Sequence
atgc intronic sequence ATGC exonic sequenceTAAGAAGGGCAAGGATAGCATGTCTGCCCAGGGAAAGCGTCGTTATGACCGCAAGCAGTCAGGACATGGTGGTCAGACCAAGCCTGTCTTCCACAAGAAGgtaatgcaacatatctatttgattgtacttatacctttgtctgttttgatggtagcatgaatgtctagaaatatctgcgaattctaaatgcctgttgagagaataatttgggatatgacaaatgtgattgtattaatacctttcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G103059_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os07g33860.1 (Oryza sativa), 5'ss of exon 2
TAAGAAGGGCAAGGATAGCATGTCTGCCCAGGGAAAGCGTCGTTATGACCGCAAGCAGTCAGGACATGGTGGTCAGACCAAGCCTGTCTTCCACAAGAAGgtaatgcaaca-tatctatttgattgtac----ttatacctttgtctgt-tttgatggtagcatg-aatgtctagaaatatctgcgaattctaaatgcctgttgagagaataatttgggatatgacaaatgtgattgtattaatacctttcag
|||||||| ||||| ||| ||||||||||||||||||| ||||||||||| |||||||||||| |||||||||||||||||||||| ||||||||||||||| || ||| | | ||| ||||| | | || | | ||| | || | | | ||| |||| || || | | | ||| || ||
CAAGAAGGGTAAGGACAGCCTGTCTGCCCAGGGAAAGCGCCGTTATGACCGTAAGCAGTCAGGATATGGTGGTCAGACCAAGCCTGTTTTCCACAAGAAGgtactgtgacagtttatatatgattatgcagtgttgtgtgtgactctctgttcattagaaacatatggtgtcatgattgatgtatcagtgctatgtgtct-----------------------------------------------------
upper sequence: GRMZM2G103059_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os07g33898.1 (Oryza sativa), 5'ss of exon 2
TAAGAAGGGCAAGGATAGCATGTCTGCCCAGGGAAAGCGTCGTTATGACCGCAAGCAGTCAGGACATGGTGGTCAGACCAAGCCTGTCTTCCACAAGAAGgtaatgcaaca-tatctatttgatt-----gtact-tatacctttgtctgttttgat-ggtagcatg-aatgtctagaaatatctgcgaattctaaatgcctgttgagagaataat--ttgggatatgacaaatgtgattgta---ttaatacctttcag---------------------------
|||||||| ||||| ||| ||||||||||||||||||| ||||||||||| |||||||||||| |||||||||||||||||||||| ||||||||||||||| || ||| | | ||| ||||| || || | | |||||| | || || | | ||| |||| || | | | | | | | ||| | | || || | | | | | || ||| | | | | |||||
CAAGAAGGGTAAGGACAGCCTGTCTGCCCAGGGAAAGCGCCGTTATGACCGTAAGCAGTCAGGATATGGTGGTCAGACCAAGCCTGTTTTCCACAAGAAGgtattgtgacagtttatatgtgattacgcagtgctgtgtgtgattgtctctcttcattagaaacatatggtgtcatgatttgtgtctgttcaatgcaaacatgtggcaataaccatcatgtagttttaatgtatctgactttcagctgtgcatttttcatgttatgatacatggttcctgttttcag
upper sequence: GRMZM2G103059_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os07g33880.1 (Oryza sativa), 5'ss of exon 2
TAAGAAGGGCAAGGATAGCATGTCTGCCCAGGGAAAGCGTCGTTATGACCGCAAGCAGTCAGGACATGGTGGTCAGACCAAGCCTGTCTTCCACAAGAAGgtaatgcaaca-tatctatttgattgtac----ttatacctttgtctgt-tttgatggtagcatg-aatgtctagaaatatctgcgaattctaaatgcctgttgagagaata----atttgggatatgacaaatgtgattgtattaatacctttcag------------------------------------------
|||||||| ||||| ||| ||||||||||||||||||| ||||||||||| |||||||||||| |||||||||||||||||||||| ||||||||||||||| || ||| | | ||| ||||| | | || | | ||| | || | | | | | |||| || || | | | || || |||| | | || | | || | | | |||| || | |||||||
CAAGAAGGGTAAGGACAGCCTGTCTGCCCAGGGAAAGCGCCGTTATGACCGAAAGCAGTCAGGATATGGTGGTCAGACCAAGCCTGTTTTCCACAAGAAGgtactgtgacagtttatatatgattatgcagtgttgtgtgtgactctctgttcattagaaacgtacggtgtcatgattgatgtagcagtgatatgtgtctgtacaatgcatgtggcaataaccatcacgtagttttaattgcat--gtggctttcagctgtgcatttttcatgttatgatacatggttcctgttttcag
upper sequence: GRMZM2G103059_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA08G08030.1 (Glycine max), 5'ss of exon 2
TAAGAAGGGCAAGGATAGCATGTCTGCCCAGGGAAAGCGTCGTTATGACCGCAAGCAGTCAGGACATGGTGGTCAGACCAAGCCTGTCTTCCACAAGAAGgtaatgcaacatat--ctatttgattgtacttatacctttgtctgttttgatggtagcatgaatgtctagaaatatctgcgaattctaaatgcctgttgagagaataatttgggatatgacaaatgtgattgtattaatacctttcag
|||||||||||||| ||||| | || |||||||| || |||||||||||||| ||||| || | ||||| ||||| |||||||| |||||||| |||||| | | || || ||| | | | || | | | | | || | | || || || |
CAAGAAGGGCAAGGACAGCATCGCCGCTCAGGGAAAACGCCGTTATGACCGCAAACAGTCCGGTTACGGTGGCCAGACTAAGCCTGTTTTCCACAAAAAGgtacgtcgccttactactgtttcccttcccccaaacactgccttttgatttttgttcctaatttacctttaattaattag--------------------------------------------------------------------
upper sequence: GRMZM2G103059_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA15G05670.2 (Glycine max), 5'ss of exon 2
TAAGAAGGGCAAGGATAGCATGTCTGCCCAGGGAAAGCGTCGTTATGACCGCAAGCAGTCAGGACATGGTGGTCAGACCAAGCCTGTCTTCCACAAGAAGgtaatgcaacatatctatttgattgtacttatacctttgtctgttttgatggtagcatgaatgtctagaaatatctgcgaattctaaatgcctgttgagagaataatttgggatatgacaaatgtgattgtattaatacctttcag
|||||||| ||||||||||| ||||||| ||||| || |||||||| ||||| || || || ||||||| || || ||||| ||||||||||||||||| | || ||||| || || | | | | | | | || || | | |||||| | ||| ||||
CAAGAAGGGTAAGGATAGCATTGCTGCCCAAGGAAAACGCCGTTATGATCGCAAACAATCCGGTTATGGTGGACAAACTAAGCCCGTCTTCCACAAGAAGgtt-cgttggttaaatatttcgttataagtgcataggaattaggatctttttttttttgc-tgac-aaaaatatatttttatttaaaatag-------------------------------------------------------
upper sequence: GRMZM2G103059_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA08G19320.1 (Glycine max), 5'ss of exon 2
TAAGAAGGGCAAGGATAGCATGTCTGCCCAGGGAAAGCGTCGTTATGACCGCAAGCAGTCAGGACATGGTGGTCAGACCAAGCCTGTCTTCCACAAGAAGgtaatgcaacat--atctatttg-attgtacttatacctttgtctgttttgatggtagcatgaatgtctagaaatatctgcgaattctaaatgcctgttgagagaataatttgggatatgacaaatgtgattgtattaatacctttcag
|||||||| || |||||||| ||||||| ||||| || ||||| || ||||| || || || |||| || || || ||||| ||||||||||||||||||| | | | ||| || || | | ||| ||| | | ||| | ||| | | | || | |
CAAGAAGGGTAAAGATAGCATTGCTGCCCAAGGAAAACGCCGTTACGATCGCAAACAATCTGGTTATGGCGGACAAACTAAGCCCGTCTTCCACAAGAAGgtaacctctcgttaacctaagtgcataggaattaggagtttttt--tcctgacaaaaacatttttatttttaattgattag--------------------------------------------------------------------
upper sequence: GRMZM2G103059_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA05G24930.1 (Glycine max), 5'ss of exon 2
TAAGAAGGGCAAGGATAGCATGTCTGCCCAGGGAAAGCGTCGTTATGACCGCAAGCAGTCAGGACATGGTGGTCAGACCAAGCCTGTCTTCCACAAGAAGgtaatgcaacatatctatttgattgtacttataccttt--gtctgttttgatggtagcatgaatgtctagaaatatctgcgaattctaaatgcctgttgagagaataatttgggatatgacaaatgtgattgtattaatacctttcag
|||||||||||||| ||||| | || |||||||| || |||||||||||||| ||||| || | ||||| ||||||||||| || |||||||| |||||| ||| || ||| | | |||| || | | ||| | || | | | || || |
CAAGAAGGGCAAGGACAGCATCGCCGCTCAGGGAAAACGCCGTTATGACCGCAAACAGTCCGGTTACGGTGGCCAGACCAAGCCCGTTTTCCACAAAAAGgta---caattctactgtttcccccaaacactgccttatggtttttattgctaataatttacttttaattaattaattag--------------------------------------------------------------------
upper sequence: GRMZM2G103059_T01 (Zea mays), 5'ss of exon 2
lower sequence: AT4G14320.1 (Arabidopsis thaliana), 5'ss of exon 2
TAAGAAGGGCAAGGATAGCATGTCTGCCCAGGGAAAGCGTCGTTATGACCGCAAGCAGTCAGGACATGGTGGTCAGACCAAGCCTGTCTTCCACAAGAAGgtaatgcaacatatctatttgattgtactta--tacctttgtctgttttgatggtagcatgaatgtctagaaatatctgcgaattctaaatgcctgttgagagaataatttgggatatgacaaatg-tgattgtattaatacctttcag----
|||||| || || |||||| | ||||||| ||||||||||||||||| || || || || || |||| |||||||||||||| |||||||||||||||||| | | || | | | | || ||| | ||| | | | | | |||| | || | |||| | || |||| ||||| | || || | ||| | | | ||||
TAAGAAAGGTAAAGATAGCCTTGCTGCCCAAGGAAAGCGTCGTTATGATCGTAAACAATCTGGTTATGGAGGTCAGACCAAGCCCGTCTTCCACAAGAAGgtatactcgcttttccttgtcttgatctctaattactgtcttctatgtgagaaccaatttaggatttcagaattgactctg----tgaaatatgtcttataggaatgatttgttaattggaccttgctcattatttgtctttctttggaacag
upper sequence: GRMZM2G103059_T01 (Zea mays), 5'ss of exon 2
lower sequence: AT3G23390.1 (Arabidopsis thaliana), 5'ss of exon 2
TAAGAAGGGCAAGGATAGCATGTCTGCCCAGGGAAAGCGTCGTTATGACCGCAAGCAGTCAGGACATGGTGGTCAGACCAAGCCTGTCTTCCACAAGAAGgtaatgcaacatatc-tat-ttgattgtacttataccttt------gtctgttttgatggtagcatgaatgtcta--gaaatatctgc----gaattctaaatgcctgttgagagaata-----atttgggatatgacaaatgtgattgtattaatacctttcag-------------
|||||||| || || || | |||| || |||||||||||||||||||| || || || || ||||||||||||| ||||||||||||||||| ||||||| |||| | |||||||| || | || |||| || | || | | | | | || ||| || | ||||| | | | | || ||| | | ||| | || | || | | | |||
CAAGAAGGGTAAAGACAGTCTTGCTGCTCAAGGAAAGCGTCGTTATGACCGTAAACAATCTGGTTATGGTGGTCAGACTAAGCCTGTCTTCCACAAAAAGgtaacattgattatcatgcattgattgttttttcagtttgaattaggtctagttagttgaaatgaggtagttttaaggaaccatttatagtagaattttggaagtgagctgtgaggaaacagacattccaatagtctcagttttggactgagatacatcttgtgaatcttgttaacag
upper sequence: GRMZM2G103059_T01 (Zea mays), 5'ss of exon 2
lower sequence: Vv01s0011g02090.t01 (Vitis vinifera), 5'ss of exon 2
TAAGAAGGGCAAGGATAGCATGTCTGCCCAGGGAAAGCGTCGTTATGACCGCAAGCAGTCAGGACATGGTGGTCAGACCAAGCCTGTCTTCCACAAGAAGgtaatgcaacatatctatttgattgtacttatacctttgtctgttttgatggtagcatga-----atgtctagaaatatctgcgaattctaaatgcctgttg-agagaataatttgggatatgacaaatgtgattgtattaatacctttcag-------
|||||||| || |||||| | ||||||| |||||||| | || |||||||| || ||||| |||| || ||||| || || ||||||||||||||||||| | | | | ||| | ||| | || | | ||| | | || || |||| || ||| | | | ||| | | |||| | ||| | || ||| | | || |||| || || ||||
CAAGAAGGGTAAAGATAGCTTAGCTGCCCAAGGAAAGCGCAGGTACGACCGCAAACAATCAGGTTATGGAGGACAGACAAAACCCGTCTTCCACAAGAAGgtaaag-accctttctctggcattctcctctt--ccttgcaattatcaattgtttcatgtttcttataatgagagagcttgtaggatttttcaaatctgtagtagaagcttataagggcaaatccccatagcattg-atccatctttttctcaaaccag
upper sequence: GRMZM2G103059_T01 (Zea mays), 5'ss of exon 2
lower sequence: Vv13s0064g00880.t01 (Vitis vinifera), 5'ss of exon 2
TAAGAAGGGCAAGGATAGCATGTCTGCCCAGGGAAAGCGTCGTTATGACCGCAAGCAGTCAGGACATGGTGGTCAGACCAAGCCTGTCTTCCACAAGAAGgtaatgcaacatatctatttgattgtactta-tacctttgtctgttttgatggtagcatgaatgtctagaaatatctgcgaat--tctaaatgcctgttgagagaataatttgggatatgacaaatgtgattgtattaatacctttcag
|||||||||||||||||| | | || || || ||||| | ||||| ||||| |||||||| |||| || |||||||| || ||||||||||| |||||| |||| || | | | || | |||| | | ||||| || | | ||| | || | || || ||||| | | ||| | | ||| |
CAAGAAGGGCAAGGATAGCTTAGCCGCACAAGGGAAGCGGAGGTATGATCGCAAACAGTCAGGTTATGGAGGACAGACCAAACCCGTCTTCCACAAAAAGgta----aacaccctcatctcacttccctcggcatcttttttagatttga--ataatctaa---tctggttatttttgaacatgatctaatttcatgt-aatataatgag---------------------------------------
upper sequence: GRMZM2G103059_T01 (Zea mays), 5'ss of exon 2
lower sequence: Vv01s0011g02080.t01 (Vitis vinifera), 5'ss of exon 3
TAAGAAGGGCAAGGATAGCATGTCTGCCCAGGGAAAGCGTCGTTATGACCGCAAGCAGTCAGGACATGGTGGTCAGACCAAGCCTGTCTTCCACAAGAAGgtaatgcaacatatctatttgattgtactt--atacctttgtctgttttgatggtagcatgaatgtctagaaatatctgcgaattctaaatgcctgttgagagaataatttgggata--tgacaaatgtgattgtattaatacctt--tcag
||||| || || |||||| | | |||||||| || || || ||||| || || |||||||| |||| || |||||||| |||||||||||||| ||||||| ||| | ||| | | ||| | | || | |||| || | ||| | | | || | || | ||| | | || | | || || ||| | || || |||| | | ||||
CAAGAAAGGAAAAGATAGCCTTGCAGCCCAGGGGAAACGCCGGTATGATCGGAAACAGTCAGGCTATGGAGGACAGACCAAACCTGTCTTCCACAAAAAGgtaacaatccatctatatccttatttccttggaaattttaaccctttttttaagttgtgtgatacttt-----tctcagagattgctatttatatttttatatgccaaattttcataacctttgattgcttttcacctaatcacctaatcag
upper sequence: GRMZM2G103059_T01 (Zea mays), 5'ss of exon 2
lower sequence: EDP05070 (Chlamydomonas reinhardtii), 5'ss of exon 3
TAAGAAGGGCAAGGATAGCATGTCTGCCCAGGGAAAGCGTCGTTATGACCGCAAGCAGTCAGGACATGGTGGTCAGACCAAGCCTGTCTTCCACAAGAAGgtaatgcaacatatctatttgattgtacttatacctttgtctgttttgatggtagc-atgaatgtctagaaatatctgcgaattctaaatgcctgttgagagaataatttgggatatgacaaatgtgattgtattaatacctttcag
| ||||| || || |||||||||||||| || | ||||||||||||||||| ||||||||||||||||| || ||| | || | |||| | || || |||| | || | | | | | | | || | ||| | || | ||
--------------------------------GCAAGCGCCGCTACGACCGCAAGCAGTCGGGTTACGGTGGTCAGACCAAGCCCGTCTTCCACAAGAAGgtg-cgcgacagagctggcgcggcatg-ttatgggcgtatc--ttgaagtggtgaccgtggaggggtgggggtgg--ggtgaggctgagtgctggcgcagcggatg-----------------------------------------
upper sequence: GRMZM2G103059_T01 (Zea mays), 5'ss of exon 2
lower sequence: PP1S22_326V6.1 (Physcomitrella patens), 5'ss of exon 3
TAAGAAGGGCAAGGATAGCATGTCTGCCCAGGGAAAGCGTCGTTATGACCGCAAGCAGTCAGGACATGGTGGTCAGACCAAGCCTGTCTTCCACAAGAAGgtaa--tgcaacatatctatttgattgtacttatacctttgtctgttttgatggtagcatgaatgtctagaaatatctgcgaattctaaatgcctgttgagagaataatttgggatatgacaaatgtgattgtattaatacctttcag
| ||| | | |||||| | || || |||||| | || ||||||||||||||||||||||||||||||||| ||| || | |||| | | | || || | || ||| |||||| | | |||| | || | |||| | |
--------------------------------GTAAGAGGAGATATGACAGGAAACAATCAGGATACGGAGGTCAGACCAAGCCTGTCTTCCACAAGAAGgtatgttgcgtaatcagcacctgatgaagcatgggcagttcactctcagaattttag----gatgtctcgtcaatcctgctatctcagtgtttgtgtttcgtgt--------------------------------------------
upper sequence: GRMZM2G103059_T01 (Zea mays), 5'ss of exon 2
lower sequence: PP1S74_73V6.1 (Physcomitrella patens), 5'ss of exon 3
TAAGAAGGGCAAGGATAGCATGTCTGCCCAGGGAAAGCGTCGTTATGACCGCAAGCAGTCAGGACATGGTGGTCAGACCAAGCCTGTCTTCCACAAGAAGgtaatgcaacatatctatttgattgtacttatacctt-tgtctgttttgatggtagcatgaatgtctagaaatatctgcgaattctaaatgcctgttgagagaataatttgggatatgacaaatgtgattgtattaatacctttcag
| ||| | ||||||||| | ||||| || || | || |||||||||||||||||||| ||||||||||| | | ||| | | | || || | ||||| | | || | | | | | || | | || |||
--------------------------------GGAAGAGGCGTTATGACAGGAAGCAATCCGGTTACGGAGGTCAGACCAAGCCTGTCTTTCACAAGAAGgttagctgaaccctcttactcgtcatgagaatttctaatactagttttctttatcgcttacagcgtacttgctttatttcggttaaattttattgctgaa-----------------------------------------------Mapped 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|4826139|gb|AI667767.1|AI667767EST: GCAAGCAGTCAGGATATGGTGGTCAGACCAAGCCTGTCTTCCACAAGAAG GCCAAGACCACCAAGAAGATTGTTCTGAAGCTGCAGTGCCAGAGCTGCAAG
genomic: GCAAGCAGTCAGGACATGGTGGTCAGACCAAGCCTGTCTTCCACAAGAAGgtaatgcaac ... tacctttcagGCCAAGACCACCAAGAAGATTGTTCTGAAGCTGCAGTGCCAGAGCTGCAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TAAGAAGGGCAAGGATAGCATGTCTGCCCAGGGAAAGCGTCGTTATGACCGCAAGCAGTCAGGACATGGTGGTCAGACCAAGCCTGTCTTCCACAAGAAGgtaatgcaacatatctatttgattgtacttatacctttgtctgttttgatggtagcatgaatgtctagaaatatctgcgaattctaaatgcctgttgagagaataatttgggatatgacaaatgtgattgtattaatacctttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG