Sequence
atgc intronic sequence ATGC exonic sequence...aaaaccttgtctctttttttcccttacttcaatgtaaggcagagctcctgccactttccttaaaaataaataaataataaatacttacaatgctctgcagCTGGCCAGGAGAGGTTTAGGACAATAACTAGTTCTTACTACAGAGGTGCTCAGGGAATTATTTTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G809265_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os10g31830.2 (Oryza sativa), 3'ss of exon 2
aaaaccttgtctctttttttcccttacttcaatgtaaggcagagctcctgccactttccttaaaaa--taaataaataataaatact--tacaatgctctgcagCTGGCCAGGAGAGGTTTAGGACAATAACTAGTTCTTACTACAGAGGTGCTCAGGGAATTATTTTAG
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-aaacaaaatgaaccatgctattgt---tgaatggaaaatggattactttacagtatttccaatatctcaaatattctgacagcactattatgttgtgttgcagCTGGCCAGGAGAGGTTTAGGACAATTACTAGTTCTTACTACAGAGGTGCTCAAGGCATTATTCTAG
upper sequence: GRMZM5G809265_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA13G20970.1 (Glycine max), 3'ss of exon 2
-----------------------------------------------------------------------------------aaaaccttgtctctttttttcccttacttcaatgtaaggcagagctcctgccactttccttaaaaataaat--aaat--aataaatac--ttacaa-tgctctgcagCTGGCCAGGAGAGGTTTAGGACAATAACTAGTTCTTACTACAGAGGTGCTCAGGGAATTATTTTAG
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gtaataaaaactcgaatctttagctgctagttcatgaattggaccatttttaagtttctggcatcatgtggattgaatgcaaacaaatataatgaaatatttcttatagggtctttct--gttcaatcactttccattgaccaaaatggttgattgaagtggaattaataacattacatctatattgcagCTGGGCAGGAAAGGTTCAGAACGCTAACTAGTTCTTACTATAGAGGAGCACAGGGAATTATTCTTGMapped 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|211183625|gb|FL445775.1|FL445775EST: TGACAATATGGGATACTG CTGGCCAGGAGAGGTTTAGGACAATAACTAGTTCTTACTACAGAGGTGCTC
genomic: TGACAATATGGGATACCGgtaagaactt ... tgctctgcagCTGGCCAGGAGAGGTTTAGGACAATAACTAGTTCTTACTACAGAGGTGCTC
EST:
gi|211479208|gb|FL282801.1|FL282801EST: GTTCCTTACAGTTGGTGGAAAGAAACTAAAGTTGACAATATGGGATACCG CTGGCCAGGAGAGGTTTAGGACAATAACTAGTTCTTACTACAGAGGTGCTC
genomic: GTTCCTTACAGTTGGTGGAAAGAAACTAAAGTTGACAATATGGGATACCGgtaagaactt ... tgctctgcagCTGGCCAGGAGAGGTTTAGGACAATAACTAGTTCTTACTACAGAGGTGCTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcctgccactttccttaaaaataaataaataataaatacttacaatgctctgcagCTGGCCAGGAGAGGTTTAGGACAATAACTAGTTCTTACTACAGAGGTGCTCAGGGAATTATTTTAG
tacttac putative branch site (score: 1)
actttccttaaaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaaccttgtctctttttttcccttacttcaatgtaaggcagagctcctgccactttccttaaaaataaataaataataaatacttacaatgctctgcagCTGGCCAGGAGAGGTTTAGGACAATAACTAGTTCTTACTACAGAGGTGCTCAGGGAATTATTTTAG
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