Sequence
atgc intronic sequence ATGC exonic sequence...gtccctttgacaaatacaacatgtgcctatcttattacaaaagcagaaccatttgctgaagatatcaggacgaaaaataaatcttctatccactatgcagGTACCCTGCAATAAACAAACCTGCTGGGGTTGTACACTGGCTTAAACATAGTAAGGAGGCAAAAAATGTTGATTGGGTTGTCATTCTGGATGCAGACATG
Basic information
species | Glycine max |
transcript | GLYMA19G07790.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G07790.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G177198_T01 (Zea mays), 3'ss of exon 6
gtccctttgacaaatacaacatgtgcctatcttattacaaaagcagaaccatttgctgaagatatcaggacgaaaaataaatcttctatccactatgcagGTACCCTGCAATAAACAAACCTGCTGGGGTTGTACACTGGCTTAAACATAGTAAGGAGGCAAAAAATGTTGATTGGGTTGTCATTCTGGATGCAGACATG------
|| ||| | | | ||| ||| | || | ||| | |||| | | | | | || |||| | |||||||||||||||||||||||||| | ||| | || ||||| || ||| || | ||| ||| | |||| || || ||||| || |||
-------------gtataacct---cttggttta--acagtctctaaagctattgttcaagacaacccgctcata--tagttcttttgct--------agGTACCCTGCAATAAACAAACCTGCAGCAGTTCTCCATTGGCTCAATCATGTGCAGACTG------ATGCTGAGTTCCTTGTTATCCTAGATGCTGATATGATCATG
upper sequence: GLYMA19G07790.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv14s0219g00080.t01 (Vitis vinifera), 3'ss of exon 1
--gtccctttgacaaatacaacatgtgcctatcttattacaaaagcagaaccatttgctgaagatatcaggacgaaaaataaatct-tctatcc--actatgcagGTACCCTGCAATAAACAAACCTGCTGGGGTTGTACACTGGCTTAAACATAGTAAGGAGGCAAAAAATGTTGATTGGGTTGTCATTCTGGATGCAGACATG
| | | || | | || || || | ||||| || | || | | | || | | |||| | || | | | ||| | || ||||| |||||||| || ||||| ||||| | || || ||||||||||||||||| || ||| | ||||||||||||||||| ||| | ||||| ||||||
ttgagcttctgt--agcttcatattcttctctccccctgcaaaatcactaa-atatctttattggatt--gccaaaaattttatttgtgtgtccttgttctgtagGTATCCTGCAATTAATAAACCAGCTGGAATCGTCCATTGGCTTAAACATAGTAAAGATGCAGAGAATGTTGATTGGGTTGTGATTTTAGATGCTGACATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaccatttgctgaagatatcaggacgaaaaataaatcttctatccactatgcagGTACCCTGCAATAAACAAACCTGCTGGGGTTGTACACTGGCTTAAACATAGTAAGGAGGCAAAAAATGTTGATTGGGTTGTCATTCTGGATGCAGACATG
tcttctatcc CT-rich tract
aaaaataaatcttcta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtccctttgacaaatacaacatgtgcctatcttattacaaaagcagaaccatttgctgaagatatcaggacgaaaaataaatcttctatccactatgcagGTACCCTGCAATAAACAAACCTGCTGGGGTTGTACACTGGCTTAAACATAGTAAGGAGGCAAAAAATGTTGATTGGGTTGTCATTCTGGATGCAGACATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- ccctttg
- - - - - - - - - -catgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - -tgctgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaataa