Sequence
atgc intronic sequence ATGC exonic sequencegtgtgagatcctaaatgaagtgttatatatatgccctatttgatgactgatagcatttgtcagctaatagttttcaaattgatacagGGATATTGGATGGTCAAGAGAGCTGTAGGAACCAAAGCTTGCCTCTTAGGAAAAGCTGTGACTTGTAAATACTTTAGACAAGATAATTTTTTGGAG
Basic information
species | Glycine max |
transcript | GLYMA13G22460.1 |
intron # | 19 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G22460.1 (Glycine max), 3'ss of exon 19
lower sequence: GRMZM2G160927_T01 (Zea mays), 3'ss of exon 7
gtgtg-agatcctaaatgaagtgttatatatatgccctatttgatgactgatagcatttgtcagctaatagttttcaaattgatacagGGATATTGGATGGTCAAGAGAGCTGTAGGAACCAAAGCTTGCCTCTTAGGAAAAGCTGTGACTTGTAAATACTTTAGACAAGATAATTTTTTGGAG
|| || | || || ||| || ||| || || || | | | | ||||| || | | ||||| ||||| ||||||||||| ||| | ||||||||||| ||||||||||| | || ||||| || || || || || || | || ||||| ||| |||||
gtatgcatgtcttagctgatgtacagtat-taccatgcatgtggtaatttgtt---catgtcaacttttg--catgaaattatgtcagGGTTATTGGATGGTTAAGCGTGCTGTAGGAACAAAAGCTTGCCTTCTGGGCAAAGCAGTAACGTGCAATTATCTTCGCCAGGATAACTTTCTGGAG
upper sequence: GLYMA13G22460.1 (Glycine max), 3'ss of exon 19
lower sequence: AT5G35180.4 (Arabidopsis thaliana), 3'ss of exon 22
gtgtgagatcctaaatgaagtgttatatatatgccctatttgatgactgatagcatttgtcagctaatagttttcaaattga--tacagGGATATTGGATGGTCAAGAGAGCTGTAGGAACCAAAGCTTGCCTCTTAGGAAAAGCTGTGACTTGTAAATACTTTAGACAAGATAATTTTTTGGAG
|||| || | | | | | ||| | || || |||| | || ||| ||| |||||||||||||||||||||| | ||||| ||||| ||||| ||| | | || ||||||||||| ||||| ||| | || || ||||| |||||||||
----------gtaaagaaactctgctcttctcgtttccactgaaatatagtaaacttagtcacattgtaaccgtcatggtgaatcacagGGATATTGGATGGTCAAGCGGGCTGTTGGAACAAAAGCCTGCTTGCTCGGTAAAGCTGTGACCTGTAAGTACCTGAGGCAGGATAACTTTTTGGAG
upper sequence: GLYMA13G22460.1 (Glycine max), 3'ss of exon 19
lower sequence: PP1S279_16V6.1 (Physcomitrella patens), 3'ss of exon 17
--------------------------------------------------------------------------------gtgtgagatcctaaatgaagtgtta--tatatatgccctatttg-atgac--tgatagcatttgtcagctaatagttttcaaattgatacagGGATATTGGATGGTCAAGAGAGCTGTAGGAACCAAAGCTTGCCTCTTAGGAAAAGCTGTGACTTGTAAATACTTTAGACAAGATAATTTTTTGGAG
| | | | || | || || | | | || |||| | || || | | ||| | | | | | | | ||||| || ||| | || ||| | ||||| || || ||||| ||||| ||||| |||||||| |||||||| |||||||| ||||||||||| | |||
gtaagataatttgtcattggggtgattcctcttctcactcttctgaataagaaacaactcctgcaagaagttttttgtcacttcaatacgcacaagaacatgataatcttgtgaggactttttgtacaaccttggccgtgtatgtgaaacgtttgcgattgcaattgtgcagGGTTACTGGGTTGTGAAGCGTGCTGTTGGCACTAAAGCGTGCCTTTTAGGCAAAGCTGTTACTTGTAATTACTTTAGGGAAGATAATTTTCTCGAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|209702497|gb|BW667129.1|BW667129EST: GTGATGCATTTCGAGACTCAAGATTCAAACTTATTCCAAGTATAGTTGAG GGATATTGGATGGTCAAGAGAGCTGTAGGAACCAAAGCTTGCCTCTTAGGA
genomic: GTGATGCATTTCGAGACTCAAGATTCAAACTTATTCCAAGTATAGTTGAGgtgtgagatc ... attgatacagGGATATTGGATGGTCAAGAGAGCTGTAGGAACCAAAGCTTGCCTCTTAGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gccctatttgatgactgatagcatttgtcagctaatagttttcaaattgatacagGGATATTGGATGGTCAAGAGAGCTGTAGGAACCAAAGCTTGCCTCTTAGGAAAAGCTGTGACTTGTAAATACTTTAGACAAGATAATTTTTTGGAG
taatagttttcaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgagatcctaaatgaagtgttatatatatgccctatttgatgactgatagcatttgtcagctaatagttttcaaattgatacagGGATATTGGATGGTCAAGAGAGCTGTAGGAACCAAAGCTTGCCTCTTAGGAAAAGCTGTGACTTGTAAATACTTTAGACAAGATAATTTTTTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG