Sequence
atgc intronic sequence ATGC exonic sequencegtaagcgtgcgttgtctgtagacctcttcccctcgaggaagcacccatgattaccatcagtattttactactgcgctcttgccgcccttgtgcatatcttctggattagtgatcggtggtgatatttttctgtgctcgaaccaactcaacattgctgtggtaatatttctcagGTGAAGGATTTGCAATGGTTTCTGGAACTAGCATGGCCGCACCGCATATCGCTGGCATTGCGGCACTGATAAAGCAGAAGAACCCAAAGTGGAGCCCCTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G114394_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os06g48650.2 (Oryza sativa), 3'ss of exon 8
gtaagcgtgcgttgtctgtagacctcttcccctcgaggaagcacccatgattaccatcagtattttactactgcgctcttgccgcccttgtgcat---atcttctggattagtgatcggtggtgatatttttctgtgctcgaaccaactcaacat-------tgctgtggtaat--atttctcagGTGAAGGATTTGCAATGGTTTCTGGAACTAGCATGGCCGCACCGCATATCGCTGGCATTGCGGCACTGATAAAGCAGAAGAACCCAAAGTGGAGCCCCTC
| || ||| ||||| | | |||| || |||| || | | || || ||| ||| | ||||| | || | | || || | || ||| || | | | || || || | ||||| ||| || | |||| ||||||||||||||||||||||||||||| ||||| ||||| ||||| ||||| || |||||||| ||||| ||||||||||| |||||||| |||||
----gtaagctttg-ctgtacttttatatcccttga---agcatacaaagctttt-taagcatgttatggttgcattgaaattttccttgcatgtttgattgttctatgtggtaattcatatggacgtttgtcaatcatgtggcttacctaaaatatatttctcttgtggcaatgcatattccagGGGAAGGATTTGCAATGGTTTCTGGAACTAGTATGGCTGCACCACATATTGCTGGTATCGCGGCACTAATAAAACAGAAGAACCCCAAGTGGAGTCCCTC
upper sequence: GRMZM2G114394_T02 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA13G00580.1 (Glycine max), 3'ss of exon 8
gtaagcgtgcgttgtctgtagacctcttcccctcgaggaagcacccatgattaccatcagtattttactactgcgctcttgccgcccttgtgcatatcttctggattagtgatcggtggtgatatttttctgtgctcgaaccaactcaacattgctgtggtaatatttctcagGTGAAGGATTTGCAATGGTTTCTGGAACTAGCATGGCCGCACCGCATATCGCTGGCATTGCGGCACTGATAAAGCAGAAGAACCCAAAGTGGAGCCCCTC
| | ||| || | | | | | | || | | |||||| || | | | || || | || || || | || ||||||| || ||||| ||| | ||||||||||||||||| ||||| ||||| ||||| ||||| || || |||||||||||| | || | |||||||| |
----------------------------------------------------------------gaataattgcatgattaagga----gggagggacaaaggtagaagaaaaacttactgatatgtta-tatagttgattcattttaa----gcagttttttgcttgtgcagGTGAGGGGTTTGCCATGATATCTGGAACTAGCATGGCTGCACCACATATAGCTGGAATTGCTGCTCTCATAAAGCAGAAGCATCCTCATTGGAGCCCTGC
upper sequence: GRMZM2G114394_T02 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA15G17830.1 (Glycine max), 3'ss of exon 8
gtaagcgtgcgttgtctgtagacctcttcccctcgaggaagcacccatgattaccatcagtattttactactgcgctcttgccgcccttgtgcatatcttctgg-attagtgatcggtggtgatatttttctgtgctcgaaccaactcaacattgctgtggtaatatttctcagGTGAAGGATTTGCAATGGTTTCTGGAACTAGCATGGCCGCACCGCATATCGCTGGCATTGCGGCACTGATAAAGCAGAAGAACCCAAAGTGGAGCCCCTC
| | || | | | | | | || | || ||| | || | | | || | | | || | | | | || |||| || || ||||||||| | ||||| ||||| ||||| ||||| ||||| ||||| ||||| || |||||||||||||| | ||| | |||||||| |
--------------------------------------------------------------------gaataagcacggaacttatagaagaaaaacacttgataaaagatatcatcatcaaaatactatagaatttgatttatttaagca--gtttttgc----ttgagcagGAGAGGGGTTTGCAATGATATCTGGGACTAGTATGGCTGCACCACATATAGCTGGAATTGCTGCTCTGATAAAGCAGAAACATCCACATTGGAGCCCTGC
upper sequence: GRMZM2G114394_T02 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA09G06640.1 (Glycine max), 3'ss of exon 9
gtaagcgtgcgttgtctgtagacctcttcccctcgaggaagcacccatgattaccatcagtattttactactgcgctcttgccgcccttgtgcatatcttctggattagtgatcggtggtgatatttttctgtgctcgaaccaactcaacattgctgtggtaatatttctcagGTGAAGGATTTGCAATGGTTTCTGGAACTAGCATGGCCGCACCGCATATCGCTGGCATTGCGGCACTGATAAAGCAGAAGAACCCAAAGTGGAGCCCCTC
| | | || | | | | | | | || ||| ||| | | || | | | || | | || |||| || || ||||| ||| | ||||| ||||| ||||| ||||| ||||| ||||| ||||| || |||||||||||||| | ||| | |||||||| |
------------------------------------------------------------------atgattaagcg-tggaagatagaagaaaaacacttgataaaagatatcatcatcagtatactataaaatttgatttatttaagcagtttttcc------ttgtgcagGAGAGGGGTTTGCGATGATATCTGGGACTAGTATGGCTGCACCACATATAGCTGGAATTGCTGCTCTGATAAAGCAGAAACATCCACATTGGAGCCCTGC
upper sequence: GRMZM2G114394_T02 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA17G06740.1 (Glycine max), 3'ss of exon 8
gtaagcgtgcgttgtctgtagacctcttcccctcgaggaagcacccatgattaccatcagtattttactactgcgctcttgccgcccttgtgcatatcttctggattagtgatcggtggtgatatttttctgtgctcgaaccaactcaacattgctgtggtaatatttctcagGTGAAGGATTTGCAATGGTTTCTGGAACTAGCATGGCCGCACCGCATATCGCTGGCATTGCGGCACTGATAAAGCAGAAGAACCCAAAGTGGAGCCCCTC
|| || | | || | | ||| | | | | | || | | | | |||| ||| | | || || | || | | || | | ||||||||| ||||| ||| | |||||||| |||||||| ||||| ||||| ||||| ||||| || || |||||||||||| | || | |||||||| |
----------------------------------------------------------agaat--aattgcttgattaaggacgcgagggaggaag------gtagaagaaaact-tactaatatatttacataattgattcattttaa-gctattttgcttgtg-----cagGTGAAGCGTTTGCCATGATATCTGGAACCAGCATGGCTGCACCACATATAGCTGGAATTGCTGCTCTTATAAAGCAGAAGCATCCTCATTGGAGCCCTGC
upper sequence: GRMZM2G114394_T02 (Zea mays), 3'ss of exon 9
lower sequence: Vv11s0103g00550.t01 (Vitis vinifera), 3'ss of exon 9
gtaagcgtgcgttgtctgtagacctcttcccctcgaggaagcacccatgattaccatcagtattttactactgcgctcttgccgcccttgtgcatatcttctggattagtgatcggtggtgatatttttctgtgctcgaaccaactcaacattgctgtggtaatatttctcagGTGAAGGATTTGCAATGGTTTCTGGAACTAGCATGGCCGCACCGCATATCGCTGGCATTGCGGCACTGATAAAGCAGAAGAACCCAAAGTGGAGCCCCTC
| |||| | || || ||| | ||| | | | | || | || | || | | ||||| ||| | | |||| ||||| ||||||||| | ||||||||||||||||| ||||| ||||| ||||| || || || || |||||||||| |||| | |||||||| |
-----------------------------------------------------------gaatttgaaaaccatgccagcaggataacatgctatagttactgtacttttaac--atgctaatgaatgccttt------------taaacatctttgttttttcttcgagcagGAGAAGGGTTTGCAATGATCTCTGGAACTAGCATGGCTGCACCACATATAGCTGGAATAGCTGCCCTTGTAAAGCAGAAACACCCTCATTGGAGCCCTGCMapped 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|78104120|gb|DV522538.1|DV522538EST: CATATGGGCTGCATGGGCGCCTAATGGAACGGATGAATCAAACTATGCTG GTGAAGGATTTGCAATGGTTTCTGGAACTAGCATGGCCGCACCGCATATCG
genomic: CATATGGGCTGCATGGGCGCCTAATGGAACGGATGAATCAAACTATGCTGgtaagcgtgc ... tatttctcagGTGAAGGATTTGCAATGGTTTCTGGAACTAGCATGGCCGCACCGCATATCG
EST:
gi|60351032|gb|DN218005.1|DN218005EST: CATATGGGCTGCATGGGCGCCTAATGGAACGGATGAATCAAACTATGCTG GTGAAGGATTTGCAATGGTTTCTGGAACTAGCATGGCCGCACCGCATATCG
genomic: CATATGGGCTGCATGGGCGCCTAATGGAACGGATGAATCAAACTATGCTGgtaagcgtgc ... tatttctcagGTGAAGGATTTGCAATGGTTTCTGGAACTAGCATGGCCGCACCGCATATCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgatatttttctgtgctcgaaccaactcaacattgctgtggtaatatttctcagGTGAAGGATTTGCAATGGTTTCTGGAACTAGCATGGCCGCACCGCATATCGCTGGCATTGCGGCACTGATAAAGCAGAAGAACCCAAAGTGGAGCCCCTC
tatttctc CT-rich tract
taatatttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcgtgcgttgtctgtagacctcttcccctcgaggaagcacccatgattaccatcagtattttactactgcgctcttgccgcccttgtgcatatcttctggattagtgatcggtggtgatatttttctgtgctcgaaccaactcaacattgctgtggtaatatttctcagGTGAAGGATTTGCAATGGTTTCTGGAACTAGCATGGCCGCACCGCATATCGCTGGCATTGCGGCACTGATAAAGCAGAAGAACCCAAAGTGGAGCCCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG