Sequence
atgc intronic sequence ATGC exonic sequencegtaagtattatccattaagaatccttcatgttatttaaaaatcatctctctgcgagccaataattttgactttgtaatcaaatatggccactgtgattacagATAAGAACATCTCTTCAGGTTTTGGCTCTGCAGCGAGAGGGTAACACG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G24120.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G24120.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA04G24350.1 (Glycine max), 3'ss of exon 10
gtaagtattatccattaagaatccttcatgttatt-taaaaatcatctctctgcgagccaataattttgactttgtaatcaaatatggccactgtgattacagATAAGAACATCTCTTCAGGTTTTGGCTCTGCAGCGAGAGGGTAACACG
| || | |||| || || || ||| || || | | || || | || || |||| | || | | || | ||||||||||||||||||||| |||||||| ||||| | ||||| | | |
-caggtgccaataattatacatt-ttaataaaattatatggattttaaactttttggctgatctccat-acattttaataatgaatctcaccatggactgcagATAAGAACATCTCTTCAGCTTTTGGCTTTGCAGAGGGAGGGAAGCGCA
upper sequence: AT2G24120.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA06G24890.1 (Glycine max), 3'ss of exon 8
gtaagtattatccattaagaatcct--tcatgttatttaaaaatcatctctctgcgagccaataattttg-actttgtaatcaaatatggccactgtgattacagATAAGAACATCTCTTCAGGTTTTGGCTCTGCAGCGAGAGGGTAACACG
| || | || || | | | |||| | | | | || | || || || | | ||| | ||| | ||| | | | ||||||||||||||||||||| |||||||| ||||| | ||||| | |
ccaggtgccgataactatacattttaataaaattatatggatttaaactttttg---gctgatctccatacattttaataatgaatctaaccatgg--actgcagATAAGAACATCTCTTCAGCTTTTGGCTTTGCAGAGGGAGGGAAGTGCA
upper sequence: AT2G24120.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: Vv11s0037g00630.t01 (Vitis vinifera), 3'ss of exon 15
gtaagtattatccattaagaatccttcatgttatttaaaaatc-atctctctgcgagccaataattttgactttgtaatcaaatatggccactgtgattacagATAAGAACATCTCTTCAGGTTTTGGCTCTGCAGCGAGAGGGTAACACG
| || | | || | | | |||| || || || | | | | | | || |||| | | | | || || ||||||||||| ||||| || |||||||| ||||||||||||||| | |
gaaacttacttaaatcagagttagaccctgttggcactgtgtctatttccttattaaatagtg-tggtaacagtgtagttacttcca--tattggccttgcagATAAGAACTTCTCTACAAGTTTTGGCCTTGCAGCGAGAGGGTAGCGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctctgcgagccaataattttgactttgtaatcaaatatggccactgtgattacagATAAGAACATCTCTTCAGGTTTTGGCTCTGCAGCGAGAGGGTAACACG
ttttgac putative branch site (score: 3)
aataattttgactttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtattatccattaagaatccttcatgttatttaaaaatcatctctctgcgagccaataattttgactttgtaatcaaatatggccactgtgattacagATAAGAACATCTCTTCAGGTTTTGGCTCTGCAGCGAGAGGGTAACACG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG