Sequence
atgc intronic sequence ATGC exonic sequencegtcattcttctgtgcttgacactacaggtatgagttctgttttctgccgcctttccactcttccctccaaattcctgtataggtgacaattagatttcacatttagcttgtccatttgaactaaagattgaccagtatcattatggttcagGAACCAGTCCAAAACTTGGCGACAAGACAATTTATTCCATTGGCACAAGACTGAAAGCATTCTCTGATTGGCTTCTGAAAACTATGGTTTCGGGCAAGCT
Basic information
species | Glycine max |
transcript | GLYMA02G06910.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G06910.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os12g40190.1 (Oryza sativa), 3'ss of exon 5
--------gtc--attcttctgtgcttgacactacaggtatgagttctgttttctgccgcctttc-cactcttccctccaa-attcctgtataggtgacaattagatttcacatttagcttgtccatttgaactaaagattgaccag----tatcattatggttc----agGAACCAGT-----CCAAAACTTGGCGACAAGACAATT---TATTCCATTGGCACAAGACTGAAAGCATTCTCTGATTGGCTTCTGAAAACTATGGTTTCGGGCAAGCT
||| ||| || ||| ||| ||| | | |||| | | | | | | | | || | | || | || | || | |||| ||| || | | | ||| | || ||| || || ||| ||| | ||| | ||| | | | | | | || | |||| || | ||||||||||||||||||||| |||| ||| |||||| ||
gtatgacagtcgtattattatgttcttttggctatccaccttaattctttgctgcataaattcacatatttatatcagcaggagacttgcaattgtttgattttagtgaaacatatagactgctagcctcttccacagaccatctagaatttatttttgtgtttcttttgcagGCCATTGTGAACCAGAGCTTTGTAATGACATTACTGAGTACTATATTGCTCCACGCCTGAAAGCATTCTCTGATTGGATTCTAAAAGCTATGGCCATAGG------
upper sequence: GLYMA02G06910.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv07s0255g00100.t01 (Vitis vinifera), 3'ss of exon 6
gtcattcttctgtgcttgacactacaggtatgagttctgttttctgccgcctttccactcttccctccaaattcctgtataggtgacaattagatttcacatttagcttgtcc-atttgaactaaagattgaccagtatcattatggttcagGAACCAGTCCAAAACTTGGCGACAAGACAATTTATTCCATTGGCACAAGACTGAAAGCATTCTCTGATTGGCTTCTGAAAACTATGGTTTCGGGCAAGCT
|| || |||| | | | | | | |||| | | | | ||| | | | | | ||| | | || ||| | || |||| | || | | || |||| | || || | || || ||||| ||||| ||||| ||||| ||||| ||||||| ||||| ||||||||||| ||||||||||| | || ||
gtatttattctttagtccagaatttat-tatggcaaaaatatctag--ggcttactcttgctgtgactatattgccattggtatgttgtttataaaatgtgcataatgtgtctgaggagagtttctggttaaccaaca-------gG---GAATACTGATGATGAAAATGATGACAAAACAATCTATTCTATTGGAACAAGGTTGAAAGCGTTCTCCGATTGGCTTCTCAAAACTATGGTGGCAGGTAA--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcacatttagcttgtccatttgaactaaagattgaccagtatcattatggttcagGAACCAGTCCAAAACTTGGCGACAAGACAATTTATTCCATTGGCACAAGACTGAAAGCATTCTCTGATTGGCTTCTGAAAACTATGGTTTCGGGCAAGCT
tatcattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcattcttctgtgcttgacactacaggtatgagttctgttttctgccgcctttccactcttccctccaaattcctgtataggtgacaattagatttcacatttagcttgtccatttgaactaaagattgaccagtatcattatggttcagGAACCAGTCCAAAACTTGGCGACAAGACAATTTATTCCATTGGCACAAGACTGAAAGCATTCTCTGATTGGCTTCTGAAAACTATGGTTTCGGGCAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT