Sequence
atgc intronic sequence ATGC exonic sequence...tgaaattctgatactttttcctttttggattgaatcaactatacagtaatatttgaagtactgacatgttacatcattacatgcataatatgttgactagGCAGCTGTGATTTCTGGTTTTTCTGCATTGCCGTGGCTTGTCAAACCTCTTTACGGGTTTATTAG
Basic information
species | Glycine max |
transcript | GLYMA20G28510.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G28510.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G32040.1 (Arabidopsis thaliana), 3'ss of exon 2
tgaaattctgatactttttcctttttggattgaatcaactatacagtaatatttgaagtactgacatgttacatcattacatgcataatatgttgactagGCAGCTGTGATTTCTGGTTTTTCTGCATTGCCGTGGCTTGTCAAACCTCTTTACGGGTTTATTAG
|| || | | |||||| ||||| | | | | ||||| | | | || | || ||| | |||||||| |||||||||| | ||| ||||| |||||||||||||||| || ||||| || || ||||| ||
--gtatgctttttgtagttccttgttggact--------ttcatgggaatatct----------ctttataggctgacaaatatatacc-tcttgactagACAGCTGTGATAACGGGTCTTTCTTCATTGCCGTGGCTTGTTAAGCCTCTCTATGGTTTTATCAG
upper sequence: GLYMA20G28510.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv05s0020g03660.t01 (Vitis vinifera), 3'ss of exon 2
-------tgaaattctgatactttttcctttttggattgaatcaactatacagtaatatttgaagtactgacatgttacatcattacatgcataatatgttgactagGCAGCTGTGATTTCTGGTTTTTCTGCATTGCCGTGGCTTGTCAAACCTCTTTACGGGTTTATTAG
|||| | | || | ||||| | | ||| | || | | ||| | | | ||| | |||| | ||||||||| | |||||||| |||||||| |||||| | || |||||||||||||||||||| |||||||||||
aactacggaaaatagaggaaaattcacgtttttctaataaataacctg-attatcttatcaaaggatcatacagactgacaaattatacatg------gttgactagACTGCTGTGATATCTGGTTTCTCTGCACTACCATGGCTTGTCAAACCTCTTTATGGGTTTATTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaatatttgaagtactgacatgttacatcattacatgcataatatgttgactagGCAGCTGTGATTTCTGGTTTTTCTGCATTGCCGTGGCTTGTCAAACCTCTTTACGGGTTTATTAG
tactgac putative branch site (score: 1)
ataatatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaaattctgatactttttcctttttggattgaatcaactatacagtaatatttgaagtactgacatgttacatcattacatgcataatatgttgactagGCAGCTGTGATTTCTGGTTTTTCTGCATTGCCGTGGCTTGTCAAACCTCTTTACGGGTTTATTAG
- - - -ctgatac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tactgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acatgca