Sequence
atgc intronic sequence ATGC exonic sequence...atcctaatcatgccacatttgtctacatttttctgcacttttagtattcaacagaaatattaccacaatttaaaaccatactttggtctgaacattacagGTTGAGGTATTGAGTTGCATTAGGCATCCAAACATGGTTCTCCTCCTAGGAGCCTGCCCTGAGTACGGCTGTCTTGTGTATGAGCACATGTCAAACGGAA
Basic information
species | Glycine max |
transcript | GLYMA14G18380.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G18380.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os02g12660.1 (Oryza sativa), 3'ss of exon 7
atcctaatcat-gccacatttgtctacatttttctgcacttttagtattcaacagaa-atattaccacaatttaaaaccatactttggtctgaacatta--cagGTTGAGGTATTGAGTTGCATTAGGCATCCAAACATGGTTCTCCTCCTAGGAGCCTGCCCTGAGTACGGCTGTCTTGTGTATGAGCACATGTCAAACGGAA
||| || | || | | | | | || |||| | || | | || | | | || || ||| | || ||| | || || | || ||||| ||||||||||||||||| || || || ||||| ||||| |||||||| || || ||||| ||| ||||| |||| |
--tttaaccaaagtcaaaacgactcataatctgaaacagagggagtaattaataaactgcatggtgatgaat--aagttgtaatttatttattttgttgttcagATAGAAGTGCTTAGCTGCATGAGGCATCCAAACATGGTGCTGCTGCTGGGAGCATGCCCGGAGTACGGGTGCCTGGTGTACGAGTACATGGACTACGGCA
upper sequence: GLYMA14G18380.1 (Glycine max), 3'ss of exon 10
lower sequence: AT2G24370.1 (Arabidopsis thaliana), 3'ss of exon 8
atcctaatcatgccacatttgtctacatttttctgcacttttagt-attcaacagaaatattaccacaatttaaaaccatactttggtctgaacattacagGTTGAGGTATTGAGTTGCATTAGGCATCCAAACATGGTTCTCCTCCTAGGAGCCTGCCCTGAGTACGGCTGTCTTGTGTATGAGCACATGTCAAACGGAA
| ||| || || || | | | || | | ||||| | | | | || |||| | || | | | |||||| ||||||||||| |||||||||||||| ||||||||||| || || || || || || || | ||| ||| | || || ||| |||| | || || |
------gtaatgacatcttgtaataaagtcacatcagtttctccttattcatttg--tttctttctcattttaga-----------gttttgaaaacacagGTCGAGGTATTGAGCTGCATTAGGCATCCGAACATGGTTCTACTTCTTGGGGCTTGTCCGGAATGCGGATGTTTAGTCTACGAGTTCATGGCTAATGGGA
upper sequence: GLYMA14G18380.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv04s0008g02910.t01 (Vitis vinifera), 3'ss of exon 8
atcctaatcatgccacatttgtctacatttttctgcacttttagtattcaacagaaatattaccacaatt--taaaaccatactttggtctgaacat---tacagGTTGAGGTATTGAGTTGCATTAGGCATCCAAACATGGTTCTCCTCCTAGGAGCCTGCCCTGAGTACGGCTGTCTTGTGTATGAGCACATGTCAAACGGAA
|| | || | | | ||||| | | | ||| | || | || || | || |||| || | || | || | | | |||||||| || | || ||||| | ||||| ||||||||||||||||| ||||||||||| ||||| || || | || |||||| ||||| | || || |
attccaagc-tatga-atttg---attctgaacagcaaactgagcttcttactagaactgtttcagaattagcaaggctgtatatatgtttctttctgcttgcagGTTGAAGTTCTCAGCTGCATACGCCATCCTAACATGGTTCTCCTCCTGGGAGCCTGCCCAGAGTATGGATGCTTGGTCTATGAGTACATGGCTAATGGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attcaacagaaatattaccacaatttaaaaccatactttggtctgaacattacagGTTGAGGTATTGAGTTGCATTAGGCATCCAAACATGGTTCTCCTCCTAGGAGCCTGCCCTGAGTACGGCTGTCTTGTGTATGAGCACATGTCAAACGGAA
aaatattaccacaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcctaatcatgccacatttgtctacatttttctgcacttttagtattcaacagaaatattaccacaatttaaaaccatactttggtctgaacattacagGTTGAGGTATTGAGTTGCATTAGGCATCCAAACATGGTTCTCCTCCTAGGAGCCTGCCCTGAGTACGGCTGTCTTGTGTATGAGCACATGTCAAACGGAA
- - - - catgcca
- - - - - - - - - - - ctacatt
- - - - - - - - - - - - - - - - -tgcactt
- - - - - - - - - - - - - - - - - - - - - - - - -aacagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -accacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatact