Sequence
atgc intronic sequence ATGC exonic sequence...agagccttataagttatccaatgattttgttgtgagtccttaggatttgaatttgaaaatcctgttattagttgttttcttattgttgggcctaatgcagGTACTTGCTGCTGGTGATATGTGTGCCATTTGCCAGGAGAAGATGCATGTGCCTGTTCTCCTTCGCTGTAAACATATTTTCTGTGAAGACTGTGTTTCCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G061980_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os05g25180.1 (Oryza sativa), 3'ss of exon 6
----agagccttataagttatccaatgattttgttgtgagtccttaggatttgaatttgaaaatcctgttattagttgttttcttattgttgggcctaatgcagGTACTTGCTGCTGGTGATATGTGTGCCATTTGCCAGGAGAAGATGCATGTGCCTGTTCTCCTTCGCTGTAAACATATTTTCTGTGAAGACTGTGTTTCCG
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taacacgtattcgctagttggtacttggtagcaggatacccccttgaactctcactct----atcttgtttaaagaacttgttttttgctggaacctggtgcagGTAATTGCTGCTGGTGATATGTGTGCCATCTGCCAGGAAAAGATGCATGTTCCTGTCCTCCTCCGCTGTAAACATATTTTCTGTGAGGACTGTGTCTCTG
upper sequence: GRMZM2G061980_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA04G40220.1 (Glycine max), 3'ss of exon 7
----agagccttataagttatccaatgattttgttgtgagtccttaggatttgaatttgaaaatcctgtt-attagttgttttcttattgttgggcctaatgcagGTACTTGCTGCTGGTGATATGTGTGCCATTTGCCAGGAGAAGATGCATGTGCCTGTTCTCCTTCGCTGTAAACATATTTTCTGTGAAGACTGTGTTTCCG
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ttttcctgccttaaagg--aaaaaactctttttataccaata-ttgggatttg--ttgaagaatcctttttggcagcctttctaacagtgattatctaaatgcagGTGAATGCTGCTGGTGACATGTGTGCTATATGCCAGGAGAAGATGCAGGCTCCCATATTGTTGAGCTGTAAACACATGTTCTGTGAGGAGTGTGTATCTG
upper sequence: GRMZM2G061980_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA18G45010.1 (Glycine max), 3'ss of exon 6
agagccttataagttatccaatgattttgttgtgagtccttaggatttgaatttgaaaatcctgttatt---agttgtt--ttcttattgttgggcctaatgcagGTACTTGCTGCTGGTGATATGTGTGCCATTTGCCAGGAGAAGATGCATGTGCCTGTTCTCCTTCGCTGTAAACATATTTTCTGTGAAGACTGTGTTTCCG
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--agttgtatacttca--cagtc-tgttgttaagagccatatagccttctatatgcatgtctgggagcagggagttgttcatgcctttaatttatctgatggcagGTCAATGCAGCTGGTGATCTTTGTGCTATTTGCCAGGAGAAGATGCATGCTCCCATCTTACTACGTTGTAAACATATTTTCTGTGAAGATTGCGTATCAG
upper sequence: GRMZM2G061980_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA06G14590.1 (Glycine max), 3'ss of exon 6
---agagccttataagttatccaatgattttgttgtgagtccttaggatttgaatttgaaaatcctgtt-attagttgttttcttattgttgggcctaatgcagGTACTTGCTGCTGGTGATATGTGTGCCATTTGCCAGGAGAAGATGCATGTGCCTGTTCTCCTTCGCTGTAAACATATTTTCTGTGAAGACTGTGTTTCCG
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ttttccttcctttaaggaaaaaactctttttataccaa--tattgggatttg--tcgaagaatcttttttggcagcctttctaacagtgattatctaaattcagGTGAATGCTGCTGGTGACTTGTGTGCTATATGCCAGGAGAAGATGCAGGCTCCCATATTGTTGAGCTGTAAACACATGTTCTGTGAGGAGTGTGTATCTG
upper sequence: GRMZM2G061980_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv06s0004g08300.t01 (Vitis vinifera), 3'ss of exon 7
-agagccttataagttatccaatgattttgttgtgagtccttaggatttgaatttgaaaatcctgttattagttgttttcttattgttgggcctaatgcagGTACTTGCTGCTGGTGATATGTGTGCCATTTGCCAGGAGAAGATGCATGTGCCTGTTCTCCTTCGCTGTAAACATATTTTCTGTGAAGACTGTGTTTCCG
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attattattattattattttaaggtcatagatccttcttcctggttgttttattcttgcatagtagtgttgcaatctaagttatttgtaa-tttaatgcagGTTAATGCAGCAGGGGATCTCTGTGCTATATGCCAGGAGAAGATGCATGCTCCGATTTTGCTTCGGTGTAAACACATATTTTGTGAAGACTGTGTATCAGMapped 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|211118734|gb|FL431813.1|FL431813EST: CACTGTCACGTAAAGATGTGCATTATGGGTCTTATGCGACTGCAGAACAG GTACTTGCTGCTGGTGATATGTGTGCCATTTGCCAGGAGAAGATGCATGTG
genomic: CACTGTCACGTAAAGATGTGCATTATGGGTCTTATGCGACTGCAGAACAGgtaaaataga ... cctaatgcagGTACTTGCTGCTGGTGATATGTGTGCCATTTGCCAGGAGAAGATGCATGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgaatttgaaaatcctgttattagttgttttcttattgttgggcctaatgcagGTACTTGCTGCTGGTGATATGTGTGCCATTTGCCAGGAGAAGATGCATGTGCCTGTTCTCCTTCGCTGTAAACATATTTTCTGTGAAGACTGTGTTTCCG
gcctaat putative branch site (score: 3)
ttattagttgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agagccttataagttatccaatgattttgttgtgagtccttaggatttgaatttgaaaatcctgttattagttgttttcttattgttgggcctaatgcagGTACTTGCTGCTGGTGATATGTGTGCCATTTGCCAGGAGAAGATGCATGTGCCTGTTCTCCTTCGCTGTAAACATATTTTCTGTGAAGACTGTGTTTCCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - -tttgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -attgttg