Sequence
atgc intronic sequence ATGC exonic sequencegtttgtcataagcactgaattgtactcctgtgatcatgtctgtactctgtacactgatgacattattgatcaaatcagGTTTGGGACTACCAGACAAAGAGCTGTGTTCAAACACTTGAAGGACATGCACATAATGTGTCCGCTGTATGTTTCCATCCAGAGCTACCTATAATTATTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G124886_T04 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os02g11830.2 (Oryza sativa), 3'ss of exon 7
gtttgtcataagcactgaattgtactcctgtgatcatgtctgtactctgtacactgatgacattattgatcaaatcagGTTTGGGACTACCAGACAAAGAGCTGTGTTCAAACACTTGAAGGACATGCACATAATGTGTCCGCTGTATGTTTCCATCCAGAGCTACCTATAATTATTA
|| || ||| ||| |||||| | | ||||| || | || || ||| | || | || | ||||||||||||||||| || || ||||||||||||||||| ||||||||||||||||||||||| || ||||| ||||||||||| ||| |||||||||| |||
gtatgccatctgcagtgaattat---cttgtgagtatat-tggacattgtt-----acgagacacttcgttgaatcagGTTTGGGACTATCAAACGAAGAGCTGTGTTCAAACGCTTGAAGGACATGCACATAATGTCTCTGCTGTTTGTTTCCATCCGGAGTTACCTATAATACTTA
upper sequence: GRMZM2G124886_T04 (Zea mays), 3'ss of exon 7
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 11
---------------------------------------------------gtttgtcataagcactgaattgtact-cctgtgatcatgtctgtac-----------tctgtacactgatgaca--ttattgatcaaatcagGTTTGGGACTACCAGACAAAGAGCTGTGTTCAAACACTTGAAGGACATGCACATAATGTGTCCGCTGTATGTTTCCATCCAGAGCTACCTATAATTATTA
| |||| || | ||||| | ||| | || || | | |||| | || | | | || | | || ||||| ||||| ||||| |||||||| || ||||| || || ||||| ||| |||| ||||| || || |||| ||| |||||||||||||||||||||||||
gtctgtactgagctttcttgcttctttgcaagttgtttgctacatatgtgtgcttgt-atgtatctccatttgtattgtttgtatataggttcgtgcagggttttctgtttgtatattgttcataaatttcttctggaagcagGTGTGGGATTACCAAACAAAGAGTTGCGTTCAGACTCTCGAAGGTCATACACACAATGTTTCTGCAGTATCTTTTCATCCAGAGCTACCTATAATTATTA
upper sequence: GRMZM2G124886_T04 (Zea mays), 3'ss of exon 7
lower sequence: AT1G52360.1 (Arabidopsis thaliana), 3'ss of exon 7
---------gtttgtcataagcactgaattg---tactcctgt--gatcatgtctgtactctgtacactgatgacatta-ttgatcaaatcagGTTTGGGACTACCAGACAAAGAGCTGTGTTCAAACACTTGAAGGACATGCACATAATGTGTCCGCTGTATGTTTCCATCCAGAGCTACCTATAATTATTA
| | || | | | ||| | | || || | | || || | | | | | | | || |||||||| ||||||||||| ||||| || ||||| || || || || || || |||| ||||| || || |||||||||||||||||||| || || || || |
gtatgcctcctgttcaatggtcttttagttgatacatttctactggacattatgtgctttcaggttatttactagttgaatttcgtgaatcagGTCTGGGACTACCAAACAAAAAGTTGTGTACAGACCCTGGAGGGGCACACACACAATGTATCTGCAGTATGTTTCCATCCAGAGCTTCCAATTATAATCA
upper sequence: GRMZM2G124886_T04 (Zea mays), 3'ss of exon 7
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 7
--gtttgtcataagc------actgaattgt----actcctgtg-atcatgtctgtactctgtacactgatgacattattgatcaaatcagGTTTGGGACTACCAGACAAAGAGCTGTGTTCAAACACTTGAAGGACATGCACATAATGTGTCCGCTGTATGTTTCCATCCAGAGCTACCTATAATTATTA
|||| || | || ||| ||| | | | |||| || | || | | | | |||| | ||| ||| | || ||||| ||||||||||| || || || |||||||| ||||| ||||| || |||| ||||| || | || ||||||||||||||||| ||||| ||| |||
gtgtttatctgatgcttattgactaaatagcttccatttatgtgcattccatttg-attactttctgtgattaaatt-ttggtggaa-cagGTGTGGGACTACCAAACCAAAAGTTGTGTTCAGACACTAGAAGGCCACACACACAATGTTTCTTCAGTCTGTTTCCATCCAGAGCTTCCTATTATTTTTA
upper sequence: GRMZM2G124886_T04 (Zea mays), 3'ss of exon 7
lower sequence: PP1S61_1V6.1 (Physcomitrella patens), 3'ss of exon 7
-------------------------------------------------------------------------------------------------------------------gtttgtcataagcactgaattgtactcctgtgatcatgtctgtactctgtacactgatgacattattgat-caaatcagGTTTGGGACTACCAGACAAAGAGCTGTGTTCAAACACTTGAAGGACATGCACATAATGTGTCCGCTGTATGTTTCCATCCAGAGCTACCTATAATTATTA
|| ||| | || | | ||| || | |||| | ||| | | || | | ||||||||||| || ||||| |||||||| ||||||||||| ||||||||| | || || || || || || |||||||| || || || || || |||
gtaatgactttatcttgtctgttgctaatcttaattctccaggtcaatataactgaaagacttggttctataaggctttcgggatttgcatgagtatcatttttgacatagcatgacttactgtaatccatgt-tcgattaaatgtattctgatgtgtagttcagtaacttacaattttttccttgtcgggcagGTTTGGGATTATCAGACCAAGAGCTGCGTTCAAACACTGGAAGGACATACTCACAACGTATCTGCAGTGGCATTCCATCCTGACCTGCCAATTATCCTTAMapped 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|78107583|gb|DV526001.1|DV526001EST: GTGGTGATCGACCATACCTAATTACTGGCTCTGATGATCAGACTGCAAAG GTTTGGGACTACCAGACAAAGAGCTGTGTTCAAACACTTGAAGGACATGCA
genomic: GTGGTGATCGACCATACCTAATTACTGGCTCTGATGATCAGACTGCAAAGgtttgtcata ... atcaaatcagGTTTGGGACTACCAGACAAAGAGCTGTGTTCAAACACTTGAAGGACATGCA
EST:
gi|50325003|gb|CO520129.1|CO520129EST: GTGGTGATCGACCATACCTAATTACTGGCTCTGATGATCAGACTGCAAAG GTTTGGGACTACCAGACAAAGAGCTGTGTTCAAACACTTGAAGGACATGCA
genomic: GTGGTGATCGACCATACCTAATTACTGGCTCTGATGATCAGACTGCAAAGgtttgtcata ... atcaaatcagGTTTGGGACTACCAGACAAAGAGCTGTGTTCAAACACTTGAAGGACATGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actcctgtgatcatgtctgtactctgtacactgatgacattattgatcaaatcagGTTTGGGACTACCAGACAAAGAGCTGTGTTCAAACACTTGAAGGACATGCACATAATGTGTCCGCTGTATGTTTCCATCCAGAGCTACCTATAATTATTA
tattgat putative branch site (score: 3)
attattgatcaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtcataagcactgaattgtactcctgtgatcatgtctgtactctgtacactgatgacattattgatcaaatcagGTTTGGGACTACCAGACAAAGAGCTGTGTTCAAACACTTGAAGGACATGCACATAATGTGTCCGCTGTATGTTTCCATCCAGAGCTACCTATAATTATTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT