Sequence
atgc intronic sequence ATGC exonic sequence...gctagctgtgggggcagtcagatatggactccatttgcctaaccctcgtctcaccattgattatttgttcctgacatagcttattctcttgaatccacagGCTCTTGAGGGATACGGCGCCGTCCACGACCCCAACTTCCG
Basic information
species | Glycine max |
transcript | GLYMA08G35510.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G35510.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G54230.1 (Arabidopsis thaliana), 3'ss of exon 3
-------------------------------------------------------------------------------------gctagctgtgggggcagtcagatatggactccatttgcctaaccctcgtctcaccattgattatttgttcctgacatagcttattctcttgaatccacagGCTCTTGAGGGATACGGCGCCGTCCACGACCCCAACTTCCG
| || |||| | ||| |||| ||||| |||| | || |||| |||||| |||||||||||||||||||| ||| ||||||||| ||||| || || | || || || || ||
gtaattgtggttttctccttacatatatgggatgataaacaagatatttttagggatgttatgaatctcaactcatccgtggagtgagagacttgggagagtgaggatgtggatgggatttggctaatgtaatatccgtcaatgat-gtttgttgctgacatagcttattctcttcaattcacagGCTCCGGAGGGTTATGGTACTCAGCATGATCCAAATCATCG
upper sequence: GLYMA08G35510.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv02s0012g00870.t01 (Vitis vinifera), 3'ss of exon 1
---------------------------------------------------------------------------------------------------gctagctgtgggggcagtcagatatggactccatttgcctaaccctcgtctcaccattgattatttgttcctgacatagcttattctcttgaatccacagGCTCTTGAGGGATACGGCGCCGTCCACGACCCCAACTTCCG
| ||| |||||| |||||||| | ||||||||| |||||| || |||||||||||| ||||||||||||||||||||||||||||||||| | ||||| || || || || || ||| | ||||||||
gtttcctccttaatcacctatatgggatgataatacaagaaattagggctcttctgattgtccattttttatggcatctcatccttaagaacaatgagagaaagccgtggggcattgaggatatggaatggatttgccta--cctcgtacca----tgattatttgttgctgacatagcttattctcttgaatccacagGCTTTGGAGGGGTATGGAGCTGTTCATGACGCAAACTTCCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcgtctcaccattgattatttgttcctgacatagcttattctcttgaatccacagGCTCTTGAGGGATACGGCGCCGTCCACGACCCCAACTTCCG
tcctgac putative branch site (score: 2)
ttctcttg putative PPT
attgattatttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gctagctgtgggggcagtcagatatggactccatttgcctaaccctcgtctcaccattgattatttgttcctgacatagcttattctcttgaatccacagGCTCTTGAGGGATACGGCGCCGTCCACGACCCCAACTTCCG
- - - -gtggggg
- - - - - - - - - - - - - - - -catttgc
- - - - - - - - - - - - - - - - - - - ctaaccc
- - - - - - - - - - - - - - - - - - - - - - - - - tcaccat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctgaca