Sequence
atgc intronic sequence ATGC exonic sequence...gagaaatagtgacattgcttccttgtcactactttttttttttctttccctcttcctccttatagttaaggcttttattatttcccttgattcgtttcagGTTGAGAATTTAGCTGCAAGGATGATCAAATGGTTAAAAGTTGGTGGATATGTATTCTTCAGAGAATCATGTTTCCACCAATCTGGAGATTCCAAGAGAA
Basic information
species | Glycine max |
transcript | GLYMA07G11580.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G11580.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G170400_T01 (Zea mays), 3'ss of exon 4
------gagaaatagtgacattgcttccttgtcactactttttttttttctttccctcttcctccttatagttaaggcttttattatttcccttgattcgtttcagGTTGAGAATTTAGCTGCAAGGATGATCAAATGGTTAAAAGTTGGTGGATATGTATTCTTCAGAGAATCATGTTTCCACCAATCTGGAGATTCCAAGAGAA
|| | | ||| | || | | | | || | || | | ||| || ||| || ||| ||| | | || | ||| |||| | || | | | | ||| | ||||||||||| || || || || | ||||| |||||||||||||| |||||||||||||||||||| || |
atactagaaagctctaaacaattttttttggaaaaaaaattaatacttaaaacctcgcttt-tcattactgt-aagtttttaactgttaactcatatta----tagGTCCAAAAGCTTGTGGGGAAAATGGTAAAATGGTTAAAGGTCGGAGGCCATATTTTCTTTAGAGAATCATGTTTTCACCAATCTGGAGATTCCAAAAGGA
upper sequence: GLYMA07G11580.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G170400_T03 (Zea mays), 3'ss of exon 2
-------------------------------------------------------------------------------------------------------gagaaatagtgacattgcttccttgtcactactttttttttttctttccctcttcctccttatagttaaggcttttattatttcccttgattcgtttcagGTTGAGAATTTAGCTGCAAGGATGATCAAATGGTTAAAAGTTGGTGGATATGTATTCTTCAGAGAATCATGTTTCCACCAATCTGGAGATTCCAAGAGAA
|| | | ||| | || | | | | || | || | | ||| || ||| || ||| ||| | | || | ||| |||| | || | | | | ||| | ||||||||||| || || || || | ||||| |||||||||||||| |||||||||||||||||||| || |
gtgcgctatgaccactcttttcagaagaagtgtagaatatttacatgcatcaatcgattccatctttcatctgatctcacttcaataaacaacacccatactagaaagctctaaacaattttttttggaaaaaaaattaatacttaaaacctcgcttt-tcattactgt-aagtttttaactgttaactcatatta----tagGTCCAAAAGCTTGTGGGGAAAATGGTAAAATGGTTAAAGGTCGGAGGCCATATTTTCTTTAGAGAATCATGTTTTCACCAATCTGGAGATTCCAAAAGGA
upper sequence: GLYMA07G11580.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G060886_T01 (Zea mays), 3'ss of exon 5
gagaaatagtgacattgcttccttgtcactactttttttttttctttccctcttcctccttatagttaaggcttttattatttccc-----ttgattcgtttcagGTTGAGAATTTAGCTGCAAGGATGATCAAATGGTTAAAAGTTGGTGGATATGTATTCTTCAGAGAATCATGTTTCCACCAATCTGGAGATTCCAAGAGAA
| | | || | | | || | | | | | || |||| | || | |||| || ||| || | ||||||| | ||| | || ||| | |||||||| || |||||||| ||| | ||||| || ||||| || ||||| |||||||||||||| || || |
-----ccttttttctaaatgagttaaaattggtgttcaaatgtactgactgaaatatatttgaagtttctggttcttgcattttccaacttttgtctctatgtagGTTGAACAGCTAGTTCAGAGAATGGTAAAATGGTTGAAGGTTGGTGGCTATATCTTCTTTAGGGAATCTTGCTTCCATCAATCTGGAGATTCAAAAAGGA
upper sequence: GLYMA07G11580.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv01s0011g05220.t01 (Vitis vinifera), 3'ss of exon 3
-------------------------gagaaatagtgacat-tgcttccttgtcactactttttttttttctttccctcttcctccttatagttaaggcttttattatttcccttgattcgttt-cagGTTGAGAATTTAGCTGCAAGGATGATCAAATGGTTAAAAGTTGGTGGATATGTATTCTTCAGAGAATCATGTTTCCACCAATCTGGAGATTCCAAGAGAA
| || ||| | || || |||| || || |||| || | | | || | | ||| | | | | | || || | |||||||||||| | |||| ||||||| | |||||||| ||||||||||| | | | ||| | ||||| || | ||| || ||||| || |||| | || |
gtaatagcaatgctttttccagggcaataagatgtggaacatgattgcttga-acaacagttttgcagaattagtttacgtttattaat--tcagagctctgtctctgttcttttatggactagcagGTTGAGAATCTGGCTGAAAGGATGGTTAAATGGTTGAAAGTTGGTGGTTTTCTCTTCCTTAGAGAGTCTTCTTTTCATCAATCGGGTGATTTTCAAAGCAMapped 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|208170029|gb|GD967024.1|GD967024EST: TTGATCTGATGTTCTCCAATTGGTTACTCATGTATCTTTCAGATAAAGAG GTTGAGAATTTAGCTGCAAGGATGATCAAATGGTTAAAAGTTGGTGGATAT
genomic: TTGATCTGATGTTCTCCAATTGGTTACTCATGTATCTTTCAGATAAAGAGgtgagttttt ... ttcgtttcagGTTGAGAATTTAGCTGCAAGGATGATCAAATGGTTAAAAGTTGGTGGATAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttccctcttcctccttatagttaaggcttttattatttcccttgattcgtttcagGTTGAGAATTTAGCTGCAAGGATGATCAAATGGTTAAAAGTTGGTGGATATGTATTCTTCAGAGAATCATGTTTCCACCAATCTGGAGATTCCAAGAGAA
ccttgat putative branch site (score: 5)
ttcgtttc CT-rich tract
ttttattattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagaaatagtgacattgcttccttgtcactactttttttttttctttccctcttcctccttatagttaaggcttttattatttcccttgattcgtttcagGTTGAGAATTTAGCTGCAAGGATGATCAAATGGTTAAAAGTTGGTGGATATGTATTCTTCAGAGAATCATGTTTCCACCAATCTGGAGATTCCAAGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - -tgcttcc
- - - - - - - - - - - -tgtcact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cccttga