCCCTG
genomic: AATTGCCACTGGATCTGTTCCTTTTGTCCCCAAGGGCATTGAAATAGATGgtagttactg ... ttttatgcagGTAAAACTGTATTTACTAGTGATCATGCACTAAAACTTGAGTCAGTCCCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattcctatttcattctagcatccctttaaaagcttgcaccatggttttatgcagGTAAAACTGTATTTACTAGTGATCATGCACTAAAACTTGAGTCAGTCCCTGAATGGATTGCTATTGTTGGAAGTGGTTACATTGGACTTGAATTCAGTGA
tatttcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccttatcatatatgttgcatactacagcttaaatgcatttgttgccattcctatttcattctagcatccctttaaaagcttgcaccatggttttatgcagGTAAAACTGTATTTACTAGTGATCATGCACTAAAACTTGAGTCAGTCCCTGAATGGATTGCTATTGTTGGAAGTGGTTACATTGGACTTGAATTCAGTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG