Sequence
atgc intronic sequence ATGC exonic sequence...ttagaactttgtttgtaattatctcaggggtattgtagttttagaaggatatcaatatatggatactaatttcttctaacggaatgaagtacattttcagGTGGTCTAAGATTGCTTCACATTTTCCTGGGAGGACAGACAATGAAATCAAGAACCATTGGAACACAAAAATCAAGAAGAGGTTGAAGCTCCTAGGTTTG
Basic information
species | Glycine max |
transcript | GLYMA19G07830.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G07830.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv14s0219g00050.t01 (Vitis vinifera), 3'ss of exon 2
ttagaactttgtttgtaattatctcaggggtattgtagttt--tagaaggatatcaatatatggatactaatttcttctaacggaatga-agtacattttcagGTGGTCTAAGATTGCTTCACATTTTCCTGGGAGGACAGACAATGAAATCAAGAACCATTGGAACACAAAAATCAAGAAGAGGTTGAAGCTCCTAGGTTTG
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-agaagagcggccaatatttaagcagtctttatcatcattcgatagtgggttgttggttgatg--tgtttctttctcctacctcatttacaatttttgtttagGTGGTCTAAGATTGCCTCACACTTCCCTGGTCGCACGGATAATGAAATCAAGAACCACTGGAATACACGAATCAAGAAGCGGCTAAAGCAACTGGGGTTAMapped 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|192308562|gb|FK002458.1|FK002458EST: GAAATGGAAGAGGATCAAATTATACAGCTACATTCATGTCTAGGTAACAG GTGGTCTAAGATTGCTTCACATTTTCCTGGGAGGACAGACAATGAAATCAA
genomic: GAAATGGAAGAGGATCAAATTATACAGCTACATTCATGTCTAGGTAACAGgtatatatgt ... acattttcagGTGGTCTAAGATTGCTTCACATTTTCCTGGGAGGACAGACAATGAAATCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aggatatcaatatatggatactaatttcttctaacggaatgaagtacattttcagGTGGTCTAAGATTGCTTCACATTTTCCTGGGAGGACAGACAATGAAATCAAGAACCATTGGAACACAAAAATCAAGAAGAGGTTGAAGCTCCTAGGTTTG
ttctaac putative branch site (score: 1)
cattttc putative PPT
atcaatatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttagaactttgtttgtaattatctcaggggtattgtagttttagaaggatatcaatatatggatactaatttcttctaacggaatgaagtacattttcagGTGGTCTAAGATTGCTTCACATTTTCCTGGGAGGACAGACAATGAAATCAAGAACCATTGGAACACAAAAATCAAGAAGAGGTTGAAGCTCCTAGGTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - -tgtttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaatga