Sequence
atgc intronic sequence ATGC exonic sequence...aatccttcaaagtgactaatttggtgacataaatatttgataacatcagactgaatattgtttcttaagttatctgaagatacttcgattctttatatagGTCATGGAAAAGAGCAACTTCAAGATAGTGACTGATGATGAGATTGATGTTGCACATTCAGGCCAATATCTTCTAAATCTTCCCATTACTGTTGATGAAT
Basic information
species | Glycine max |
transcript | GLYMA19G27800.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G27800.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os12g29550.1 (Oryza sativa), 3'ss of exon 3
aatccttcaaagtgactaatttggtgacataaatatttgataacatcagactgaa--tattgtttcttaagttatctgaagatacttcgattct---ttatatagGTCATGGAAAAGAGCAACTTCAAGATAGTGACTGATGATGAGATTGATGTTGCACATTCAGGCCAATATCTTCTAAATCTTCCCATTACTGTTGATGAAT
|| | ||| | ||| ||||| | | | | | | | | |||| | || | || | || | | || | ||| ||| |||| ||||||||||||||||||||| | | ||||||| ||| |||||||||||| || || ||||||||||||| |||||||| | ||||||||
-atgatgcaagacacccaatc----gacatcgttgtaacaaagctcttgcatagagttattttatcctgtgtgagttgtaactgtttggtctctgttttaatcagGTTATGGAAAAGAGCAACTTCAAGTTGTTATCTGATGAAGAGTATGATGTTGCACAATCTGGAAAATATCTTCTAAACCTTCCCATAAAAGTTGATGAGC
upper sequence: GLYMA19G27800.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G161168_T02 (Zea mays), 3'ss of exon 3
----------------------------------------aatccttcaaagtgactaatttgg--tgacataaatatttgataacatcagactgaatattgtttcttaagttatctgaagatacttcgattctttatatagGTCATGGAAAAGAGCAACTTCAAGATAGTGACTGATGATGAGATTGATGTTGCACATTCAGGCCAATATCTTCTAAATCTTCCCATTACTGTTGATGAAT
| ||| ||| | || || || | | || | | || || ||||| | | | | || | | | | |||| |||||||||||||| || || ||||| | ||| |||||| |||| |||| ||||| || |||||||| | ||||||||||||| ||||||||||
gtaaaggacctattccgggagaaataactattgataggtttaacctccaagtgaaggaaggaggcatggagcagtttctttgtgaatccaaac---atattctgtaaaagcgctctttaaagtgtccttacttgaagtgcagGTGATGGAAAAGAGCAATTTTAACATAGTAAATGACGATGAGGTTGAACTTGCTCATTCTGGACAATATCTGTTGAATCTTCCCATTAAAGTTGATGAAT
upper sequence: GLYMA19G27800.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0068g01000.t01 (Vitis vinifera), 3'ss of exon 3
---aatccttcaaagtgactaatttggtgacataaatatttgataacatcagactgaatattgtttcttaagttatctgaagatacttcgattctttatatagGTCATGGAAAAGAGCAACTTCAAGATAGTGACTGATGATGAGATTGATGTTGCACATTCAGGCCAATATCTTCTAAATCTTCCCATTACTGTTGATGAAT
| | | || || ||| || | | | | || || | ||| ||||| || | | | || | |||||| |||| ||||| ||||||||||||||||||| ||||| || |||||||||||||| | ||||| || ||||| |||||||||||||| || ||||||||||
gtgcacgtgtgagagagagatgttttgttatgttttaaacttatcttctccatttctttatcgtttcc---attttttttcctttctctcttcttttatacagGTGATGGAGAAGAGCAACTTCAAGATAGCAACTGAGGAAGAGATTGATGTTGCTCTCTCAGGGCAGTATCTCCTAAATCTTCCCATCACAGTTGATGAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcagactgaatattgtttcttaagttatctgaagatacttcgattctttatatagGTCATGGAAAAGAGCAACTTCAAGATAGTGACTGATGATGAGATTGATGTTGCACATTCAGGCCAATATCTTCTAAATCTTCCCATTACTGTTGATGAAT
ttctttat CT-rich tract
aatattgtttcttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatccttcaaagtgactaatttggtgacataaatatttgataacatcagactgaatattgtttcttaagttatctgaagatacttcgattctttatatagGTCATGGAAAAGAGCAACTTCAAGATAGTGACTGATGATGAGATTGATGTTGCACATTCAGGCCAATATCTTCTAAATCTTCCCATTACTGTTGATGAAT
- tccttca
- - - - - -gtgacta
- - - - - - - - - - -tggtgac
- - - - - - - - - - - - - - - - - - - - - - - - gactgaa