Sequence
atgc intronic sequence ATGC exonic sequenceTGGAGGTATTTGATGCTCTCAAGAATCAAACTGTTGACCTCGTCCTGACTGCACATCCAACTCAGTCAGTCCGGAGATCATTGCTTCAAAAGCATGGCAGgttagtctcgaagctttctgaattgttagatcccaggatgagatttacttgatgacattgaatatttgctatgcagaaatcttggttctatttgttcttt...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G110714_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os01g55350.1 (Oryza sativa), 5'ss of exon 4
TGGAGGTATTTGATGCTCTCAAGAATCAAACTGTTGACCTCGTCCTGACTGCACATCCAACTCAGTCAGTCCGGAGATCATTGCTTCAAAAGCATGGCAGgttagtctcgaagctttctgaattgttagatcccaggatgagatttacttgatgacatt--gaatatttgctatgcagaaatcttg-gttctatttgttcttt---
||||||||||||||||||||||||||||| | ||||| |||||||| ||||||||||||||||||||| |||| || |||| |||||||||||||||||||| || | ||| || | | | || | | | |||| ||| || ||||| ||| | || | |||||
ATGAGGTATTTGATGCTCTCAAGAATCAAACAATCGACCTGGTCCTGACAGCACATCCAACTCAGTCAGTCAGGAGGTCGCTGCTACAAAAGCATGGCAGgttagtttcaa---tttttgcacaaccaaaat---aaatatagccaataaaagggcatttgaaatgagtggaatgcaactgcattgcatcctgcattgtctttagt
upper sequence: GRMZM2G110714_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA12G33820.1 (Glycine max), 5'ss of exon 2
TGGAGGTATTTGATGCTCTCAAGAATCAAACTGTTGACCTCGTCCTGACTGCACATCCAACTCAGTCAGTCCGGAGATCATTGCTTCAAAAGCATGGCAGgttagtctcgaagctttctgaattgttagatcccaggatgagatttacttgatgacattgaatatttgctatgcagaaatcttggttctatttgttcttt---
||| | ||||||||| | ||||| |||||||| || | || || ||||| ||||| |||||||| || || ||||| ||||| ||||||||||| |||| ||| | || || |||| | | | | || | || | | ||| | | || ||| | | | | | |
AGGAAATCTTTGATGCTTTGAAGAACCAAACTGTGGATTTGGTTCTAACTGCTCATCCTACTCAGTCTGTTCGCAGATCTTTGCTGCAAAAGCATGGAAGgtatatctgttacattaactgatacttagttgttttaactaaggtgttatggta--gttcattcattgttgcatttatattttgatac-actggaaaatggaa
upper sequence: GRMZM2G110714_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA13G36670.1 (Glycine max), 5'ss of exon 2
TGGAGGTATTTGATGCTCTCAAGAATCAAACTGTTGACCTCGTCCTGACTGCACATCCAACTCAGTCAGTCCGGAGATCATTGCTTCAAAAGCATGGCAGgttagtct--cgaagctttctgaattgttagatcccaggatgagatttacttgatgacattgaatatttgctatgcagaaatcttggttctatttgttcttt
||| | ||||||||| | ||||| |||||||| || | ||||| ||||| ||||| |||||||| || || ||||| ||||| ||||||||||| |||| ||| | | | | ||||| | | ||
AGGAAATCTTTGATGCTTTGAAGAACCAAACTGTGGATTTGGTCCTAACTGCTCATCCTACTCAGTCTGTTCGCAGATCGTTGCTGCAAAAGCATGGAAGgtatatctgttacattatatttagttgttttaactaag----------------------------------------------------------------
upper sequence: GRMZM2G110714_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA06G43050.1 (Glycine max), 5'ss of exon 2
TGGAGGTATTTGATGCTCTCAAGAATCAAACTGTTGACCTCGTCCTGACTGCACATCCAACTCAGTCAGTCCGGAGATCATTGCTTCAAAAGCATGGCAGgttagtctcgaagctttctgaattgttagatcccaggatgagatttacttgatgacattgaat-atttgctatgcagaaatc--ttggttctatttgttcttt
|| | ||||||||| | |||| ||||||||| || | ||| | ||||| ||||| |||||||| || || ||||| ||||| ||||||||||||||||| ||| | | ||| |||| || | ||| | | || ||||| || ||| ||| || ||| | | |
AAGAAATCTTTGATGCTTTGAAGAGTCAAACTGTAGATTTGGTCTTAACTGCTCATCCTACTCAGTCTGTTCGTAGATCTTTGCTGCAAAAGCATGGCAGgtttgtccattacttatctcaatt-ttgattgtggtaatgtagccagaggagtaatgttagtccatttgttaagcatttatcaattagttgtgctgaaagt--
upper sequence: GRMZM2G110714_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA06G33380.1 (Glycine max), 5'ss of exon 2
TGGAGGTATTTGATGCTCTCAAGAATCAAACTGTTGACCTCGTCCTGACTGCACATCCAACTCAGTCAGTCCGGAGATCATTGCTTCAAAAGCATGGCAGgttagtctcgaagctttctgaattgttagatcccaggatga---gatttacttgatgacattgaatatttgctatgcagaaatcttggttctatttgttcttt
||| || ||| |||| || || || || |||||||| || || || ||||| ||||||||||| || ||||| || || ||||||||||| ||||| ||||| || |||| ||| | | || | | |||| |||||||| | | || | | || | | | |
AGGAAGTTTTTAATGCACTGAAAAACCAGACTGTTGATCTGGTTCTTACTGCTCATCCAACTCAATCTGTCCGTAGGTCTTTGCTTCAAAAACATGGAAGgtttgtatcgagttttttttctctcttttgtttctttatgaatagatttactcagaagtgaaggaatttaaattttcatgtgttcctctgccttacag-----
upper sequence: GRMZM2G110714_T01 (Zea mays), 5'ss of exon 2
lower sequence: AT3G14940.1 (Arabidopsis thaliana), 5'ss of exon 3
TGGAGGTATTTGATGCTCTCAAGAATCAAACTGTTGACCTCGTCCTGACTGCACATCCAACTCAGTCAGTCCGGAGATCATTGCTTCAAAAGCATGGCAGgttagtctcgaagctttctgaattgttagatcccaggatgagatttacttgatgacattgaatatttgctatgcagaaatcttggttctatttgttcttt---
||| | |||||||| | |||||||| ||||| || || || ||||||| ||||| |||||||| || || |||||||||||||| |||||||| |||||||| || ||| || | | | | ||| |||| | | || || || | ||| | || || | || || |||| | |
AAGAGATCTTTGATGCCTTGAAGAATCAGACTGTGGATCTGGTTTTGACTGCTCATCCTACTCAGTCTGTGCGTAGATCATTGCTTCAGAAGCATGGGAGgttagt---------ttttgacttagttgttttctgga-gagagtga---gaaaactctgtttgcttg-tgtgttga---cctgacattaaatgttttctcag
upper sequence: GRMZM2G110714_T01 (Zea mays), 5'ss of exon 2
lower sequence: AT1G53310.3 (Arabidopsis thaliana), 5'ss of exon 2
TGGAGGTATTTGATGCTCTCAAGAATCAAACTGTTGACCTCGTCCTGACTGCACATCCAACTCAGTCAGTCCGGAGATCATTGCTTCAAAAGCATGGCAGgttagtctcgaagctttctgaattgttagatcccaggatgagatttacttgatgacattgaatatttgctatgcagaaatcttggttctatttgttcttt
||| | |||||||||||||||||||| ||||| || | || ||||||| ||||| |||||||| || | |||||||||||||| || ||||| |||||||||| || ||| | | | || ||| || | | || || || | ||| | | |
AAGAGATCTTTGATGCTCTCAAGAATCAGACTGTGGATTTGGTTTTGACTGCTCATCCTACTCAGTCTGTGAGAAGATCATTGCTTCAGAAACATGGGAGgttagtctttgaggcttc--accgggcttgctttggatcgatgttttgatgttaaagttatctactt--tgtgcggtttttcag----------------
upper sequence: GRMZM2G110714_T01 (Zea mays), 5'ss of exon 2
lower sequence: Vv12s0028g02180.t01 (Vitis vinifera), 5'ss of exon 2
TGGAGGTATTTGATGCTCTCAAGAATCAAACTGTTGACCTCGTCCTGACTGCACATCCAACTCAGTCAGTCCGGAGATCATTGCTTCAAAAGCATGGCAGgttagtctcgaagctttctgaattgttagatcccaggatgagatttacttgatgacattgaatatttgctatgcagaaatcttggtt--ctatttgttcttt-------------
|| || ||||||||| | ||||| || ||||| || | ||||| || |||||||| ||||| || ||||||||||| |||||||||||||||| ||||| || || | | ||| || || | | | | | | || | | |||||||| || | | ||| |||||| ||
AAGAAGTTTTTGATGCTTTGAAGAACCAGACTGTAGATTTGGTCCTTACAGCACATCCTACTCAATCTGTCCGGAGATCTTTGCTTCAAAAGCATGCAAGgtttgttctccagttaccgtaatatttttattcttg--taaacgtaagagagggaaaagggttatttgcttcacataggctcttgttgatgctttgtttttccttcccttttcag
upper sequence: GRMZM2G110714_T01 (Zea mays), 5'ss of exon 2
lower sequence: Vv19s0014g01390.t01 (Vitis vinifera), 5'ss of exon 2
TGGAGGTATTTGATGCTCTCAAGAATCAAACTGTTGACCTCGTCCTGACTGCACATCCAACTCAGTCAGTCCGGAGATCATTGCTTCAAAAGCATGGCAGgttagtctcgaagctttctgaattgttagatcccaggatgagatttacttgatgacattgaatatttgctatgcagaaatcttggttctatttgttcttt
|| || |||||||||||||||||||| || || || || ||||| ||||| || || || || |||||||| ||||| || ||||| |||||||||||||| || || | || | | || || | ||| || || | | | ||| || |
AAGAAGTTTTTGATGCTCTCAAGAATCAGACCGTGGATCTGGTCCTTACTGCCCACCCCACCCAATCAGTCCGTAGATCGTTACTTCAGAAGCATGGCAGgtttgtaatcaaattcctgcccttttgttcttgcactataattttttctctcctttttttcacctctcttatttcttctactcag---------------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|56691567|gb|CX129470.1|CX129470EST: GCACATCCAACTCAGTCAGTCCGGAGATCATTGCTTCAAAAGCATGGCAG GATAAGAAACTGTTTAACTCAACTTTATGCAAAGGACATCACTCCAGATGA
genomic: GCACATCCAACTCAGTCAGTCCGGAGATCATTGCTTCAAAAGCATGGCAGgttagtctcg ... gaatgtgcagGATAAGAAACTGTTTAACTCAACTTTATGCAAAGGACATCACTCCAGATGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGAGGTATTTGATGCTCTCAAGAATCAAACTGTTGACCTCGTCCTGACTGCACATCCAACTCAGTCAGTCCGGAGATCATTGCTTCAAAAGCATGGCAGgttagtctcgaagctttctgaattgttagatcccaggatgagatttacttgatgacattgaatatttgctatgcagaaatcttggttctatttgttcttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA