Sequence
atgc intronic sequence ATGC exonic sequencegtaactatggaagcctatgtcagtgctaattacattccatttgaaacttatttgtgtttacatatttttcgttcatctgcagCTGCTCTTAAAAGGGCCAATGTTGATCCATCCCTTGTGGAAGAAGTATTTTTTGGGAATGTTCTTAGTGCTAATTTGGGGCAAGCTCCTGCAAGACAAGC
Basic information
species | Glycine max |
transcript | GLYMA14G00760.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G00760.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os09g07830.1 (Oryza sativa), 3'ss of exon 3
gtaactatggaagcctatgtcagtgctaattac---attccatttgaaacttatttgtgtttacatatttttcgt-tcatctgcagCTGCTCTTAAAAGGGCCAATGTTGATCCATCCCTTGTGGAAGAAGTATTTTTTGGGAATGTTCTTAGTGCTAATTTGGGGCAAGCTCCTGCAAGACAAGC
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gtgataccagtatcttctcata-tgctgtatgtgtaattgttcttttaacccaaatataacta-acatcatcagtgtggtgatcagCTGCTCTGAAGAGGGCAAATGTTGATCCAGCCCTTGTGCAAGAGGTCTTCTTTGGTAATGTGTTGAGTGCTAATTTGGGGCAAGCTCCTGCAAGACAAGC
upper sequence: GLYMA14G00760.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM5G866758_T02 (Zea mays), 3'ss of exon 3
gtaactatggaagcctatgtcagtgctaattacattc-catttgaaacttatttgtgtttacatatttttcgttcatctgcagCTGCTCTTAAAAGGGCCAATGTTGATCCATCCCTTGTGGAAGAAGTATTTTTTGGGAATGTTCTTAGTGCTAATTTGGGGCAAGCTCCTGCAAGACAAGC
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--------gtgag---atccgaatcttctctgcatttacatccgagctctgaacatggt--catggctgggggctgtt---agCTGCTCTGGAAAGAGCAAACGTGGATCCAGCCCTCGTGCAGGAGGTCTACTTTGGAAACGTCTTGAGTGCTAATTTGGGGCAAGCTCCTGCAAGGCAAGC
upper sequence: GLYMA14G00760.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G085474_T04 (Zea mays), 3'ss of exon 3
---gtaactatggaagcctatgt-cagtgctaattacattccatttgaaacttattt---------gtgtttacatatttttcgttca--tctgcagCTGCTCTTAAAAGGGCCAATGTTGATCCATCCCTTGTGGAAGAAGTATTTTTTGGGAATGTTCTTAGTGCTAATTTGGGGCAAGCTCCTGCAAGACAAGC
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gtgacatccaaataatctttttttctgagctacgaacattctgtatctgtttcacccccaataacagcactgacatgagcatggttggggccgttagCTGCTCTGAAAAGAGCAAATGTGGATCCGGCCCTCGTGCAGGAGGTCTTTTTCGGAAACGTCTTGAGTGCTAATTTGGGACAAGCTCCTGCAAGGCAAGC
upper sequence: GLYMA14G00760.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv12s0057g01200.t01 (Vitis vinifera), 3'ss of exon 3
---------------------------------------------------------------------------------------gtaactatggaagcctatgtcagtgctaattacattccatttgaaacttatttgtgtttacatatttttc---gttcatctgcagCTGCTCTTAAAAGGGCCAATGTTGATCCATCCCTTGTGGAAGAAGTATTTTTTGGGAATGTTCTTAGTGCTAATTTGGGGCAAGCTCCTGCAAGACAAGC
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gtcagtcaacctcctttttttgtttgtttgtttatccccattggtttattctcttttgcttcaaaatttatgggttttgatattttcataggcatttgcccccatccaatttgggactcaaattaattataaaagcaggagttcttaaatgttgttttgtgtcaacttgtagCCGCTCTTAAAAGGGCAAATGTTGATGCATCACTTGTACAAGAAGTTTTCTTTGGAAATGTTCTCAGTGCAAATTTAGGACAGGCTCCTGCTAGACAAGCMapped 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|10843553|gb|BF066841.1|BF066841EST: CCAAGCTAGGCTCTATAGCTATTGAAG CTGCTCTTAAAAGGGCCAATGTTGATCCATCCCTTGTGGAAGAAGTATTTT
genomic: CCAAGCTAGGCTCTATAGCTATTGAAGgtaactatgg ... tcatctgcagCTGCTCTTAAAAGGGCCAATGTTGATCCATCCCTTGTGGAAGAAGTATTTT
EST:
gi|192329988|gb|FK021574.1|FK021574EST: CAAGCTAGGCTCTATAGCTATTGAAG CTGCTCTTAAAAGGGCCAATGTTGATCCATCCCTTGTGGAAGAAGTATTTT
genomic: CAAGCTAGGCTCTATAGCTATTGAAGgtaactatgg ... tcatctgcagCTGCTCTTAAAAGGGCCAATGTTGATCCATCCCTTGTGGAAGAAGTATTTT
EST:
gi|37993878|gb|CF805624.1|CF805624EST: TACTCTGTCATCTCTATCTGCCACCAAGCTAGGCTCTATAGCTATTGAAG CTGCTCTTAAAAGGGCCAATGTTGATCCATCCCTTGTGGAAGAAGTATTTT
genomic: TACTCTGTCATCTCTATCTGCCACCAAGCTAGGCTCTATAGCTATTGAAGgtaactatgg ... tcatctgcagCTGCTCTTAAAAGGGCCAATGTTGATCCATCCCTTGTGGAAGAAGTATTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattacattccatttgaaacttatttgtgtttacatatttttcgttcatctgcagCTGCTCTTAAAAGGGCCAATGTTGATCCATCCCTTGTGGAAGAAGTATTTTTTGGGAATGTTCTTAGTGCTAATTTGGGGCAAGCTCCTGCAAGACAAGC
tgctaat putative branch site (score: 2)
tttttcgttcatct putative PPT
ttatttgtgtttacat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaactatggaagcctatgtcagtgctaattacattccatttgaaacttatttgtgtttacatatttttcgttcatctgcagCTGCTCTTAAAAGGGCCAATGTTGATCCATCCCTTGTGGAAGAAGTATTTTTTGGGAATGTTCTTAGTGCTAATTTGGGGCAAGCTCCTGCAAGACAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA