Sequence
atgc intronic sequence ATGC exonic sequencegtatagtgatttgtaatgtttttatttatttattttgtttgctcaattaactatcacattcccttctactgttatgctaaaagttttatttgttctcagCTTCAACGCCAGATGAAGATTGCAGAACTGAAACAGATTTTCTCTAGGCCTGATGTTGTTGAG
Basic information
species | Glycine max |
transcript | GLYMA07G31350.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G31350.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os02g58090.2 (Oryza sativa), 3'ss of exon 3
----gtatagtgatttgtaatgtttttatttatttattttgtttgctcaattaactatcacattcccttctactgttatgctaaaagttttatttg---ttctcagCTTCAACGCCAGATGAAGATTGCAGAACTGAAACAGATTTTCTCTAGGCCTGATGTTGTTGAG
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gttcgttcttcgcatctccctattgttgataacatgtttcagtgcctccatcttccttc-tatgttaattcacc-ttaagcttaagtttttctttccgttttttagCTACAACGAAGGATGAAGATTGCAGAACTGAAACAGATATGCAATAGACCTGATGTTGTGGAG
upper sequence: GLYMA07G31350.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G21660.1 (Arabidopsis thaliana), 3'ss of exon 2
gtatagtgatttgtaatgtttttatttatttattttgtttgctcaattaact--atcacattcccttctactgttatgctaaaagttttatttgttctcagCTTCAACGCCAGATGAAGATTGCAGAACTGAAACAGATTTTCTCTAGGCCTGATGTTGTTGAG
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------------gtatagctcaaaccttattattacct---ctcaatttgttttattgcattctttagattctgaatattctgaatttctgtt-tcctcagCTTCAACGGAGAATGAAGATTGCTGAGCTGAAGCAGGTTTCCGCTAGGCCTGATGTTGTTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattaactatcacattcccttctactgttatgctaaaagttttatttgttctcagCTTCAACGCCAGATGAAGATTGCAGAACTGAAACAGATTTTCTCTAGGCCTGATGTTGTTGAG
tgctaaa putative branch site (score: 2)
ttttatttgttctc putative PPT
taaaagttttatttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatagtgatttgtaatgtttttatttatttattttgtttgctcaattaactatcacattcccttctactgttatgctaaaagttttatttgttctcagCTTCAACGCCAGATGAAGATTGCAGAACTGAAACAGATTTTCTCTAGGCCTGATGTTGTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA