Sequence
atgc intronic sequence ATGC exonic sequencegtaagttgctttcaataaacactgtaaaactcttgtagtgtgtttatgagagtatgtcaactgaaattgcagGACTGGGCAGATCTGTGGCGGCCCGATCTTGCAGGGAGGATTTCAATGGTTGATTCTCCCCGAGAAGTTATTGGAGCAGTTTTGAAGTATATGGGGGCTT
Basic information
species | Glycine max |
transcript | GLYMA16G17320.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G17320.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G129071_T01 (Zea mays), 3'ss of exon 3
------------------------------------------------------------------------------------------------------gtaagttgctttcaataaacactgtaaaactcttgt------------agtgtgtttatgag---agtatgtcaa--ctgaaattgcagGACTGGGCAGATCTGTGGCGGCCCGATCTTGCAGGGAGGATTTCAATGGTTGATTCTCCCCGAGAAGTTATTGGAGCAGTTTTGAAGTATATGGGGGCTT
| | || | | | | ||| | ||| || | | | |||| | | || || | | | | || |||| |||| ||| ||||| ||||||| ||||| ||||||||||||||||| |||||||| |||| || ||||| || ||| ||||| || |||| | |
gtgaacatttttctttgagaaaagtatgcaatattagcctaaacctacaaagggcatgtttgtaggcttccctttttctatggaaatggaaatgtgaaggatagtactaactaccgagacatacttttttgctcgtgcttattgatgctgactatctttaggtgttaagcatattgatcttttatctgtagGATTGGGAGGATTTGTGGAGGCCCGAGCTTGCCGGGAGGATTTCAATGGTCGATTCTCCTAGAGAGGTGATTGGTGCTGTTCTGAAGCATCTGGGCTCAT
upper sequence: GLYMA16G17320.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G31410.1 (Arabidopsis thaliana), 3'ss of exon 4
------gtaagttgctttcaataaacactgtaaaactcttgtagtgtgtttatgaga-gtatgtcaactgaaattgc---------agGACTGGGCAGATCTGTGGCGGCCCGATCTTGCAGGGAGGATTTCAATGGTTGATTCTCCCCGAGAAGTTATTGGAGCAGTTTTGAAGTATATGGGGGCTT
|| ||| | | |||| |||| | | || | | | | | || | || ||| | ||| |||||||||| ||||||||||| ||||| |||||||| ||||| ||||||| ||||||| |||| ||| |||| || ||| | || || ||| | || |
gttggtatactttgttgttgctaaatgctgtcttagtgttttcctatttaaaagaagtgaatatcactgaacattttgctgaatttagGACTGGGCTGATCTGTGGCGACCCGAGCTTGCAGGAAGGATCGCAATGGTGAATTCTCCTAGAGAGGTTGTTGGTGCTGTTCTCAAATACATGAGAGCAT
upper sequence: GLYMA16G17320.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv02s0087g00180.t01 (Vitis vinifera), 3'ss of exon 4
----------------------------gtaagttgctttcaataaacactgtaaaactcttgtagtgtgtttatgagagtatgtcaactgaaattgcagGACTGGGCAGATCTGTGGCGGCCCGATCTTGCAGGGAGGATTTCAATGGTTGATTCTCCCCGAGAAGTTATTGGAGCAGTTTTGAAGTATATGGGGGCTT
| || || ||| ||| | | | | || || || || || |||||||||||||||||| | ||||| || || ||||||||||||||||||||| |||||||||| ||||| ||| |||| || ||||| ||||| ||||| || |
ctcatctcattataaaaacttctagctattgctatggatttttcaaaaactttgttttctataaaaaattattctgggactaagtagttgatggttgcagGACTGGGCAGATTTATGGCGACCTGAACTTGCAGGGAGGATTTCAATGATTGATTCTCCACGAGAGGTTGTTGGTGCTGTTTTAAAGTACATGGGAGCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacactgtaaaactcttgtagtgtgtttatgagagtatgtcaactgaaattgcagGACTGGGCAGATCTGTGGCGGCCCGATCTTGCAGGGAGGATTTCAATGGTTGATTCTCCCCGAGAAGTTATTGGAGCAGTTTTGAAGTATATGGGGGCTT
tgtaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttgctttcaataaacactgtaaaactcttgtagtgtgtttatgagagtatgtcaactgaaattgcagGACTGGGCAGATCTGTGGCGGCCCGATCTTGCAGGGAGGATTTCAATGGTTGATTCTCCCCGAGAAGTTATTGGAGCAGTTTTGAAGTATATGGGGGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG