Sequence
atgc intronic sequence ATGC exonic sequencegtaggttgctagttatatgacaccgattgacgaatttctttttcatgttcaatagaaaattatttatattcatgggttttcttaatactatcctattatagTGGTCCACGCTGCGGTCTTGGTGAACTCATTCTTCCTGAAAACGAACCAGGGAGCAGTATCATGCCT
Basic information
species | Glycine max |
transcript | GLYMA02G01920.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G01920.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G50950.2 (Arabidopsis thaliana), 3'ss of exon 10
---------------------------------------gtaggttgcta--gttatatgacaccgattgacgaatttctttttcat--gttcaatagaaaattatttatattcatgggttttcttaatactatcctattatagTGGTCCACGCTGCGGTCTTGGTGAACTCATTCTTCCTGAAAACGAACCAGGGAGCAGTATCATGCCT
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gtacgttatctaatattttttaatctttcttcaagatgtacatgttcttatgataatttaacatgtctttatatatactttatatagTGGTCCAAGATGTATTCTTATGATATTTTAACATGTCTTTATATATACTTTATATAGTGGTCCAAGATGTGGTCTTGGTGAACTTTCTCTGCCTGAGAATGAACCAGGAAGCAGTATTATGCCT
upper sequence: GLYMA02G01920.1 (Glycine max), 3'ss of exon 10
lower sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 11
gtaggttgctagttatatgacaccgattgacgaatttctttttcatgttcaatagaaaattatttatattcatgggttttcttaatactatcctattatagTGGTCCACGCTGCGGTCTTGGTGAACTCATTCTTCCTGAAAACGAACCAGGGAGCAGTATCATGCCT
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--------------gtatggatctaatctatagggattatttttttctttctttaacatgcact-atgtccttatggtttacca----tgtctttatatagTGGCCCAAGATGTGGTCTTGGTGAACTTGTACTACCTGAAAATGAGCCAGGAAGCAGTATCATGCCT
upper sequence: GLYMA02G01920.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv07s0005g00880.t01 (Vitis vinifera), 3'ss of exon 11
gtaggt-tgctagttatatgacaccgattgacgaatttctttttcatgttcaatagaaaattatttatattcatgggttttcttaatactatcctattatagTGGTCCACGCTGCGGTCTTGGTGAACTCATTCTTCCTGAAAACGAACCAGGGAGCAGTATCATGCCT
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gtatgtatgctagttggatagc-----cttacagtttctatcgttttgctttatt--------tttgtggtcatcactctgcttt------tccttgctcagTGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttcaatagaaaattatttatattcatgggttttcttaatactatcctattatagTGGTCCACGCTGCGGTCTTGGTGAACTCATTCTTCCTGAAAACGAACCAGGGAGCAGTATCATGCCT
tcttaat putative branch site (score: 3)
ctatcct CT-rich tract
atagaaaattatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggttgctagttatatgacaccgattgacgaatttctttttcatgttcaatagaaaattatttatattcatgggttttcttaatactatcctattatagTGGTCCACGCTGCGGTCTTGGTGAACTCATTCTTCCTGAAAACGAACCAGGGAGCAGTATCATGCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG