Sequence
atgc intronic sequence ATGC exonic sequencegtaactattatgcacaaggacacatatattgcaacatagtaggtccaatatggtaacatatattgttaatcatgcatagGTAGTCTTTTGGAAGTGGATTAGCCCCAAGATGTTGGGTCTCGTAACACAGACCTCTGTATACCACTGGTCAATTGAAG
Basic information
species | Glycine max |
transcript | GLYMA14G06340.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G06340.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 3
----------------gtaactattatgcacaaggacacatatattgcaacatagtaggt-ccaatatggtaacat-----atattgttaatcat---gcatagGTAGTCTTTTGGAAGTGGATTAGCCCCAAGATGTTGGGTCTCGTAACACAGACCTCTGTATACCACTGGTCAATTGAAG---------------------
| ||| || | | | || | || | || | ||||||| |||| |||||| | || |||| || |||||||||||||| | ||||| |||||||| | || ||||| || ||||| ||||||||||| |||||||
gtacaaaacactctctgatactgttgcatcttgatgtttttctgtagctgttaattatatgcccttcaagtaacatgttctatatatttaatcttcaaccacagGTTGTATTTTGGAAGTGGATCACTCCCAAATTGTTGGGTTTAGTGACACAAACATCTGTTTACCACTGGTCGATTGAAGGTGATTCTGAGCCCACCAAGA
upper sequence: GLYMA14G06340.2 (Glycine max), 3'ss of exon 3
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 3
-------------------------------------gtaactattatgcacaaggacacatatattgcaacatagt-aggtccaatatggtaacatatattgttaatcatgcatagGTAGTCTTTTGGAAGTGGATTAGCCCCAAGATGTTGGGTCTCGTAACACAGACCTCTGTATACCACTGGTCAATTGAAG
|| || ||| ||| | | ||| ||| | | | | ||| | | | | | |||| ||||||||||||||||||| || ||||||||||| || || ||||||| || || || || |||||||||||||
gtgagtgttgatgcaaatatatttgaactccattatcgttcctgctatacacttcgtataactctgaatttttcagtcgggtttttttttggataataatgtttcatgtttttacagGTTGTCTTTTGGAAGTGGATTACACCAAAGATGTTGGGGCTGGTCACACAGAATTCCGTCTATCATTGGTCAATTGAAG
upper sequence: GLYMA14G06340.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 3
------------------------------gtaactattatgc-acaaggaca-catatattgc-aacatagtaggtccaatatggtaacatata--ttgttaatcatgcatagGTAGTCTTTTGGAAGTGGATTAGCCCCAAGATGTTGGGTCTCGTAACACAGACCTCTGTATACCACTGGTCAATTGAAG
| | || || | |||| | || |||| ||||| | | || | | | | ||| ||||| | | |||| | || || ||||||||||||| ||| |||||| |||| || || || |||||||| ||||| || |||||||| ||||
gtgagaactttgttctttagcatttctgttacatttcttgagctattttgacatcctacattgttaacattgctattacagttagcttaactatgccttgttgtttaaa-atagATTGTTTTCTGGAAGTGGATTACCCCAAAGATGCTGGGCCTGGTCACGCAGACCTCAGTATATCATTGGTCAATCGAAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|192299634|gb|FG993274.1|FG993274EST: TTAACATTGAGATGAAAGCAAAGATGAAATCATATCAGATGCCTGAGCAG -TAGTCTTTTGGAAGTGGAT-AGCCCCAAGATGTTGGGTCTCGTAACACAG
genomic: TTAACATTGAGATGAAAGCAAAGATGAAATCATATCAGATGCCTGAGCAGgtaactatta ... tcatgcatagGTAGTCTTTTGGAAGTGGATTAGCCCCAAGATGTTGGGTCTCGTAACACAG
EST:
gi|209720995|gb|BW682474.1|BW682474EST: TTAACATTGAGATGAAAGCAAAGATGAAATCATATCAGATGCCTGAGCAG GTAGTCTTTTGGAAGTGGATTAGCCCCAAGATGTTGGGTCTCGTAACACAG
genomic: TTAACATTGAGATGAAAGCAAAGATGAAATCATATCAGATGCCTGAGCAGgtaactatta ... tcatgcatagGTAGTCTTTTGGAAGTGGATTAGCCCCAAGATGTTGGGTCTCGTAACACAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatattgcaacatagtaggtccaatatggtaacatatattgttaatcatgcatagGTAGTCTTTTGGAAGTGGATTAGCCCCAAGATGTTGGGTCTCGTAACACAGACCTCTGTATACCACTGGTCAATTGAAG
taacatatattgttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaactattatgcacaaggacacatatattgcaacatagtaggtccaatatggtaacatatattgttaatcatgcatagGTAGTCTTTTGGAAGTGGATTAGCCCCAAGATGTTGGGTCTCGTAACACAGACCTCTGTATACCACTGGTCAATTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG