Sequence
atgc intronic sequence ATGC exonic sequence...ttaaacaaatcaatatcgatgatattcaggtcattcattacatcttccgtctactttttactttttttttatatatatttttattttattgtgtgaacagGACAGATCTTGGCGTGTTCGCTACATGGTTGCAGATCAATTATATGAGCTTTGTCATGCTGTAGGGCCTGAAGCTACCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g03280.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G164352_T04 (Zea mays), 3'ss of exon 4
-ttaaacaaatcaatatcgatgatattcaggtcattcattacatcttccgtctactttttactttttttttatatatatttttattttattgtgt-gaacagGACAGATCTTGGCGTGTTCGCTACATGGTTGCAGATCAATTATATGAGCTTTGTCATGCTGTAGGGCCTGAAGCTACCAG
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ttgtagttgctagaggttgataatttcttagttttgca--acttgttgcagttaagtgcatcaccactaacaaatgctacttgcttgtactcttttgtttagGATAAATCATGGCGTGTTCGTTATATGGTTGCCAATCAATTATATGAGCTCTGTGAGGCTGTTGGCCCTGAGCCTACAAG
upper sequence: Vv01s0011g03280.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G10790.2 (Glycine max), 3'ss of exon 4
ttaaacaaatcaatatcgatgatattcaggtcattcattacatcttccgtctactttttacttttttt---ttatatatatttttattttattgtgtgaacagGACAGATCTTGGCGTGTTCGCTACATGGTTGCAGATCAATTATATGAGCTTTGTCATGCTGTAGGGCCTGAAGCTACCAG
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gtgtatatatgtgtgtttgt-atgtggaatgtgttttcaccaaactaagtccccattttgatttgattagttttcctttgacttgatttgatccca--aacagGATAAGTCGTGGCGTGTGCGGTACATGGTTGCAAATCAATTGTATGAGCTTTGTGAAGCTGTAGGCCCTGAACCTACCAG
upper sequence: Vv01s0011g03280.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G24790.1 (Glycine max), 3'ss of exon 4
ttaaacaaatcaatatcgatg-atattcaggtcattcattacatc-ttccgtctactttttactttt-tttttatatatatttttattttattgtgtgaacagGACAGATCTTGGCGTGTTCGCTACATGGTTGCAGATCAATTATATGAGCTTTGTCATGCTGTAGGGCCTGAAGCTACCAG
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-ttagtctccctgcattcatatgtctgtaaaatgttatatgcaccataccgaatattttttttttaaatttatttatgtgatttaatttcatcctg--gatagGATAAGTCTTGGCGTGTGCGTTACATGGTTGCAAATCAATTGTATGAGCTTTGCGAAGCTGTAGGCCCTGAACCTACCAG
upper sequence: Vv01s0011g03280.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G42250.1 (Glycine max), 3'ss of exon 4
ttaaacaaatcaatatcgatgatattcaggtcattcattacatcttccgt-ctactttttactttttttttatatatat--ttttattttattgtgtgaacagGACAGATCTTGGCGTGTTCGCTACATGGTTGCAGATCAATTATATGAGCTTTGTCATGCTGTAGGGCCTGAAGCTACCAG
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-tatttagtttgcctgcatttatatgtctgtagaatgttatatgcaccataccaaatattcttttttatttatttatgtgatttaatttcatcctg--gatagGATAAGTCTTGGCGCGTGCGTTACATGGTTGCAAATCAATTGTATGAGCTTTGTGAAGCTGTAGGCCCTGAACCTACCAGMapped 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|71884601|gb|DT033656.1|DT033656EST: CCCAGGAATGCATTGCACGTATTCTCCCTGTTATTATCAGCTTTTCTCAG GACAGATCTTGGCGTGTTCGCTACATGGTTGCAGATCAATTATATGAGCTT
genomic: CCCAGGAATGCATTGCACGTATTCTCCCTGTTATTATCAGCTTTTCTCAGgtatgctttt ... gtgtgaacagGACAGATCTTGGCGTGTTCGCTACATGGTTGCAGATCAATTATATGAGCTT
EST:
gi|71884162|gb|DT033217.1|DT033217EST: CCCAGGAATGCATTGCACGTATTCTCCCTGTTATTATCAGCTTTTCTCAG GACAGATCTTGGCGTGTTCGCTACATGGTTGCAGATCAATTATATGAGCTT
genomic: CCCAGGAATGCATTGCACGTATTCTCCCTGTTATTATCAGCTTTTCTCAGgtatgctttt ... gtgtgaacagGACAGATCTTGGCGTGTTCGCTACATGGTTGCAGATCAATTATATGAGCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccgtctactttttactttttttttatatatatttttattttattgtgtgaacagGACAGATCTTGGCGTGTTCGCTACATGGTTGCAGATCAATTATATGAGCTTTGTCATGCTGTAGGGCCTGAAGCTACCAG
tactttttactttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttaaacaaatcaatatcgatgatattcaggtcattcattacatcttccgtctactttttactttttttttatatatatttttattttattgtgtgaacagGACAGATCTTGGCGTGTTCGCTACATGGTTGCAGATCAATTATATGAGCTTTGTCATGCTGTAGGGCCTGAAGCTACCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- aaacaaa
- - - - - - - - - - - - - - - -cattcat