Sequence
atgc intronic sequence ATGC exonic sequence...tgcatttttccatctacagcctttgtctacctctttttagtttttactatctagctatttcctaatgagtggtttttcaattgatgctttttgtgtgtagACTGAGTGGACGAGAGAAGAGGATGAGAAGCTACTTCATCTTGCTAAGCTTATGCCCACACAGTGGAGAACAATTGCTCCAATTGTTGGCCGTACCCCTT
Basic information
species | Glycine max |
transcript | GLYMA10G30870.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G30870.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os04g28090.1 (Oryza sativa), 3'ss of exon 1
---tgcatttttccatctacagcctttgtctacctctttttagtttttactatctagctatttcctaatgagtggtttttcaattgatgctttttgtgtgtagACTGAGTGGACGAGAGAAGAGGATGAGAAGCTACTTCATCTTGCTAAGCTTATGCCCACACAGTGGAGAACAATTGCTCCAATTGTTGGCCGTACCCCTT
| |||| ||| || | | | ||| | ||||| | | || | | | | | || | | || ||| | ||||||| ||||| || ||||||||||||||| |||| ||||||||||| || ||||| || |||||||| |||||||| || |||||||| || || || |
ggttctatttgagcataaccaat-tgcacttgcagatttgtcacaccaactatt--attctctcattttattttctgtgctaactcttttttgttgatggcagACTGAATGGACAAGGGAAGAGGATGAGAAGTTACTGCATCTTGCTAAACTCATGCCTACGCAGTGGAGGACAATTGCACCTATTGTTGGTCGAACACCAT
upper sequence: GLYMA10G30870.1 (Glycine max), 3'ss of exon 1
lower sequence: AC203535.4_FGT001 (Zea mays), 3'ss of exon 1
tgcatttttccatctacagcctttgtc-tacctctttttagttt-ttactatc-tagctatttcctaatgagt--ggtttttcaattgatgctttttgtgtgtagACTGAGTGGACGAGAGAAGAGGATGAGAAGCTACTTCATCTTGCTAAGCTTATGCCCACACAGTGGAGAACAATTGCTCCAATTGTTGGCCGTACCCCTT
| || || || | || | || ||||| | |||| | || | | | ||| | | | | || | || | || | |||| |||||||| || || ||||||||||| |||||||||||||||| || ||||| || |||||||| |||||||| || ||||| || || || || |
-----tgctctattatgggcttatggcataggtctttcttgtttgtcaccaagatgattgtttattgtttctctcactgtgctaactcatctatgttaatttcagACCGAGTGGACAAGGGAGGAGGATGAGAAATTACTTCATCTTGCTAAACTCATGCCTACTCAGTGGAGGACAATTGCACCTATTGTAGGTCGAACACCAT
upper sequence: GLYMA10G30870.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv14s0036g00510.t01 (Vitis vinifera), 3'ss of exon 1
----tgcattt--ttccatctacagcctttgtctacctctttttagtttttactatctagctatttcctaatgagtggtttttcaattgatgctttttgtgtgtagACTGAGTGGACGAGAGAAGAGGATGAGAAGCTACTTCATCTTGCTAAGCTTATGCCCACACAGTGGAGAACAATTGCTCCAATTGTTGGCCGTACCCCTT
|||| || || ||| | || | | | ||| ||| | | | | ||| ||| ||||||| || || | || || | || ||||||| ||||| |||||||| |||||||| |||||||||||||| ||||| ||||| ||||| ||||||||||||||||| |||||||| ||||| ||||
ttggtgcaattgatttcattgtaaaatcttattt--ttgcatttggttcat-ttgtttttctaca-cctggggagtggtgatttaact--cctttattctttgcagACTGAATGGACCAGAGAAGAAGATGAGAAACTACTTCATCTTGCCAAGCTCATGCCAACACAATGGAGAACAATTGCTCCCATTGTTGGACGTACTCCTT
upper sequence: GLYMA10G30870.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S641_1V6.1 (Physcomitrella patens), 3'ss of exon 1
tgcatttttccatctacagcctttgtctacctctttttagtttttactatctagctatttcctaatgagtggtttttcaat-tgatgctttttgtgtgtagACTGAGTGGACGAGAGAAGAGGATGAGAAGCTACTTCATCTTGCTAAGCTTATGCCCACACAGTGGAGAACAATTGCTCCAATTGTTGGCCGTACCCCTT
||| | | ||| | | | | || |||| | | | | || ||| || || ||| || ||| | |||| |||| || ||||| ||||||||||| ||||| || ||||||||||| || ||||||||||| |||||| |||| ||| |||| || ||||| ||||| ||
-taattaatgcttctcgggttagtattgcacgctagttagggtgattcttatttttcaggccggatgtgtctgttgaaaatctggaccttggtttgtgcagACGGAATGGACTAGAGAAGAGGACGAGAAACTCCTTCATCTTGCAAAACTTATGCCCACTCAGTGGCGAACTATTTCTCCCATAGTTGGTCGTACTCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actatctagctatttcctaatgagtggtttttcaattgatgctttttgtgtgtagACTGAGTGGACGAGAGAAGAGGATGAGAAGCTACTTCATCTTGCTAAGCTTATGCCCACACAGTGGAGAACAATTGCTCCAATTGTTGGCCGTACCCCTT
tgcttttt CT-rich tract
tttttcaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcatttttccatctacagcctttgtctacctctttttagtttttactatctagctatttcctaatgagtggtttttcaattgatgctttttgtgtgtagACTGAGTGGACGAGAGAAGAGGATGAGAAGCTACTTCATCTTGCTAAGCTTATGCCCACACAGTGGAGAACAATTGCTCCAATTGTTGGCCGTACCCCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
tgcattt
- - - - -ccatcta
- - - - - - - - - gcctttg
- - - - - - - - - - - - - ctacctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atgagtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatgct