Sequence
atgc intronic sequence ATGC exonic sequencegttttcattcaatttaatcacctgaactattccatttatgctttctccatctccagcccccttttcctcatgttgtttccttatggttgcagATTTTTTCAACTGGAACAGAGTGAAAATTCGTTATTGTGATGGTGCCTCTTTTGCTGGGGATGGTGAAGATAAG
Basic information
species | Glycine max |
transcript | GLYMA20G22210.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G22210.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os07g44070.2 (Oryza sativa), 3'ss of exon 3
gttttcattcaatttaatc--acctgaactattccattt--atgct-ttctccatctccagcccccttttcctcatg-ttgtttccttatggttgcagATTTTTTCAACTGGAACAGAGTGAAAATTCGTTATTGTGATGGTGCCTCTTTTGCTGGGGATGGTGAAGATAAG
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gtattctttcgatcaattctgtcttgatatagttcatgcgaatattgctattaattattggtggctgacaaattatgactgtgctctcttcttcttagATTTCTACAACTGGAACAGAGTGAAGGTTCGATATTGTGATGGCGGATCCTTCACTGGTGATGGGGCTGATGCG
upper sequence: GLYMA20G22210.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0060g00230.t01 (Vitis vinifera), 3'ss of exon 3
gttttcattcaa--------tttaatcacctgaactattccatttatgct-ttctccatctccagccccc-------ttttcctcatgtt--gtttcc--ttatggttgcagATTTTTTCAACTGGAACAGAGTGAAAATTCGTTATTGTGATGGTGCCTCTTTTGCTGGGGATGGTGAAGATAAG
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gtttcttctcaaactttatgttgacttgtcaagacaaatcaactgatgatattctccatttttagtttctccagatttttctgtcatgaaaagtttctaattccatgtgcagATTTTTTCAACTGGAATAGAGTAAAGCTTCGTTATTGTGATGGTGCCTCTTTTACTGGTGACAGCCAAAATCAGMapped 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|209721654|gb|BW672327.1|BW672327EST: ACAGATACCTTTTACAGGAATATTAAGCAACAGTGCTGAAGATAATCCAG ATTTTTTCAACTGGA
genomic: ACAGATACCTTTTACAGGAATATTAAGCAACAGTGCTGAAGATAATCCAGgttttcattc ... atggttgcagATTTTTTCAACTGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgctttctccatctccagcccccttttcctcatgttgtttccttatggttgcagATTTTTTCAACTGGAACAGAGTGAAAATTCGTTATTGTGATGGTGCCTCTTTTGCTGGGGATGGTGAAGATAAG
cccccttttcctcatg CT-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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttttcattcaatttaatcacctgaactattccatttatgctttctccatctccagcccccttttcctcatgttgtttccttatggttgcagATTTTTTCAACTGGAACAGAGTGAAAATTCGTTATTGTGATGGTGCCTCTTTTGCTGGGGATGGTGAAGATAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA