Sequence
atgc intronic sequence ATGC exonic sequencegtaacatttctaaatacgagttattaagtgaaaatcttgggaatgcttttcatcttttgcaatttggaacagGTAGTTTACATATTGGATCAAGTTAGAGCTCTTGAAGCCGAGTTGCTGCTCAGAATTAAGCAACAAGGCCTAAATGTAAAGCCCCAGATTCTTGTG
Basic information
species | Glycine max |
transcript | GLYMA18G04990.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G04990.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv04s0079g00230.t01 (Vitis vinifera), 3'ss of exon 5
-----------------gtaacatttctaaatacgagttattaagtgaaaatcttgggaatgc------ttttcatcttttgcaatttggaacagGTAGTTTACATATTGGATCAAGTTAGAGCTCTTGAAGCCGAGTTGCTGCTCAGAATTAAGCAACAAGGCCTAAATGTAAAGCCCCAGATTCTTGTG
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gtacaaatttccatcaaatagtgaataggaaacctatttgtttgcatgggaccatggccaaacataaatttctcgtgttattctgaacaaaacagGTAGTTTACATTCTGGATCAAGTTAGAGCATTGGAAGAGGAACTGCTCCTCAGAATAAAGCTGCAAGGGCTTAATGTGAAGCCTCAGATTCTTGTG
upper sequence: GLYMA18G04990.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S303_45V6.1 (Physcomitrella patens), 3'ss of exon 6
-----------------------------------------------------------------------------------------------------gtaacatttctaaatacgagttattaagtgaaaatcttgggaatgcttttcatcttttgca-atttggaacagGTAGTTTACATATTGGATCAAGTTAGAGCTCTTGAAGCCGAGTTGCTGCTCAGAATTAAGCAACAAGGCCTAAATGTAAAGCCCCAGATTCTTGTG
| | | | | | ||||| | ||| || | | ||||| ||| || || || | ||||| |||||||||||||||||||| |||||||| ||| | || || | || ||| ||||| | || | ||||| || ||| || |
gtatcaaccacatttacagctctattttagggattatctcgctacttctgggtttcttcatgtttcttcgtagcataatgtggcgtaatatgggtattgaagggaaaataatgttgcagttttattgaatgattatatgattgaagctttacatattgtgggcatggagtgcagGTTGTTTACATATTGGATCAAGTGAGAGCTCTGGAAAATCAAATGTTGGAAAATCTTCAGCTTCAAGGGTTGGATTTCAAGCCGCAAATTGTTATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagttattaagtgaaaatcttgggaatgcttttcatcttttgcaatttggaacagGTAGTTTACATATTGGATCAAGTTAGAGCTCTTGAAGCCGAGTTGCTGCTCAGAATTAAGCAACAAGGCCTAAATGTAAAGCCCCAGATTCTTGTG
aaaatctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaacatttctaaatacgagttattaagtgaaaatcttgggaatgcttttcatcttttgcaatttggaacagGTAGTTTACATATTGGATCAAGTTAGAGCTCTTGAAGCCGAGTTGCTGCTCAGAATTAAGCAACAAGGCCTAAATGTAAAGCCCCAGATTCTTGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA