Sequence
atgc intronic sequence ATGC exonic sequence...tctgtgtcttgttatttttgccccttgcatctttgttgatgacaatgagtcttctacattacataattgaaatatacttcttttgttacattgtgcttaaGTGAAAACAAGCCCTAGCTTTGCTGAAGCTGCTATGGGGAGAATTGCCCAGGGAACAAAGGTCCTGGCAGAAGGTGGATATGAGAAGATTTTCCTGAATA
Basic information
species | Glycine max |
transcript | GLYMA18G21080.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G21080.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G40100.1 (Arabidopsis thaliana), 3'ss of exon 2
tctgtgtcttgttatttttgccccttgcatctttgttgatgacaatgagtcttctacattacataattgaaatatacttcttttgttacattgtgcttaaGTGAAAACAAGCCCTAGCTTTGCTGAAGCTGCTATGGGGAGAATTGCCCAGGGAACAAAGGTCCTGGCAGAAGGTGGATATGAGAAGATTTTCCTGAATA-------------------
| ||||| ||| || || | || ||||| | | | || || ||| | | || | | || ||| | ||| |||||||| || |||||||| ||||| ||||| |||||||| || | |||||||| ||||||||||| ||||||||||| |||||| | | |
-----cttttgttttttctgtttattctgtgatt--tgatg-----ggattatttatggtaactaactattaaatcttgatatt----catcataatta-gtgaaaactgctccgagCTTTGC--GTGCTGCAATGGGAAGAATTGCACAAAGTACAAAGGTTCTGGCAGAAGGAGGATATGAGAAAATTTTCAGGCAAACCTTTGAAACTGTTCCAGA
upper sequence: GLYMA18G21080.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G22475.1 (Arabidopsis thaliana), 3'ss of exon 2
tctgtgtcttgttatttttgccccttgcatctttg-ttgatgacaatgagtcttctacat-tacataattgaaatatacttcttttgttacattgtgcttaaGTGAAAACAAGCCCTAGCTTTGCTGAAGCTGCTATGGGGAGAATTGCCCAGGGAACAAAGGTCCTGGCAGAAGGTGGATATGAGAAGATTTTCCTGAATA-
|| | |||| | | || | || | | |||| || | || ||| | || || | ||||| |||| ||| | | || || | | ||||| ||| || || ||||| || ||||| ||||| |||||||| ||| | ||||||||| | |||||||| |||||||||||||| |||| | |
-ctcttccttgat-tggatgtgctttacttgtttgattcgctagcattttcattcaagatctatctgattgatatat-cttataatcttctctttttaatcagTGAGAACTGCTCCGAGTTTTGCGGATGCTGCAATGGGAAGAATTGCACAGAGTACAAAGGTCTTTGCAGAAGGAGGATATGAGAAGATATTCCGACAAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgagtcttctacattacataattgaaatatacttcttttgttacattgtgcttaaGTGAAAACAAGCCCTAGCTTTGCTGAAGCTGCTATGGGGAGAATTGCCCAGGGAACAAAGGTCCTGGCAGAAGGTGGATATGAGAAGATTTTCCTGAATA
attacataattgaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctgtgtcttgttatttttgccccttgcatctttgttgatgacaatgagtcttctacattacataattgaaatatacttcttttgttacattgtgcttaaGTGAAAACAAGCCCTAGCTTTGCTGAAGCTGCTATGGGGAGAATTGCCCAGGGAACAAAGGTCCTGGCAGAAGGTGGATATGAGAAGATTTTCCTGAATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - tgtcttg
- - - - - - - - - tgcccct
- - - - - - - - - - - - -tgcatct
- - - - - - - - - - - - - - - - - - tgatgac
- - - - - - - - - - - - - - - - - - - - - - - - - cttctac