Sequence
atgc intronic sequence ATGC exonic sequencegtaactgttatgctcgagtgtacaaacactattaagtgatggttgacaatgaaaactctattaatccttgtggaatgctctaattttcatgtgcagGTGGTCTTTTGGAAGTGGATTACCCCCAAGTTGTTGGGTATTGTAACACAGACCTCTGTATACCATTGGTCAATTGAAG
Basic information
species | Glycine max |
transcript | GLYMA11G35460.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 3
--------gtaactgttatgctcgagtgtacaaacactattaagtgatggttg-acaatgaaaactctat-taatccttgtggaatgc-tctaattttcatg--tgcagGTGGTCTTTTGGAAGTGGATTACCCCCAAGTTGTTGGGTATTGTAACACAGACCTCTGTATACCATTGGTCAATTGAAG
| ||| ||| ||| | | | || | | || ||| | | || || || || || ||| | | | | |||||| ||||| || |||||||| ||||| ||||| |||||||||||| | |||||||| || || || || || ||||||||||| |
gtacaaaatttgaagttttgccaaagtatgcgta-accactttgtttaaattgtatcctataatcttaatgtattctttgcatattttattttcttttcacaatcacagGTTGTGTTTTGGAAATGGATCACCCCAAAGTTGTTGGGTTTGGTAACACAAACATCAGTTTATCACTGGTCAATTGAGG
upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 3
-------gtaa-ctgttatgctcgagtgtacaaacactattaagtgatggttgacaatgaaaactctattaatccttgtggaatgctctaattttcatgtgcagGTGGTCTTTTGGAAGTGGATTACCCCCAAGTTGTTGGGTATTGTAACACAGACCTCTGTATACCATTGGTCAATTGAAG---------------------
| || | || || | | | | || || ||| | || || | | | | | | | |||| |||| ||||| || |||||||||||||| || ||||| ||||||||| | || ||||| || ||||| ||||| ||||| |||||||
gtacaaaacactctctgatactgttgcatcttgatgtttttctgtagctgttaattatatgcccttcaagtaacatgttctatatatttaatcttcaaccacagGTTGTATTTTGGAAGTGGATCACTCCCAAATTGTTGGGTTTAGTGACACAAACATCTGTTTACCACTGGTCGATTGAAGGTGATTCTGAGCCCACCAAGA
upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaactgtt-atgctcgagtgtacaaacactatta--agtgatggttgacaatg---aaaactctattaatccttgtggaatgctct-------aat----tttcatgt----gcagGTGGTCTTTTGGAAGTGGATTACCCCCAAGTTGTTGGGTATTGTAACACAGACCTCTGTATACCATTGGTCAATTGAAG
|| | |||| |||| | | ||| | |||| | || | ||| | | |||||| | || | | | | ||| |||||||| ||||| |||||||||||||||||||| || ||| ||||||| | || ||||||| || || || ||||||||||||||||
gtgagtgttgatgcaaatatatttgaactccattatcgttcctgctatacacttcgtataactctgaatttttcagtcgggtttttttttggataataatgtttcatgtttttacagGTTGTCTTTTGGAAGTGGATTACACCAAAGATGTTGGGGCTGGTCACACAGAATTCCGTCTATCATTGGTCAATTGAAG
upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 3
----------------gtaactgttatgctcgagtgtacaaacactattaagtgatggttgacaatgaaaact-ctattaatccttgtggaa---tgctctaattttcatgtgcagGTGGTCTTTTGGAAGTGGATTACCCCCAAGTTGTTGGGTATTGTAACACAGACCTCTGTATACCATTGGTCAATTGAAG
|| | || || | | | | | |||| | || | | | || | | |||||| | | || ||| | | || | || | || || ||||||||||||||||| ||| || |||| | || || |||||||| ||||| ||||||||||| ||||
gtgagaactttgttctttagcatttctgttacatttcttgagc--tattttgacatcctacattgttaacattgctattacagttagcttaactatgccttgttgttta-aaatagATTGTTTTCTGGAAGTGGATTACCCCAAAGATGCTGGGCCTGGTCACGCAGACCTCAGTATATCATTGGTCAATCGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttgacaatgaaaactctattaatccttgtggaatgctctaattttcatgtgcagGTGGTCTTTTGGAAGTGGATTACCCCCAAGTTGTTGGGTATTGTAACACAGACCTCTGTATACCATTGGTCAATTGAAG
ttttcat CT-rich tract
aaaactctattaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaactgttatgctcgagtgtacaaacactattaagtgatggttgacaatgaaaactctattaatccttgtggaatgctctaattttcatgtgcagGTGGTCTTTTGGAAGTGGATTACCCCCAAGTTGTTGGGTATTGTAACACAGACCTCTGTATACCATTGGTCAATTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG