Sequence
atgc intronic sequence ATGC exonic sequencegtacacgagccttgcagataaggttaatagttaatactagtgttgagcatgtaaaagctatcttgcaacctaatactaatctttagtcttttgcagCATGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G013600_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g38960.1 (Oryza sativa), 3'ss of exon 3
gtacacgagccttgcagataaggttaatagttaatactagtgttgagcatgtaaaagctatcttgcaac-ctaatactaatctttagtcttttgcagCATGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG
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gtatgt---ttctatatatcatattgcacagtattgccaat-ttgatggctaatagtttaccatacagtattaataacccttgctgttgttttatagCATGAATGCTCCAGTTATGGTTGAGCTTGAGGGAGAAACTGATCCTCTTGAG
upper sequence: GRMZM2G013600_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA10G38350.2 (Glycine max), 3'ss of exon 3
gtacacgagccttgcagataaggttaatagttaatactag-tgttgagcatgtaaaagctatcttgcaacctaatactaatctttagtctttt-------gcagCATGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG
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-----------------------------gtttgttcaggacatcgtgagcttaagattctgctcattgattatttctaacatgttgcctttctggttgagcagTATGAATGCACCTGTCATGGTTGAGTTGGAGGGGGAAACTGACCCACTTGAG
upper sequence: GRMZM2G013600_T02 (Zea mays), 3'ss of exon 3
lower sequence: AT5G51940.1 (Arabidopsis thaliana), 3'ss of exon 3
gtacacgagccttgcagataaggttaatagttaatactagtgttgagcatgtaaaagctatcttgcaacctaatactaatctttagtcttttgcagCATGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG
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--gtatggttcttgctactgagaacaatcttt----ttaatgttaaattggcttgaaa-agtttgagtcttaatgttgttttttgg-ctgatacagCATGAATGCTCCTGTCATGGTTGAGCTAGAGGGTGAGACTGATCCACTTGAGMapped 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|60400710|gb|DN233517.1|DN233517EST: GCGCAAAACAACAAAATATATGACGAAGTATGAACGTGCGCGCATTCTTG CATGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGA
genomic: GCGCAAAACAACAAAATATATGACGAAGTATGAACGTGCGCGCATTCTTGgtacacgagc ... tcttttgcagCATGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttgagcatgtaaaagctatcttgcaacctaatactaatctttagtcttttgcagCATGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG
tactaat putative branch site (score: 1)
tcttttgc putative PPT
taatactaatcttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacacgagccttgcagataaggttaatagttaatactagtgttgagcatgtaaaagctatcttgcaacctaatactaatctttagtcttttgcagCATGAATGCTCCAGTCATGGTTGAGCTTGAGGGAGAAACTGACCCTCTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA