Sequence
atgc intronic sequence ATGC exonic sequence...cttgaagatattacaatggtgtactttatctggaaaacattaggttgtgattctttctacttactatcttatatgttatgtttctatattggaaggctagGCACTGGGATTCCTTCTACACTTTTTACAGGAACACAACTGATAACAA
Basic information
species | Glycine max |
transcript | GLYMA17G00490.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G00490.2 (Glycine max), 3'ss of exon 4
lower sequence: AT2G23390.1 (Arabidopsis thaliana), 3'ss of exon 7
-----cttgaagatat-tacaatggtgtactttatctggaaaacattaggttgtgattctttctacttactatcttatatgttatgtttc-tatattggaaggctagGCACTGGGATTCCTTCTACACTTTTTACAGGAACACAACTGATAACAA
||| | | | | || | || |||| || || | || |||| | || | | || || || | | | || | ||||||||||||||||||||||||| ||| |||||||||||||||||||||||
ttagaactgatggcacatgctataaaggacattatggggcttttatattaatatgtgtcttaaaaatt--tgattcatcgtttgtgcctaatgtttttgcagGCTAGGCACTGGGATTCCTTCTATGATTTCTACAGGAACACAACTGATAACAA
upper sequence: GLYMA17G00490.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv12s0035g01750.t01 (Vitis vinifera), 3'ss of exon 8
-cttgaagatatta-caatgg---tgtactttatctggaaaacattaggttgtgattctt-tctacttactatcttatatgttatgtttctatattggaaggctagGCACTGGGATTCCTTCTACACTTTTTACAGGAACACAACTGATAACAA
|| |||| | || | | ||| || | | || | || | | || |||||| | | | | | ||| || | | |||| |||||| ||||||||||||||| |||| || || |||||||| |||||||||||
ctttatagatcacatcagtagacttgtgacttggtttgcttcttttgccctatgttgatggtcctcttactgttatcttt-tcatggttatctgttggcagGCTAAGCACTGGGATTCCTTTTACAAGTTCTATAGGAACACCACTGATAACAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgattctttctacttactatcttatatgttatgtttctatattggaaggctagGCACTGGGATTCCTTCTACACTTTTTACAGGAACACAACTGATAACAA
tacttac putative branch site (score: 1)
ttatatgttatgtttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttgaagatattacaatggtgtactttatctggaaaacattaggttgtgattctttctacttactatcttatatgttatgtttctatattggaaggctagGCACTGGGATTCCTTCTACACTTTTTACAGGAACACAACTGATAACAA
- - - - - - - aatggtg
- - - - - - - - - - - - - - - -ggaaaac
- - - - - - - - - - - - - - - - - - - - - ggttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttatg