Sequence
atgc intronic sequence ATGC exonic sequencegtttggtgtttaatttatatgattcagttgagaatgctaagaagTGTGAGCCTAAGTACAGGCTTATCAGGAAAGGAAGAGAAATCAAGGAAGCAAATGAAGGAGAGAAAGAATAGAGCTAAGAAGATTCGTGGAGTTCAGAAG
Basic information
species | Glycine max |
transcript | GLYMA17G15660.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G15660.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G28060.1 (Arabidopsis thaliana), 3'ss of exon 3
----------------------------------------------------------------------------------------gtttggtgtttaatttata-tgattcagttg------agaatgctaagaagTGTGAGCCTAAGTACAGGCTTATCAGGAAAGGAAGAGAAATCAAGGAAGCAAATGAAGGAGAGAAAGAATAGAGCTAAGAAGATTCGTGGAGTTCAGAAG
| || | | | || || || | || | |||| | ||||| || | | ||| || || | |||||||||||||| || || |||||||| ||||| || || |||||||| ||||| ||| |||||
gtaatttctctttacttgtttgatagttaagtaaaacttttggttctagtttttagtctagcttactcttggtgctttgattttcactgctttgcgatgaaacaatggtgttgcaatctcatactgaaatgattgttgatgtgattgacagAATGGACTTGACACCAA-GATTGAGAAATCAAGGAAACAGATCAAGGAGAGGAAGAACAGGGCGAAGAAGATCCGTGGTGTTAAGAAG
upper sequence: GLYMA17G15660.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv14s0030g01620.t01 (Vitis vinifera), 3'ss of exon 3
-----------------------------gtttggtgtttaatt---------tatatgattcagttgagaatgctaagaagTGTGAGCCTAAGTA-CAGGCTTATCAGGA----AAGGAAGAGAAATCAAGGAAGCAAATGAAGGAGAGAAAGAATAGAGCTAAGAAGATTCGTGGAGTTCAGAAG
|||| ||||||| | | | || || | | | | || | || ||| | ||| |||| ||||| || |||||||||||||||||||| |||||||| | |||||| | || || || |||||
tttttaaaaaaatcacgtcttccttttttctttgaactttaattgccctcctctctctaccccattttcttcttgcattgaatttgctgtttggtggcagAATGGATTGGATACCAAGGTCGAGAAGTCTAGGAAGCAAATGAAGGAGAGGAAGAATAGGTCCAAGAAGGTCCGAGGTGTAAAGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttggtgtttaatttatatgattcagttgagaatgctaagaagTGTGAGCCTAAGTACAGGCTTATCAGGAAAGGAAGAGAAATCAAGGAAGCAAATGAAGGAGAGAAAGAATAGAGCTAAGAAGATTCGTGGAGTTCAGAAG
gtttaat putative branch site (score: 4)
tttaatttatatgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttggtgtttaatttatatgattcagttgagaatgctaagaagTGTGAGCCTAAGTACAGGCTTATCAGGAAAGGAAGAGAAATCAAGGAAGCAAATGAAGGAGAGAAAGAATAGAGCTAAGAAGATTCGTGGAGTTCAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG