Sequence
atgc intronic sequence ATGC exonic sequencegtgagatacctccccctacgcctcccgatccgccccatttcgcgctcggatctgcgctatgctcgattagcgcggtaccgtttggggatttcaaatcatttttgggctcaagatctgaagtctagtgtttttctgttctactccgatggttagGGCCGTTGTTTAGGAAGACGGTTGCAGATTCCAATGCGCCGGTACAGGAGAAGGCGCTCGATGCCCTTCTCGCGTTCCAGCGAGCTGCTGACGCCGATGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G068755_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g60040.1 (Oryza sativa), 3'ss of exon 1
gtgagatacctccccctacgcctcccgatccgc-cccatttcgcgctcggatctgcgctatgctcgattagcgcggtaccgtttggggatt----tcaaatcatttttgggctcaagatctgaagtctagtgtttttctgttctactccgatggttagGGCCGTTGTTTAGGAAGACGGTTGCAGATTCCAATGCGCCGGTACAGGAGAAGGCGCTCGATGCCCTTCTCGCGTTCCAGCGAGCTGCTGACGCCGATGC
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gtgagataag-ctcccggtggctcccgatccacgcccattgcgcgctcggatccgcgccctgcttgattctcgctgtttcgtctcgttttttttttcgaggggtgttttagcgttagatctgaaggcc----cttttgtcttttccgccggtggttagGGCCGTTGTTTAAGAAGACTGTGGCGGATTCGAACGCGCCGGTGCAGGAGAAGGCGTTGGATGCCCTGCTCGCTTTCCAGCGGGCGGCTGATGCTGATGC
upper sequence: GRMZM2G068755_T03 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA20G32430.1 (Glycine max), 3'ss of exon 1
------------------------gtgagatacctcccc--ctacgcctcccgatccgccccatttcgcgctcggatctgcgctatgctcgattag--cgcggtaccgtttggggatttcaaat---------catttttg------ggctcaagatctgaagtctagtgttt---ttctgttctactccga--tggttagGGCCGTTGTTTAGGAAGACGGTTGCAGATTCCAATGCGCCGGTACAGGAGAAGGCGCTCGATGCCCTTCTCGCGTTCCAGCGAGCTGCTGACGCCGATGC
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gtcggtgtttttttttttttttttataaattttctcttcgcctagggttttcgcgttttccgatt-cgctccctgatctccg-tgtggcggatctggatgcggttttcttccgagttgttacttgttatggtacattttcgtttggtggatcttgattcgtggttttgtttttctgtttttttcttttttgaatttggcagGTCATTTTTTCAGGAAGACGGTGACGGATTCGAATGCGCCGGTGCAAGAGAAGGCGCTCGATGCATTGATTGCGTACTTGCGAGCTGCCGATGCCGACGC
upper sequence: GRMZM2G068755_T03 (Zea mays), 3'ss of exon 1
lower sequence: AT2G35630.1 (Arabidopsis thaliana), 3'ss of exon 1
-------------------------------------gtgagatacctccccctacgcctc----ccgatc----cgccccatttcgcgctcggatctgcgctatgctcg-attagcgcggtaccgtttggggatttcaaatcatttttgggctcaagatctgaagtctagtgtttttctgttctactccgatggttagGGCCGTTGTTTAGGAAGACGGTTGCAGATTCCAATGCGCCGGTACAGGAGAAGGCGCTCGATGCCCTTCTCGCGTTCCAGCGAGCTGCTGACGCCGATGC
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gtgagtttctctacctcgtttttttattattattatgttagggtttttgtttttgaagctcagatctgattagggtggtttatatcg-gtgtggatctgttttgaatttggattgttgagtgggaatgtgattggtctagggttccattttgctttacttttga--ttgaatttctgattattattttttattcgc-agGTCACTTGTTTAGGAAGACGGTGGCAGATTCTAATGCGCCGGTGCAAGAGAAAGCGCTTGATGCATTGATTGCGTTTTTGCGAGCAGCCGATTCAGATGC
upper sequence: GRMZM2G068755_T03 (Zea mays), 3'ss of exon 1
lower sequence: Vv10s0116g00490.t01 (Vitis vinifera), 3'ss of exon 1
gtgagatacctccccctacgcctcccgatccgccccatttcgcgctcggatctgcgctatgctcgattagcgcggtaccgtttggggatttcaaatcatttttgggctcaagatctgaagtctagtgtttttctgttctactccgatggttagGGCCGTTGTTTAGGAAGACGGTTGCAGATTCCAATGCGCCGGTACAGGAGAAGGCGCTCGATGCCCTTCTCGCGTTCCAGCGAGCTGCTGACGCCGATGC
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-----------------gtacgttagggttt-tcttaacgcg-gctcagatctgagtgatctgtgcgta-tttggttcgggatggtgggttggatgcggatctcggtt-gatgtct----ttttgtttttgtttggtttggtttggt--tcagGTCCGTTTTTCAAGAAGGCTGTTGCGGATTCGAATGCGCCGGTTCAGGAGAAGGCCCTCGATGCCCTAATTGCTTTTCTGAAAGCTGCCGACGCTGATGCMapped 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|71441120|gb|DR822170.1|DR822170EST: TCTATGCGACTCCATCACCGACCCTAAGGATGCCCGCCTCCGCGAGTTCG GGCCGTTGTTTAGGAAGACGGTTGCAGATTCCAATGCGCCGGTACAGGAGA
genomic: TCTATGCGACTCCATCACCGACCCTAAGGATGCCCGCCTCCGCGAGTTCGgtgagatacc ... cgatggttagGGCCGTTGTTTAGGAAGACGGTTGCAGATTCCAATGCGCCGGTACAGGAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttgggctcaagatctgaagtctagtgtttttctgttctactccgatggttagGGCCGTTGTTTAGGAAGACGGTTGCAGATTCCAATGCGCCGGTACAGGAGAAGGCGCTCGATGCCCTTCTCGCGTTCCAGCGAGCTGCTGACGCCGATGC
tttttctgttctactc CT-rich tract
tgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagatacctccccctacgcctcccgatccgccccatttcgcgctcggatctgcgctatgctcgattagcgcggtaccgtttggggatttcaaatcatttttgggctcaagatctgaagtctagtgtttttctgttctactccgatggttagGGCCGTTGTTTAGGAAGACGGTTGCAGATTCCAATGCGCCGGTACAGGAGAAGGCGCTCGATGCCCTTCTCGCGTTCCAGCGAGCTGCTGACGCCGATGC
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT