Sequence
atgc intronic sequence ATGC exonic sequence...taatgcaaatgcatatactgtatttttgatcttaagtgacacctctttttatatttatgcggagtgggtatgcaaaatgaactttaaggtttgactgtagGAGCAACTCTTACCTGTGGTACTGGTGCTTGTGCGGTGGTTGTTGCAGCTGTTCTTGAGGGTCGAGCTGAGCGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G130332_T03 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os12g37960.1 (Oryza sativa), 3'ss of exon 7
-------------taatgcaaatgcatatactgtatttttgatcttaagtgacacctctttttatatttatgcggagtgggtatgcaaaatgaactttaaggtttgactgtagGAGCAACTCTTACCTGTGGTACTGGTGCTTGTGCGGTGGTTGTTGCAGCTGTTCTTGAGGGTCGAGCTGAGCGG
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caacattagtgcattctgtaaataactgtagtgtatgtatgtgattcagtggtatctccttttatattc-tg------aggtatacaatatatgattt------tgactgtagGTGCGACGCTTGCTTGTGGAACCGGTGCTTGTGCAGTAGTTGTTGCAGCTGTCCTCGAGGGTCGAGCTGAACGG
upper sequence: GRMZM2G130332_T03 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA03G33080.1 (Glycine max), 3'ss of exon 8
-----taatgcaaatgcatatactgtatttttgatcttaagtgacacctctttttatatttatgcgg---agt----gggtatgcaaaat-----------gaactttaaggtttgactgtagGAGCAACTCTTACCTGTGGTACTGGTGCTTGTGCGGTGGTTGTTGCAGCTGTTCTTGAGGGTCGAGCTGAGCGG
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gttagaaaatctaatatccatcttgtatcct--attagtattgttatttgttagtgcagttgttagggtaagttcaaggttcctcaaaattttatgtgggagagctcatgtttttttgtgcagGAGCAACCCTAGCCTGTGGAACTGGAGCTTGTGCTACTGTTGTTGCAGCAGTTCTTGAGGGTCGTGCTGGGAGG
upper sequence: GRMZM2G130332_T03 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA19G35780.1 (Glycine max), 3'ss of exon 7
----taatgcaaatgcatatactgtatttttgatcttaa-gtgacacctctttttata---tttatgcggagtgggtatgcaaaatga---actttaaggtttgac-tgtagGAGCAACTCTTACCTGTGGTACTGGTGCTTGTGCGGTGGTTGTTGCAGCTGTTCTTGAGGGTCGAGCTGAGCGG
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gttagaaaatctatccatctcgtgtcctattattattgttactgcagttgttggggtaagtttcaaggtgcctcaaaattttatatgggagagctcatgttttgttgtgcagGAGCAACCCTAGCCTGTGGAACTGGAGCTTGTGCTACTGTTGTTGCAGCAGTTCTTGAGGGTCGTGCTGGGAGG
upper sequence: GRMZM2G130332_T03 (Zea mays), 3'ss of exon 7
lower sequence: AT3G53580.1 (Arabidopsis thaliana), 3'ss of exon 7
taatgcaaatgcatatactgtatttttgatcttaagtgacacctctttttatatttatgcggagtgg--gtatgcaaaatgaactttaaggtttga--ctgtagGAGCAACTCTTACCTGTGGTACTGGTGCTTGTGCGGTGGTTGTTGCAGCTGTTCTTGAGGGTCGAGCTGAGCGG
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gtccgcaaattc---cccccaatcttcgaatataattctcagttgattataaacagtctctgtatccttatatgcttaatgcttacgcatacttaaaactgcagGAGCAACTTTGGCCTGTGGAACTGGAGCTTGTGCTCTGGTTGTTGCAGCAGTCCTTGAAGGTCGAGCCGACAGG
upper sequence: GRMZM2G130332_T03 (Zea mays), 3'ss of exon 7
lower sequence: Vv08s0040g02540.t01 (Vitis vinifera), 3'ss of exon 7
----------------------taatgcaaatgc-atatactgtatttttgatcttaagtg-acacctctttttata-----------tttatgcggagtgggtat---gcaaaatgaactttaaggtt-tgactgtagGAGCAACTCTTACCTGTGGTACTGGTGCTTGTGCGGTGGTTGTTGCAGCTGTTCTTGAGGGTCGAGCTGAGCGG
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gttagttcttactacctgaaaattgtgcagtcactgtaatttatattgcctatgtaaattgtgcagtcactgtaataggagcaatgggcctgttttggttgtttatttcggaagcttaatcctatcattctgagtgcagGAGCAACTCTAGCCTGTGGAACTGGAGCTTGTGCAGTGGTTGTTGCAGCAGTTCTTGAGGGTCATGCTGGGAGGMapped 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|211026296|gb|FL344450.1|FL344450EST: GGTTTTGTCTCGCTCACACCTCAAAATGCGAGTCTGGGAACGTGGTGCTG GAGCAACTCTTGCCTGTGGTACTGGTGCTTGTGCGGTGGTTGTTGCAGCTG
genomic: GGTTTTGTCTCGCTCACACCTCAAAATGCGAGTCTGGGAACGTGGTGCTGgtatgattaa ... ttgactgtagGAGCAACTCTTACCTGTGGTACTGGTGCTTGTGCGGTGGTTGTTGCAGCTG
EST:
gi|24773782|gb|CA409036.1|CA409036EST: GGTTTTGTCTCGCTCACACCTCAAAATGCGAGTCTGGGAACGTGGTGCTG GAGCAACTCTTGCCTGTGGTACTGGTGCTTGTGCGGTGGTTGTTGCAGCTG
genomic: GGTTTTGTCTCGCTCACACCTCAAAATGCGAGTCTGGGAACGTGGTGCTGgtatgattaa ... ttgactgtagGAGCAACTCTTACCTGTGGTACTGGTGCTTGTGCGGTGGTTGTTGCAGCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttatatttatgcggagtgggtatgcaaaatgaactttaaggtttgactgtagGAGCAACTCTTACCTGTGGTACTGGTGCTTGTGCGGTGGTTGTTGCAGCTGTTCTTGAGGGTCGAGCTGAGCGG
gtttgac putative branch site (score: 4)
aaaatgaactttaa 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
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taatgcaaatgcatatactgtatttttgatcttaagtgacacctctttttatatttatgcggagtgggtatgcaaaatgaactttaaggtttgactgtagGAGCAACTCTTACCTGTGGTACTGGTGCTTGTGCGGTGGTTGTTGCAGCTGTTCTTGAGGGTCGAGCTGAGCGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA