Sequence
atgc intronic sequence ATGC exonic sequencegtacaataatcctctagcaaagtcaacaaatactgatacgtacatattttaaactttctaatcatgttacttctgattgcagGATGTAGAAGTAAACCTGATCATAACTGATTACTGTATGCCAGAAATGACAGGCTATGATCTGCTGAAAAAGATCAAG
Basic information
species | Glycine max |
transcript | GLYMA04G29250.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G29250.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv13s0067g03460.t01 (Vitis vinifera), 3'ss of exon 2
-----------gtacaataatcctctagcaaagtcaacaaatact---gatacgt-----acatattttaaactttctaatcatgttacttctgattg------cagGATGTAGAAGTAAACCTGATCATAACTGATTACTGTATGCCAGAAATGACAGGCTATGATCTGCTGAAAAAGATCAAG
|| | | || | | || || | | | | | | || | || ||| |||| | || | || ||| |||| ||||||| | || || || |||| | |||||| | |||||||||||||||||| || ||||||||||||
gtatggttttctcactgaatttcttcaattcattccttttattttctgggtgttttttcaatagatgtctaattttttaattttttttttcctttttgttatgacagGGAACGAAAGTAAATTTAATTATTACATATTATTCTATGCCTGGAATGACAGGCTATGATCTCCTCAAAAAGATCAAG
upper sequence: GLYMA04G29250.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ36636 (Selaginella moellendorffii), 3'ss of exon 2
------------------gtacaataatcctctagcaaagtcaacaaatactgatacgtacatattttaaactttctaatcatgttacttctgattgcagGATGTAGAAGTAAACCTGATCATAACTGATTACTGTATGCCAGAAATGACAGGCTATGATCTGCTGAAAAAGATCAAG
|| | || | || | | | | | | | | || |||| | || | | || | | | ||||| | || | | | ||||||| || |||||||||||||| | ||||||||||||||||| ||||| | | |||
gtaagagagaaaaaaaaattaaattagcagtaaggctagttttcttcacagtcaagtgaagattttttcagaggctta-tggtttttgtggtcgtcgcagGGCATTCAAATCAGCATGATCATCACGGATTACTGTATGCCTCACATGACAGGCTATGATCTTCTGAAGAGAGTAAAG
upper sequence: GLYMA04G29250.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ26364 (Selaginella moellendorffii), 3'ss of exon 2
-----------------------------------------------------------------------------------------------------------gtacaataatcctctagcaaagtcaacaaatactgatacgtac---atattttaaactttctaatcatgttacttctgattgcagGATGTAGAAGTAAACCTGATCATAACTGATTACTGTATGCCAGAAATGACAGGCTATGATCTGCTGAAAAAGATCAAG
|| ||||| ||| || ||||| | || || | ||| || | || ||| || ||||||| | || ||||| ||||||| || || || |||||||| ||||||||||||||||||||
gtgctcttcttctttcttgtgctggattgaaaactcgttaaatcgttgtcgcttgatctgtatggaatgaaaaaaaaggtgatagctttgttggagtggttgtggtggtgttggtggatgctagctaagctaatcttggctgatttcctcgagATTTTCTTTGCTTCCTCTGGCTTTTGCTTTTG-TTGCAGGCCATTAAAATAAACTTGATCATCACGGACTATTGTATGCCGGAAATGACAGGCTATGATCT----------------
upper sequence: GLYMA04G29250.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ14702 (Selaginella moellendorffii), 3'ss of exon 2
--------------------------------------------------------------------------------------------------------------gtacaataatcctctagcaaagtcaacaaata-ctgatacgtac---atattttaaactttctaatcatgttacttctgattgcagGATGTAGAAGTAAACCTGATCATAACTGATTACTGTATGCCAGAAATGACAGGCTATGATCTGCTGAAAAAGATCAAG
|| ||||| ||| || | ||||| | || || | ||| || | || ||| || ||||||| | || ||||| ||||||| || || || |||||||| ||||||||||||||||||||||| || ||| |||||
gttcgtgctcttcttctttcttgtgctggattgaaaactcgttaaatcgttgtcgcttgatctgtatggaatgaaaaaaaaggtgatagctttgttgggtggttgtggtggtgttggtggatgctagctaagctaatctttggctgatttcctcgagattttctttgcttcctctggcttttgcttttg-ttgcagGCCATTAAAATAAACTTGATCATCACGGACTATTGTATGCCGGAAATGACAGGCTATGATCTGCTCAAGAAGGTCAAG
upper sequence: GLYMA04G29250.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ14701 (Selaginella moellendorffii), 3'ss of exon 2
---------------gtacaataatcctctagcaaagtcaacaaata-ctgatacgtac---atattttaaactttctaatcatgttacttctgattgcagGATGTAGAAGTAAACCTGATCATAACTGATTACTGTATGCCAGAAATGACAGGCTATGATCTGCTGAAAAAGATCAAG
|| ||||| ||| || | ||||| | || || | ||| || | || ||| || ||||||| | || ||||| ||||||| || || || |||||||| ||||||||||||||||||||||| || ||| |||||
tgggtggttgtggtggtgttggtggatgctagctaagctaatctttggctgatttcctcgagattttctttgcttcctctggcttttgcttttg-ttgcagGCCATTAAAATAAACTTGATCATCACGGACTATTGTATGCCGGAAATGACAGGCTATGATCTGCTCAAGAAGGTCAAG
upper sequence: GLYMA04G29250.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ18081 (Selaginella moellendorffii), 3'ss of exon 2
------------gtacaat-aatcctctagcaaagtcaacaaat---actgatacgtacatattttaaactttctaatcatgttacttctgattgcagGATGTAGAAGTAAACCTGATCATAACTGATTACTGTATGCCAGAAATGACAGGCTATGATCTGCTGAAAAAGATCAAG
||||| || || || | | || | | ||| | ||||| | || | | || | | | ||||| | || | | | ||||||| || |||||||||||||| | ||||||||||||||||| ||||| | | |||
gtaagagagaaaaaacaattaaattagcagtaaggctagttttcttcacagccaagtaaagatttttcagaggcttacggttttg-tggtcgtcgcagGGCATTCAAATCAGCATGATCATCACGGATTACTGTATGCCTCATATGACAGGCTATGATCTTCTGAAGAGAGTAAAGMapped 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|192327765|gb|FK022058.1|FK022058EST: ATGAGCAGAGAAATAAAGAGCCTCCCTCTATTGCTCTAGAATCCCATCAG GATGTAGAAGTAAACCTGATCATAACTGATTACTGTATGCCAGAAATGACA
genomic: ATGAGCAGAGAAATAAAGAGCCTCCCTCTATTGCTCTAGAATCCCATCAGgtacaataat ... ctgattgcagGATGTAGAAGTAAACCTGATCATAACTGATTACTGTATGCCAGAAATGACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatactgatacgtacatattttaaactttctaatcatgttacttctgattgcagGATGTAGAAGTAAACCTGATCATAACTGATTACTGTATGCCAGAAATGACAGGCTATGATCTGCTGAAAAAGATCAAG
ttacttct CT-rich tract
tacatattttaaactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacaataatcctctagcaaagtcaacaaatactgatacgtacatattttaaactttctaatcatgttacttctgattgcagGATGTAGAAGTAAACCTGATCATAACTGATTACTGTATGCCAGAAATGACAGGCTATGATCTGCTGAAAAAGATCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA