Sequence
atgc intronic sequence ATGC exonic sequence...aaagtttacctaataaaatactaaaaatataattaacatgttcaatagtattatatgtatctttattaaaggatttatctaggaatcacacttttttcagATATGCTTTGTATGGTGAAGTTTCTCCAAAACTAGACGTATATGCTTTTGGAATTGTTTTATATGAAATAATATCCGGAAGAACAGCCATTTCAATTGCA
Basic information
species | Physcomitrella patens |
transcript | PP1S97_105V6.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S97_105V6.1 (Physcomitrella patens), 3'ss of exon 10
lower sequence: GLYMA14G05060.1 (Glycine max), 3'ss of exon 7
aaagtttacctaataaaatactaaaaatataattaacatgttcaatagtattatatgt-atctttattaaaggatttatctaggaatcacacttttttcagATATGCTTTGTATGGTGAAGTTTCTCCAAAACTAGACGTATATGCTTTTGGAATTGTTTTATATGAAATAATATCCGGAAGAACAGCCATTTCAATTGCA
| || | || | | | | || | || | || || | ||| | | | | | | ||| ||||| | | | ||| | |||||||||| |||||||| ||||||||||| |||| ||||||||||||||| ||||| | |||||| | || || | || | || | || ||
tatcttaaactttttgattgcggaaggaa-aacgagcactttagttttaattttgtatgaacagaactaattattttattgattacctgaattttctgcagATATGCTCAATATGGTGACATTTCTCCAAAAGTAGATGTATATGCTTTTGGAGTTGTTCTTTATGAACTTATTTCTGCAAAGAATGCTGTCCTAAAGACA
upper sequence: PP1S97_105V6.1 (Physcomitrella patens), 3'ss of exon 10
lower sequence: GLYMA02G43860.1 (Glycine max), 3'ss of exon 9
-aaagtttacctaataaaatactaaaaatataattaacatgttcaatagtattatatgtatctttattaaag--gatttatctaggaatcacacttttttcagATATGCTTTGTATGGTGAAGTTTCTCCAAAACTAGACGTATATGCTTTTGGAATTGTTTTATATGAAATAATATCCGGAAGAACAGCCATTTCAATTGCA
| | ||| || | | | || | | ||| | | |||| ||| | | | | | ||| ||||| | | | || | |||||||||| |||||||| ||||||||||| |||| ||||||||||||||| | ||| | |||||| | || || | || | || || || ||
gagatcttatctta---atctttttaattgtggaaaacgagccctttagttttaattttgtatgaacaaaacttattttattgattacctggatttcctgcagATATGCTCAATATGGTGACATTTCTCCAAAAGTAGATGTATATGCTTTTGGAGTGGTTCTTTATGAACTTATTTCTGCAAAGAATGCTGTTCTAAAGACA
upper sequence: PP1S97_105V6.1 (Physcomitrella patens), 3'ss of exon 10
lower sequence: GLYMA20G11530.1 (Glycine max), 3'ss of exon 7
aaagtttacctaataaaatactaaaaatataattaacatgttcaat-agtattatatgtatctttattaaaggatttatctaggaatcac----acttttttc--agATATGCTTTGTATGGTGAAGTTTCTCCAAAACTAGACGTATATGCTTTTGGAATTGTTTTATATGAAATAATATCCGGAAGAACAGCCATTTCAATTGCA
|| || |||| | | || | | |||| | ||| ||| || | | | || ||| | |||||| | ||| || || |||| || || |||||| ||||| || |||||||| ||| ||||||| |||||||||||| ||||| | |||||| | || || | | ||| ||| | |
---gtatatctaa-gatttgctttcattgaaattca---gttaaatgagaagttcacgtttctgtgcatgtggatttgtttagtgattaccatggctttgtttgaagGTATGCTCAATATGGAGATGTTTCTCCCAAAGTAGACGTGTATGCTTTTGGAGTTGTTCTTTATGAACTTATTTCGGCTAAGGAAGCAATTGTCAAGACG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagtattatatgtatctttattaaaggatttatctaggaatcacacttttttcagATATGCTTTGTATGGTGAAGTTTCTCCAAAACTAGACGTATATGCTTTTGGAATTGTTTTATATGAAATAATATCCGGAAGAACAGCCATTTCAATTGCA
cacttttttc CT-rich tract
ttatatgtatctttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaagtttacctaataaaatactaaaaatataattaacatgttcaatagtattatatgtatctttattaaaggatttatctaggaatcacacttttttcagATATGCTTTGTATGGTGAAGTTTCTCCAAAACTAGACGTATATGCTTTTGGAATTGTTTTATATGAAATAATATCCGGAAGAACAGCCATTTCAATTGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC