Sequence
atgc intronic sequence ATGC exonic sequencegttagttgtcacatattttgttatagatatcaatatcaataaaaaaaaaaacaattttaaatgttcaaggtcttgcagGTATGGGATGCAGTTACTGGTGCAAAGCAGTATACTTTTGAGGGTCATGAAGCACCTGTATATTCTGTATGCCCTCATCACAAAGAAAGTATTCAG
Basic information
species | Glycine max |
transcript | GLYMA17G12110.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G12110.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv11s0016g05620.t01 (Vitis vinifera), 3'ss of exon 13
gttagttgtcacatattttgttatagatatcaat--atcaataaaaa--aaaaaacaatttta-aatgttcaaggtcttgcagGTATGGGATGCAGTTACTGGTGCAAAGCAGTATACTTTTGAGGGTCATGAAGCACCTGTATATTCTGTATGCCCTCATCACAAAGAAAGTATTCAG
|||| | || | | || || | | ||| | ||||| || || |||||| | ||||||| ||||||||| |||||| | |||||||||||||||||||||||||| |||||||||||||||||||| || |||||||| |||| |||||||
---gtttgtt--ttgcttcctcactaatttcggtggaatggtaaggtctggatgccaattatacaaatttcaagtttctgcagGTGTGGGATGCAAACACTGGTTCTAAGCAGTATACTTTTGAGGGTCATGAGGCACCTGTATATTCTGTATGTCCACATCACAAGGAAAATATTCAG
upper sequence: GLYMA17G12110.1 (Glycine max), 3'ss of exon 13
lower sequence: PP1S316_34V6.1 (Physcomitrella patens), 3'ss of exon 12
--------------------------------------------------------------------------------------------------gttagttgtcacatattttgttat---agatatcaatatcaataaaaaaaaaaacaattttaaa--tgttcaagg-------------tcttgcagGTATGGGATGCAGTTACTGGTGCAAAGCAGTATACTTTTGAGGGTCATGAAGCACCTGTATATTCTGTATGCCCTCATCACAAAGAAAGTATTCAG
|||| | || |||| ||| ||| || | ||| || | | | | |||| || || ||||||| |||||||| | || || ||||| || |||||||| || |||||||||||||| || ||||| || |||||||| ||||| |||||||||
gtgccctcgtatttactattttgtgaccatgtttaatatagaccgtgtctcatgttccagaatactcttgtattgcatgaacagtggtatttgggccttaaagtttttgtatgtttttttaatggagactctaaggctttttccaaataatcttacgtggatctttttcatggaccttcttgtgcatcctgcagGTTTGGGATGCTGCAACAGGACGTAAGCAATACACTTTTGAAGGACATGAAGCACCTGTGTACTCTGTTTGTCCTCATCATAAAGAGAGTATTCAG
upper sequence: GLYMA17G12110.1 (Glycine max), 3'ss of exon 13
lower sequence: PP1S99_260V6.1 (Physcomitrella patens), 3'ss of exon 12
-----------------------------------------------------------------------------gttagttgtcacatattttgttataga-----tatcaatatcaataaaaaaa-----aaaacaattttaaatg---ttcaaggtcttgcagGTATGGGATGCAGTTACTGGTGCAAAGCAGTATACTTTTGAGGGTCATGAAGCACCTGTATATTCTGTATGCCCTCATCACAAAGAAAGTATTCAG
| | || |||||| || | ||| | | | | | |||| | || | ||| | | || | || | ||||| |||||||| | || || ||||||||||||||||| |||||||||||||| || || ||||| || || || ||||| || || ||||||
gtgcgcacttcattactacgtgcactacttcttaatttggaccatttccagtatgccaaaccatgcctgtgtatttgggttatttctacatatggtgagagagaccaaattttattctagataattgtatctggaatttgactttggacgaacttgtacatccttcagGTTTGGGATGCTGCAACAGGGCGGAAGCAGTATACTTTTGAAGGTCATGAAGCACCCGTGTACTCTGTTTGTCCACACCACAAGGAGAGCATTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagatatcaatatcaataaaaaaaaaaacaattttaaatgttcaaggtcttgcagGTATGGGATGCAGTTACTGGTGCAAAGCAGTATACTTTTGAGGGTCATGAAGCACCTGTATATTCTGTATGCCCTCATCACAAAGAAAGTATTCAG
atcaatatcaataaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagttgtcacatattttgttatagatatcaatatcaataaaaaaaaaaacaattttaaatgttcaaggtcttgcagGTATGGGATGCAGTTACTGGTGCAAAGCAGTATACTTTTGAGGGTCATGAAGCACCTGTATATTCTGTATGCCCTCATCACAAAGAAAGTATTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA