Sequence
atgc intronic sequence ATGC exonic sequence...tgttccttttaattattctttttcaacgaaaaacaaacttggttagagtgagtttcttcgtgcattgaaattgaagttacattgcgtgaatgtttagcagATTTCGTCGTTTAGAGAGAGCAAGTCAGATGATCGGCGTTTCTATATATTTACAGCAACGAAGACCCTCCATCTGAGAACTGATTCAAGGAAAGATCGCG
Basic information
species | Glycine max |
transcript | GLYMA01G41940.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G41940.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G22540.3 (Arabidopsis thaliana), 3'ss of exon 1
------------------------tgttccttttaattatt-ctttttcaacgaaaaacaaacttggttagagtgagtttcttcgtgcattga--aattgaagttaca-ttgcgtgaatgttt-agcagATTTCGTCGTTTAGAGAGAGCAAGTCAGATGATCGGCGTTTCTATATATTTACAGCAACGAAGACCCTCCATCTGAGAACTGATTCAAGGAAAGATCGCG
|| | || | | | |||| | ||| | | || || | ||| | | |||| || | | || ||||| ||||| |||| || || ||||| |||||||| |||||| | ||||||||||| |||||||| |||||||| ||| |||| |||||||| | | ||| | |
gtaagttttctttttctagtttgatgatatttgtggtcacaactttcttttttgcttttgtggttgaaaatgaaaacttgctgttttgattaagtacttgagcttgtaactatgtttttgtttcagcagGTTTCTTCTTTCAGAGAAAGCAAGTCTGATGATAGAAAGTTCTATATATTCACAGCAACAAAGACCCTTCATTTGAGGACTGATTCTATAACTGATAGAG
upper sequence: GLYMA01G41940.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G22540.2 (Arabidopsis thaliana), 3'ss of exon 1
------------------------tgttccttttaattatt-ctttttcaacgaaaaacaaacttggttagagtgagtttcttcgtgcattga--aattgaagttaca-ttgcgtgaatgttt-agcagATTTCGTCGTTTAGAGAGAGCAAGTCAGATGATCGGCGTTTCTATATATTTACAGCAACGAAGACCCTCCATCTGAGAACTGATTCAAGGAAAGATCGCG
|| | || | | | |||| | ||| | | || || | ||| | | |||| || | | || ||||| ||||| |||| || || ||||| |||||||| |||||| | ||||||||||| |||||||| |||||||| ||| |||| |||||||| | | |||
gtaagttttctttttctagtttgatgatatttgtggtcacaactttcttttttgcttttgtggttgaaaatgaaaacttgctgttttgattaagtacttgagcttgtaactatgtttttgtttcagCAGGTTTCTTCTTTCAGAGAAAGCAAGTCTGATGATAGAAAGTTCTATATATTCACAGCAACAAAGACCCTTCATTTGAGGACTGATTCTATAACTGATA---
upper sequence: GLYMA01G41940.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G22540.1 (Arabidopsis thaliana), 3'ss of exon 1
--------tgttccttttaattattctttttcaacgaaaaac-aaacttggttagagtgagtttcttcgtgcattgaaattgaagttacattgcgtgaatgtttagcagATTTCGTCGTTTAGAGAGAGCAAGTCAGATGATCGGCGTTTCTATATATTTACAGCAACGAAGACCCTCCATCTGAGAACTGATTCAAGGAAAGATCGCG
|||| || | ||||| |||| ||| | | | ||| | || | |||| ||| | || || | | || ||||| |||| || || ||||| |||||||| |||||| | ||||||||||| |||||||| |||||||| ||| |||| |||||||| | | ||| | |
tttgtggtcacaactttcttttttgcttttgtggttgaaaatgaaaacttgctgttttga----ttaagtac-ttgagcttgtaactatgtt---tttgt-ttcagcagGTTTCTTCTTTCAGAGAAAGCAAGTCTGATGATAGAAAGTTCTATATATTCACAGCAACAAAGACCCTTCATTTGAGGACTGATTCTATAACTGATAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagtgagtttcttcgtgcattgaaattgaagttacattgcgtgaatgtttagcagATTTCGTCGTTTAGAGAGAGCAAGTCAGATGATCGGCGTTTCTATATATTTACAGCAACGAAGACCCTCCATCTGAGAACTGATTCAAGGAAAGATCGCG
attgaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgttccttttaattattctttttcaacgaaaaacaaacttggttagagtgagtttcttcgtgcattgaaattgaagttacattgcgtgaatgtttagcagATTTCGTCGTTTAGAGAGAGCAAGTCAGATGATCGGCGTTTCTATATATTTACAGCAACGAAGACCCTCCATCTGAGAACTGATTCAAGGAAAGATCGCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
-gttcctt
- - - - - - - - - - - - - - - aaacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcgtga