Sequence
atgc intronic sequence ATGC exonic sequence...tgacgaagtctaggtttctatgaattgtttagttaattattattattattattgatagacagttaattaattaattaattaattgttgttggaaaaatagATATTCGGGTTTGTGCCGGATGGTGCAAAAGCTTGTGAACATTTTGAAGCAGATGGACCCGAGAGATCCTTTCCGAATTGAGATGACTGACATGCTTTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0083g00950.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os04g56670.2 (Oryza sativa), 3'ss of exon 2
--------------------------------------------tgacgaagtctaggtt--tctatgaattgtttagttaattattattattattattgatagacagttaattaat--taattaattaatt-gttgttggaaa--aatagATATTCGGGTTTGTGCCGGATGGTGCAAAAGCTTGTGAACATTTTGAAGCAGATGGACCCGAGAGATCCTTTCCGAATTGAGATGACTGACATGCTTTTG
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gtactaactcatctctctctccagagtatcaactcgtaccttatcggttggttaaaggattatctgtgtgttctttcgcgttttactgttcatcctgtccatggacatggatttgctgcaaatttgtgattttgtttttgggtggtggcagGTACAATGGCATATGCCTGATGGTGCAAAAGCTCGTCAACATTATAAAGCAAATGGACCCGAGAGACCCTTACAGAGCGGAGATGACAGACATGTTGCTC
upper sequence: Vv14s0083g00950.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G053767_T04 (Zea mays), 3'ss of exon 2
--------------------------------tgacgaagtctaggtttctatgaattgt-ttagttaattattattattattat-tgatagacagttaattaattaattaattaattgt-tgttggaaa----------------aatagATATTCGGGTTTGTGCCGGATGGTGCAAAAGCTTGTGAACATTTTGAAGCAGATGGACCCGAGAGATCCTTTCCGAATTGAGATGACTGACATGCTTTTG
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gtgggttttttctatccccgctatctcttgcttgcctgtttaatcatctctgtagtttgtattggatcagtagtaggattgctttatgttgaattctcaacgaagcatttgatcaaggatacactgaaaattttggactgttgggtggcagGTACAATGGGATATGCTTAATGGTGCAAAAGCTCGTTAACATCATAAAGCAGATGGACCCAAGAGACCCTTTCAGAATCCAGATGACAGACTTGATTCTC
upper sequence: Vv14s0083g00950.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA20G30110.2 (Glycine max), 3'ss of exon 2
-------tgacgaagtctaggtttctatgaattgtttagttaattattattattatta-ttgatagacagttaattaattaattaattaattgttgttggaaaaatagATATTCGGGTTTGTGCCGGATGGTGCAAAAGCTTGTGAACATTTTGAAGCAGATGGACCCGAGAGATCCTTTCCGAATTGAGATGACTGACATGCTTTTG
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gtattatttatattttctcatgctatgcaatttcctctgttttagattttagcttttagctgacacgtt-ttatttttttgcctatgggatggtggaaatgtgaatagATATTCAGGTTTATGCCATATGGTTCAGAAGTTAGTAAACATATTGAAACAGATGGACCCAAAGGATCCTTTTCGGGTTGATATGACTGATAAGCTTTTGMapped 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|26262363|gb|CA813426.1|CA813426EST: GCCCATGTTATGCACCGCTACCATGTCACGGGCCGAGACGATTACAAAAA ATATTCGGGTTTGTGCCGGATGGTGCAAAAGCTTGTGAACATTTTGAAGCA
genomic: GCCCATGTTATGCACCGCTACCATGTCACGGGCCGAGACGATTACAAAAAgtaaacccca ... ggaaaaatagATATTCGGGTTTGTGCCGGATGGTGCAAAAGCTTGTGAACATTTTGAAGCA
EST:
gi|351012591|gb|FQ430155.1|FQ430155EST: GCCCATGTTATGCACCGCTACCATGTCACGGGCCGAGACGATTACAAAAA ATATTCGGGTTTGTGCCGGATGGTGCAAAAGCTTGTGAACATTTTGAAGCA
genomic: GCCCATGTTATGCACCGCTACCATGTCACGGGCCGAGACGATTACAAAAAgtaaacccca ... ggaaaaatagATATTCGGGTTTGTGCCGGATGGTGCAAAAGCTTGTGAACATTTTGAAGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttattattgatagacagttaattaattaattaattaattgttgttggaaaaatagATATTCGGGTTTGTGCCGGATGGTGCAAAAGCTTGTGAACATTTTGAAGCAGATGGACCCGAGAGATCCTTTCCGAATTGAGATGACTGACATGCTTTTG
aattaat putative branch site (score: 3)
agttaattaattaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgacgaagtctaggtttctatgaattgtttagttaattattattattattattgatagacagttaattaattaattaattaattgttgttggaaaaatagATATTCGGGTTTGTGCCGGATGGTGCAAAAGCTTGTGAACATTTTGAAGCAGATGGACCCGAGAGATCCTTTCCGAATTGAGATGACTGACATGCTTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - -ctatgaa