Sequence
atgc intronic sequence ATGC exonic sequence...tccatactcttttcccttatattatttatacaataaaattactgcctctcattcttcacttgaattctcatgtgttgcgatcaaacataaaatcctgcagCCTCAAGCAAGGGAGAAAGGTGAAAAAGAGGGGTTTGAAGTAAGTGTTGCCAAAACAAGTTTTAAAGCTAACACAAAGGCTCTAGCAGAAAACGAAGGAG
Basic information
species | Glycine max |
transcript | GLYMA07G37050.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G37050.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G145595_T01 (Zea mays), 3'ss of exon 11
-------------------------------------------------------------tccatactcttttccct--tatattatttatacaataaaattactgcct--------ctcattcttcacttgaatt----ctcatgtgttgcgat--caaacataa-----aatcctgcagCCTCAAGCAAGGGAGAAAGGTGAAAAAGAGGGGTTTGAAGTAAGTGTTGCCAAAACAAGTTTTAAAGCTAACACAAAGGCTCTAGCAGAAAACGAAGGAG
| | ||| || || | | | | | ||||||| || | | ||| | ||| |||| | || || ||| || ||| | ||||||| || || |||||||| | ||| || || || |||||| ||||||||| || || |||||||| |||||||||||||| || ||||| || |||||||
gtaagtgagataccattctccaatattacattctctgttcaacatagttgaaatctgcttggtaaagttaatttgactagtacactttcttaagtataaaatcacaacttgtttccaactcttgctttgcttggctagcaaaccaatctttacgactctaatcattgttcctgcttttgcagCCACAGGCTAGGGAGAAGGCTGACAAGGAAGGATTTGAAATAAGTGTTGTAAAGACCAGTTTTAAGGCTAACACAAAGGCCCTGGCAGAGAATGAAGGAG
upper sequence: GLYMA07G37050.1 (Glycine max), 3'ss of exon 11
lower sequence: AT3G16950.2 (Arabidopsis thaliana), 3'ss of exon 11
-----tccatactcttttccct---tatattatttatacaataaaattactgcctctcattcttcacttgaattctcatgtgttgcgatcaaacataaaatcctgcagCCTCAAGCAAGGGAGAAAGGTGAAAAAGAGGGGTTTGAAGTAAGTGTTGCCAAAACAAGTTTTAAAGCTAACACAAAGGCTCTAGCAGAAAACGAAGGAG
| ||| || | | | || | | ||| || | | ||| | | | | | || | | |||| | |||||||||||| || ||||| || || || || ||| |||| ||||||| ||| |||||||| || |||||||||||||| ||||| ||||| |||||||
gtagttttatatcctagtacttgtgtacagaagagggtcaaaaagaagaatgctatgagcaaaatatgcttactgtaactccttatgttttgacatta---ttgctagCCTCAAGCAAAAGAAAAAGGCGAGAAGGAAGGATTTAAAGTTAGTGTTGTCAAGACAAGTTTCAAGGCTAACACAAAGGCCCTAGCTGAAAATGAAGGAG
upper sequence: GLYMA07G37050.1 (Glycine max), 3'ss of exon 11
lower sequence: AT4G16155.1 (Arabidopsis thaliana), 3'ss of exon 11
tccatactcttttcccttatattatttatacaataaaattactgcctctcattcttcacttgaattctcatgtgttgcgatcaaacataaaatcctgcagCCTCAAGCAAGGGAGAAAGGTGAAAAAGAGGGGTTTGAAGTAAGTGTTGCCAAAACAAGTTTTAAAGCTAACACAAAGGCTCTAGCAGAAAACGAAGGAG
| |||| | || || | | | ||| | ||| | || | | || | || | ||| || ||| | ||||||||||| || ||||||| ||| |||||||| || |||||||| | ||||| |||||||| || || ||||||||||| ||||| ||||| |||||||
-gtaacctctagacactcttagtggattggtttttaaaaaattgc-----aatcctaatttatgatttcg------gtaatctttaatgcaattcc-cagCCTCAAGCGAGAGAGAAAGCTGAGAAAGAGGGATTCAAAGTAAGTATCGCCAAGACAAGTTTCAAGGCAAACACAAAGGCCCTAGCCGAAAATGAAGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctctcattcttcacttgaattctcatgtgttgcgatcaaacataaaatcctgcagCCTCAAGCAAGGGAGAAAGGTGAAAAAGAGGGGTTTGAAGTAAGTGTTGCCAAAACAAGTTTTAAAGCTAACACAAAGGCTCTAGCAGAAAACGAAGGAG
atcaaacataaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tccatactcttttcccttatattatttatacaataaaattactgcctctcattcttcacttgaattctcatgtgttgcgatcaaacataaaatcctgcagCCTCAAGCAAGGGAGAAAGGTGAAAAAGAGGGGTTTGAAGTAAGTGTTGCCAAAACAAGTTTTAAAGCTAACACAAAGGCTCTAGCAGAAAACGAAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- catactc
- - - - - -ttccctt
- - - - - - - - - - - - - - - -aataaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaacat