Sequence
atgc intronic sequence ATGC exonic sequence...ttcttagaaatgcctgagggctgtcttactccacacatgtcagagtttttttatatgttcttgtcaagtaatgggtcccatgtttgtttcatgtcaacagAACCGTCCTGCGGAATTGATTGCAAAGTTTCTTGATGAGAAACTTCGAGCTGGCAATAAAGGGACATCAGAAGAAGAGCTGGAGGGCATACTTGATAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G704093_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os03g57290.1 (Oryza sativa), 3'ss of exon 6
ttcttagaaatgcctgagggctgtcttactccacacatgtcagagtttttttatatgttcttgtcaagtaatgggtcccatgtttgtttcatgtcaacagAACCGTCCTGCGGAATTGATTGCAAAGTTTCTTGATGAGAAACTTCGAGCTGGCAATAAAGGGACATCAGAAGAAGAGCTGGAGGGCATACTTGATAAAG
|| || | | | || ||| | | ||| | ||| | |||||| | | | || | | || | |||||||| || ||||| ||||||||||| ||||||||||||||||||||||||||||| |||||||| || || ||||||||||||||||| ||| | |||||||
ttttttgtacttaagtagatgtgtaatttatcctgcattttctttctttgtactatgttttattttatgaaagatcagctcaagcccttttttccaacagAATCGACCTGCTGAATTGATTGCGAAGTTTCTTGATGAGAAACTTCGAGCTGGAAATAAAGGTACCTCCGAAGAAGAGCTGGAGGGAATATTGGATAAAG
upper sequence: GRMZM2G704093_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA08G10180.1 (Glycine max), 3'ss of exon 6
---ttcttagaaatgcctgagggctgtcttactccacacatgtcagagtttttttat-atgttcttgtcaagtaa-tgggtcccatgtttgtttcatgtcaacagAACCGTCCTGCGGAATTGATTGCAAAGTTTCTTGATGAGAAACTTCGAGCTGGCAATAAAGGGACATCAGAAGAAGAGCTGGAGGGCATACTTGATAAAG
| ||| |||| | |||| | | || | || | ||| |||| | || || | | ||| | ||| | ||||||||| ||||| || |||||||| |||||| | |||||||||||||| || || ||||| || || || ||||| || || |||| | |||||||||||
aagctttta----tgccaagtaatcattttacactcaaattgggatgtttggtgtatgatgtgacttgcagtcaactcactgttatgctatttttccat-gacagAACCGACCTGCAGAGTTGATTGCCAAGTTTTTGGATGAGAAACTTCGTGCAGGTAATAAGGGTACTTCTGAAGAGGAACTAGAGGCTACACTTGATAAAG
upper sequence: GRMZM2G704093_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA05G27240.1 (Glycine max), 3'ss of exon 6
----ttcttagaaatgcctgagggctgtcttactccacacatgtcagagtttttttat-atgttcttgtcaagtaa-tgggtcccatgtttgtttcatgtcaacagAACCGTCCTGCGGAATTGATTGCAAAGTTTCTTGATGAGAAACTTCGAGCTGGCAATAAAGGGACATCAGAAGAAGAGCTGGAGGGCATACTTGATAAAG
|| ||| || | || | |||| | | || | || | ||| |||| | ||| || | | ||| | |||||| | ||||||||| ||||| || |||||||| |||||| | |||||||| ||||| || || ||||| || || || ||||| || ||||||| | |||||||||||
aaacttttta----tgtc-aagtaatcatttacactcaaattgggatgtttggtgtatgatgtgacttgcaatcaactcactgttatgctattttcatat-gacagAACCGACCTGCAGAGTTGATTGCCAAGTTTTTGGATGAGAAGCTTCGTGCAGGTAATAAGGGTACTTCTGAAGAGGAACTGGAGGCTACACTTGATAAAG
upper sequence: GRMZM2G704093_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA13G29010.1 (Glycine max), 3'ss of exon 6
-------ttcttagaaatgcctgagggctgtcttactccacacatgtcagagtttttttatatgttcttgtcaagtaatgggtcccatgtttgtttcatgtcaacagAACCGTCCTGCGGAATTGATTGCAAAGTTTCTTGATGAGAAACTTCGAGCTGGCAATAAAGGGACATCAGAAGAAGAGCTGGAGGGCATACTTGATAAAG
|| | | || | | | | || || ||| | | ||| ||| || || | | |||| | | | | || ||| | || || |||||| ||||| ||||||||||| |||||| | |||||||||||||| || || || || || || |||||||||||| ||||||| | |||||||||||
atgtgcttttcgatcctcggcttatgtttttatttttctacatttatgtgagatttattttacatgca-atcaactgac---ttctattttttccccttgcca---gAACCGACCTGCTGAATTGATTGCCAAGTTTTTGGATGAGAAACTTCGTGCAGGTAACAAGGGCACTTCAGAAGAAGAGTTGGAGGGTACACTTGATAAAG
upper sequence: GRMZM2G704093_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA15G10030.1 (Glycine max), 3'ss of exon 6
ttcttagaaatgcctgagggctgtcttactccacacatgtcagagtttt---tttatatgttcttgtcaagtaatgggtcccatgtttgtttcatgtcaacagAACCGTCCTGCGGAATTGATTGCAAAGTTTCTTGATGAGAAACTTCGAGCTGGCAATAAAGGGACATCAGAAGAAGAGCTGGAGGGCATACTTGATAAAG
| ||||| || | || || | | || || |||| |||| |||| || ||| || | | | ||| || | | |||||||| ||||| || |||||||| |||||| | |||||||||||||| || || || ||||| || |||||||||||| ||||||| | |||||||||||
--ttgtgaaatagttgtgatgtgcttttcaatccttgggttaggtttttatttttacatgtgatttgcaatcaactgacttc-tattttttcccccttgccagAACCGGCCTGCAGAGTTGATTGCCAAGTTTTTGGATGAGAAACTTCGTGCAGGTAACAAAGGCACTTCAGAAGAAGAGTTGGAGGGTACACTTGATAAAG
upper sequence: GRMZM2G704093_T02 (Zea mays), 3'ss of exon 6
lower sequence: Vv10s0003g03710.t01 (Vitis vinifera), 3'ss of exon 6
ttcttagaaatgcctgagggct---gtcttactccacacatgtcagagtttttttatatgttcttgtcaagtaatgggtcccatgtttgtttcatgtcaacagAACCGTCCTGCGGAATTGATTGCAAAGTTTCTTGATGAGAAACTTCGAGCTGGCAATAAAGGGACATCAGAAGAAGAGCTGGAGGGCATACTTGATAAAG
| ||| | || | | || | | | | ||| | ||| || | | | || | | || | || || ||| | | || ||||||| ||||| || | |||||||||||||| |||||||||||||| ||||| || || || ||||| ||||| ||| ||||||| | |||||||||||
tgtttaaatttggattatttcttatggttcattgaacattactttcagtattagcccttaaaaattttaaactaagagtgtcttg--tgcttc-ttttaatagAACCGACCTGCTGAGCTTATTGCAAAGTTTCTGGATGAGAAACTTCGTGCTGGGAACAAGGGTACATCTGAAGAGGAGTTGGAGGGTACACTTGATAAAG
upper sequence: GRMZM2G704093_T02 (Zea mays), 3'ss of exon 6
lower sequence: PP1S70_181V6.1 (Physcomitrella patens), 3'ss of exon 6
-ttcttagaaatgcctgagggc-tgtcttactccacacatgtcagagtttttttatatgttcttgtcaagtaatgggtc-ccatgtttgtttcatgtcaa-cagAACCGTCCTGCGGAATTGATTGCAAAGTTTCTTGATGAGAAACTTCGAGCTGGCAATAAAGGGACATCAGAAGAAGAGCTGGAGGGCATACTTGATAAAG
||| || ||| | | ||| | | ||| || || || | | ||| | | | ||| | ||| | | ||| ||||| || ||||| || | ||||| || || |||||| || || || |||||||||| || || |||||||| |||||||||||||| ||||||||||
gagtttatgtttgattgaaagtgtaacttgttttgaatttgtgagg----cttaatgtctggttgggatgcattggctgattatgggtaagtgatggtgttcagAATCGGCCTGCTGAGCTTATTGCTAAATTCATTGATGGAAAGCTGCGTTCTGGCAATAAGGGAACCTCAGAAGAGGAGCTGGAGGGCATTCTTGATAAAGMapped 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|31357483|gb|CD441840.1|CD441840EST: TCTCCAATACCATGAAAGATTCGTTTGAGCACCTTATCAATCTAAGACAG AACCGTCCTGCGGAATTGATTGCAAAGTTTCTTGATGAGAAACTTCGAGCT
genomic: TCTCCAATACCATGAAAGATTCGTTTGAGCACCTTATCAATCTAAGACAGgtgtctgttc ... atgtcaacagAACCGTCCTGCGGAATTGATTGCAAAGTTTCTTGATGAGAAACTTCGAGCT
EST:
gi|31353844|gb|CD438201.1|CD438201EST: TCTCCAATACCATGAAAGATTCGTTTGAGCACCTTATCAATCTAAGACAG AACCGTCCTGCGGAATTGATTGCAAAGTTTCTTGATGAGAAACTTCGAGCT
genomic: TCTCCAATACCATGAAAGATTCGTTTGAGCACCTTATCAATCTAAGACAGgtgtctgttc ... atgtcaacagAACCGTCCTGCGGAATTGATTGCAAAGTTTCTTGATGAGAAACTTCGAGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttttatatgttcttgtcaagtaatgggtcccatgtttgtttcatgtcaacagAACCGTCCTGCGGAATTGATTGCAAAGTTTCTTGATGAGAAACTTCGAGCTGGCAATAAAGGGACATCAGAAGAAGAGCTGGAGGGCATACTTGATAAAG
ttatatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcttagaaatgcctgagggctgtcttactccacacatgtcagagtttttttatatgttcttgtcaagtaatgggtcccatgtttgtttcatgtcaacagAACCGTCCTGCGGAATTGATTGCAAAGTTTCTTGATGAGAAACTTCGAGCTGGCAATAAAGGGACATCAGAAGAAGAGCTGGAGGGCATACTTGATAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG